Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr4
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: 31929104
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1434590 characters in sequence are not A, C, G, or T
File 41 of 82
Found at i:15223435 original size:21 final size:21
Alignment explanation
Indices: 15223393--15223438 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15223383 TTTTAAAAGC
15223393 AAAA-AGAAAGAAGGAAAGAG
1 AAAAGAGAAAGAAGGAAAGAG
*
15223413 AAAAGAGAGAGAA-GAAAGAAG
1 AAAAGAGAAAGAAGGAAAG-AG
15223434 AAAAG
1 AAAAG
15223439 CTAGAAGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAAGAGAAAGAAGGAAAGAG
Found at i:15224540 original size:2 final size:2
Alignment explanation
Indices: 15224499--15224530 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15224489 GAATGCTTTG
15224499 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15224531 AGCTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15224955 original size:25 final size:25
Alignment explanation
Indices: 15224902--15224957 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
15224892 TCTGTGATAT
*
15224902 ATATACGTGGCAAGGCCACAGGTTT
1 ATATACGTGGCAAGGCCACAGGTTG
*
15224927 ATATACGTGGCTAGGCCAC-GAGTTG
1 ATATACGTGGCAAGGCCACAG-GTTG
15224952 ATATAC
1 ATATAC
15224958 ATGGTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.25
Consensus pattern (25 bp):
ATATACGTGGCAAGGCCACAGGTTG
Found at i:15226420 original size:26 final size:26
Alignment explanation
Indices: 15226360--15226421 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
15226350 ACCATATACC
*
15226360 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
15226386 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
15226412 CATCATCATC
1 CATCATCATC
15226422 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:15226714 original size:42 final size:42
Alignment explanation
Indices: 15226656--15226736 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
15226646 ATGGGGGCAA
15226656 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
* *
15226698 CAACGGCTTATGTGCACTCCTACTCGCACATAGCCGGGT
1 CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGT
15226737 TCAAATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CAACGGCTTATGTGCACTCCCACTCACACATAGCCGGGTCAG
Found at i:15231917 original size:2 final size:2
Alignment explanation
Indices: 15231910--15231949 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15231900 TCAACAAGTT
15231910 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15231950 NGGCTTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15231964 original size:68 final size:67
Alignment explanation
Indices: 15231883--15232017 Score: 252
Period size: 68 Copynumber: 2.0 Consensus size: 67
15231873 GCCAATCAAT
*
15231883 GGCTTAACATTCTACTGTCAACAAGTTTATATATATATATATATATATATATATATATATATATA
1 GGCTTAACATTCTACTGTCAACAAGTATATATATATATATATATATATATATATATATATATATA
15231948 TA
66 TA
15231950 NGGCTTAACATTCTACTGTCAACAAGTATATATATATATATATATATATATATATATATATATAT
1 -GGCTTAACATTCTACTGTCAACAAGTATATATATATATATATATATATATATATATATATATAT
15232015 ATA
65 ATA
15232018 AATAGAAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (67 bp):
GGCTTAACATTCTACTGTCAACAAGTATATATATATATATATATATATATATATATATATATATA
TA
Found at i:15231983 original size:2 final size:2
Alignment explanation
Indices: 15231976--15232017 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15231966 TGTCAACAAG
15231976 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15232018 AATAGAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15235416 original size:13 final size:13
Alignment explanation
Indices: 15235398--15235430 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15235388 AGCAGAAAGC
15235398 ACTTGGTCGACTA
1 ACTTGGTCGACTA
15235411 ACTTGGTCGACTA
1 ACTTGGTCGACTA
*
15235424 AATTGGT
1 ACTTGGT
15235431 TTTGTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (13 bp):
ACTTGGTCGACTA
Found at i:15267712 original size:42 final size:41
Alignment explanation
Indices: 15267629--15267724 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 41
15267619 TATAGGAATT
* * *
15267629 ATAGG-ATAAAATAATAGTTTTAGTTTATTTGTAGTCTCAC
1 ATAGGAATAAAATAATAGTTTTAGTTTATTTGCAGGCCCAC
* * *
15267669 ATGGGACATAAAATAATAGTTTTTGTTTATTTGCCGGCCCAC
1 ATAGGA-ATAAAATAATAGTTTTAGTTTATTTGCAGGCCCAC
15267711 ATAGGAA-AAAATAA
1 ATAGGAATAAAATAA
15267725 AAAGGCTCTC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 11 0.23
41 1 0.02
42 35 0.74
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (41 bp):
ATAGGAATAAAATAATAGTTTTAGTTTATTTGCAGGCCCAC
Found at i:15268092 original size:2 final size:2
Alignment explanation
Indices: 15268085--15268112 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15268075 AAATAAATAA
15268085 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
15268113 TCTTAGTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15284025 original size:74 final size:74
Alignment explanation
Indices: 15283939--15284079 Score: 246
Period size: 74 Copynumber: 1.9 Consensus size: 74
15283929 AACCTATACT
*
15283939 TATAAATATGTATTCATTAAATGACGATCATTAAAATATTTTTTATTATAATTATTAGTAAGATT
1 TATAAATATGTATTCATCAAATGACGATCATTAAAATATTTTTTATTATAATTATTAGTAAGATT
15284004 TAAACCTAC
66 TAAACCTAC
* * *
15284013 TATAAATGTGTATTCATCAAATGATGATCATTGAAATATTTTTTATTATAATTATTAGTAAGATT
1 TATAAATATGTATTCATCAAATGACGATCATTAAAATATTTTTTATTATAATTATTAGTAAGATT
15284078 TA
66 TA
15284080 TTCATTTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (74 bp):
TATAAATATGTATTCATCAAATGACGATCATTAAAATATTTTTTATTATAATTATTAGTAAGATT
TAAACCTAC
Found at i:15290965 original size:20 final size:20
Alignment explanation
Indices: 15290931--15290970 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15290921 CTATAAATAT
*
15290931 CTCATTTCTCCAGCAGCTTC
1 CTCATTTCTCCAGCACCTTC
* *
15290951 CTCATTTTTCTAGCACCTTC
1 CTCATTTCTCCAGCACCTTC
15290971 TTGTTCTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.07, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAGCACCTTC
Found at i:15291046 original size:2 final size:2
Alignment explanation
Indices: 15291039--15291074 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15291029 GCTTCCATAA
15291039 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15291075 AGCTTCAATT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15291882 original size:37 final size:37
Alignment explanation
Indices: 15291841--15291913 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
15291831 ATGATGTTGA
* * *
15291841 AGTGTGCGAGTAGGGAGTGCACGCATGATGATGATAG
1 AGTGTGCAAGTAGAGAGTGCACACATGATGATGATAG
15291878 AGTGTGCAAGTAGAGAGTGCACACATGATGATGATA
1 AGTGTGCAAGTAGAGAGTGCACACATGATGATGATA
15291914 TTGCATTGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.22
Consensus pattern (37 bp):
AGTGTGCAAGTAGAGAGTGCACACATGATGATGATAG
Found at i:15291967 original size:2 final size:2
Alignment explanation
Indices: 15291960--15291994 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15291950 ATGATGTATG
15291960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15291995 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15292162 original size:30 final size:30
Alignment explanation
Indices: 15292126--15292200 Score: 132
Period size: 30 Copynumber: 2.5 Consensus size: 30
15292116 NNNNNNNNNN
15292126 CGCTGCAGCAAGAAATTTGCTAAAGCTTCT
1 CGCTGCAGCAAGAAATTTGCTAAAGCTTCT
15292156 CGCTGCAGCAAGAAATTTGCTAAAGCTTCT
1 CGCTGCAGCAAGAAATTTGCTAAAGCTTCT
* *
15292186 CGCTGTAGCTAGAAA
1 CGCTGCAGCAAGAAA
15292201 CTCTCGGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (30 bp):
CGCTGCAGCAAGAAATTTGCTAAAGCTTCT
Found at i:15295118 original size:2 final size:2
Alignment explanation
Indices: 15295111--15295143 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
15295101 TGAATAATGG
15295111 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15295144 ATTAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15300772 original size:14 final size:15
Alignment explanation
Indices: 15300740--15300772 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15300730 TGGCGATTTG
15300740 GGGGTGGTACTTAGT
1 GGGGTGGTACTTAGT
*
15300755 GGGGTGGTGCTT-GT
1 GGGGTGGTACTTAGT
15300769 GGGG
1 GGGG
15300773 GCTATGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.06, C:0.06, G:0.58, T:0.30
Consensus pattern (15 bp):
GGGGTGGTACTTAGT
Found at i:15305342 original size:36 final size:36
Alignment explanation
Indices: 15305302--15305413 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 36
15305292 CAAGTACTTG
* * *
15305302 ATTAAAATTATTTAATTAATTTGTTGGGCTTAATTA
1 ATTAAAATTATTTAATTAAGTTATTAGGCTTAATTA
*
15305338 ATT-AAATTATTTAATTAAGTCATTAGG-TCTAATTA
1 ATTAAAATTATTTAATTAAGTTATTAGGCT-TAATTA
* *
15305373 ATTAAAATTATTTAATTAAGTTATTTGACTTAATTA
1 ATTAAAATTATTTAATTAAGTTATTAGGCTTAATTA
15305409 ATTAA
1 ATTAA
15305414 GTTATTGGGC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
34 1 0.02
35 29 0.44
36 35 0.53
37 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (36 bp):
ATTAAAATTATTTAATTAAGTTATTAGGCTTAATTA
Found at i:15305428 original size:22 final size:22
Alignment explanation
Indices: 15305384--15305429 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
15305374 TTAAAATTAT
* *
15305384 TTAATTAAGTTATTTGACTTAA
1 TTAATTAAGTTATTGGACCTAA
*
15305406 TTAATTAAGTTATTGGGCCTAA
1 TTAATTAAGTTATTGGACCTAA
15305428 TT
1 TT
15305430 GTTCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (22 bp):
TTAATTAAGTTATTGGACCTAA
Found at i:15308707 original size:14 final size:15
Alignment explanation
Indices: 15308690--15308718 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15308680 AAGTTTTTGC
15308690 TTTATATAT-ATTTT
1 TTTATATATGATTTT
15308704 TTTATATATGATTTT
1 TTTATATATGATTTT
15308719 CATTTCCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTATATATGATTTT
Found at i:15316722 original size:30 final size:31
Alignment explanation
Indices: 15316681--15316746 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
15316671 CCTCACCTCA
*
15316681 ATCTTAAGAT-AAGATAACTCGATAATGTTTT
1 ATCTTAAGATAAAGA-AACTCGATAATATTTT
* *
15316712 ATCTT-AGATAAAGAAACTTGATGATATTTT
1 ATCTTAAGATAAAGAAACTCGATAATATTTT
15316742 ATCTT
1 ATCTT
15316747 TGTAACAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (31 bp):
ATCTTAAGATAAAGAAACTCGATAATATTTT
Found at i:15319537 original size:21 final size:21
Alignment explanation
Indices: 15319511--15319554 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
15319501 TCTACTAAGC
* *
15319511 AAGTATCGATACTTCATTCAT
1 AAGTATCCATACCTCATTCAT
*
15319532 AAGTATCCATACCTCCTTCAT
1 AAGTATCCATACCTCATTCAT
15319553 AA
1 AA
15319555 AATTCCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.25, G:0.07, T:0.34
Consensus pattern (21 bp):
AAGTATCCATACCTCATTCAT
Found at i:15336318 original size:19 final size:20
Alignment explanation
Indices: 15336296--15336336 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15336286 ACAAAAGAAA
15336296 ATTTTTA-GAATAAAATAAT
1 ATTTTTATGAATAAAATAAT
*
15336315 A-TTTTATTAATAAAATAAT
1 ATTTTTATGAATAAAATAAT
15336334 ATT
1 ATT
15336337 AAAATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 5 0.26
19 13 0.68
20 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTTATGAATAAAATAAT
Found at i:15336704 original size:2 final size:2
Alignment explanation
Indices: 15336697--15336787 Score: 128
Period size: 2 Copynumber: 45.0 Consensus size: 2
15336687 ATAATAATAG
* * * *
15336697 TA TA TA TA AA TA AA TA AA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
15336739 TA TA TA TA TC TA TA TA TA NTA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
15336782 TA TA TA
1 TA TA TA
15336788 GATAAAGATA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
2 76 0.97
3 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:15336710 original size:24 final size:24
Alignment explanation
Indices: 15336685--15336777 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
15336675 ACATATAGTA
15336685 AAAT-AAT-AATAGTATATATAAAT
1 AAATAAATAAATA-TATATATAAAT
*
15336708 AAATAAATAAATATATATATATAT
1 AAATAAATAAATATATATATAAAT
* * * * *
15336732 ATATATATATATATATCTATATAT
1 AAATAAATAAATATATATATAAAT
* * *
15336756 ANTATATATATATATATATATA
1 A-AATAAATAAATATATATATA
15336778 TATATATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 4 0.07
24 34 0.56
25 23 0.38
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (24 bp):
AAATAAATAAATATATATATAAAT
Found at i:15337359 original size:36 final size:34
Alignment explanation
Indices: 15337319--15337392 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 34
15337309 TAATTTTTGT
* *
15337319 AGCTTTGGCTGCTAATTTTTGAAGG-GAAAATAGAGC
1 AGCTTTAGCTGCCAA-TTTTG-AGGAG-AAATAGAGC
*
15337355 AGC-TTAGCTGCCAATTTTGAGGAGAAATAGAGT
1 AGCTTTAGCTGCCAATTTTGAGGAGAAATAGAGC
15337388 AGCTT
1 AGCTT
15337393 AACTGCTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
33 14 0.42
34 7 0.21
35 9 0.27
36 3 0.09
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (34 bp):
AGCTTTAGCTGCCAATTTTGAGGAGAAATAGAGC
Found at i:15337678 original size:25 final size:24
Alignment explanation
Indices: 15337644--15337698 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
15337634 TATGCATATA
15337644 AATGGACATGACCCAATAAGGAAAG
1 AATGGACATGACCCAATAA-GAAAG
* *
15337669 AATGGACATGGCCCAATTAGAAAG
1 AATGGACATGACCCAATAAGAAAG
15337693 AGATGG
1 A-ATGG
15337699 GAAGAGTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.15
Consensus pattern (24 bp):
AATGGACATGACCCAATAAGAAAG
Found at i:15340870 original size:73 final size:72
Alignment explanation
Indices: 15340649--15340860 Score: 291
Period size: 72 Copynumber: 2.9 Consensus size: 72
15340639 AGGTGAATGG
* * * * *
15340649 GGATAGTAAAATGCCCACAAATATAGTTAT-AAGAGTAGATAAGTAAGTCTCTACCCCTTAATTA
1 GGATAGTAAAATGCCTACAAATATAGTTATGAA-AGTAGATGAGTAAGTCTCCACCACTTAATTG
*
15340713 TTAAATGT
65 TTAAACGT
* * *
15340721 GGATAGTAAAATGCCTACAAACATAGTTATGAAAGTGGATGAGTAAGTCTCCACCACTTGATTGT
1 GGATAGTAAAATGCCTACAAATATAGTTATGAAAGTAGATGAGTAAGTCTCCACCACTTAATTGT
15340786 TAAACGT
66 TAAACGT
* * *
15340793 GGATGGTAAAATGCCTACAAATATAAATTATGAAAGTAGATGAGTAAGTCTCCACCACTTAATGG
1 GGATAGTAAAATGCCTACAAATAT-AGTTATGAAAGTAGATGAGTAAGTCTCCACCACTTAATTG
15340858 TTA
65 TTA
15340861 TGGGTGGATG
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
72 82 0.67
73 41 0.33
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (72 bp):
GGATAGTAAAATGCCTACAAATATAGTTATGAAAGTAGATGAGTAAGTCTCCACCACTTAATTGT
TAAACGT
Found at i:15341140 original size:71 final size:71
Alignment explanation
Indices: 15341036--15341225 Score: 202
Period size: 71 Copynumber: 2.7 Consensus size: 71
15341026 ACGTGTATAA
* ** *
15341036 AGGCCAGATGTGGGGGGTCATACCACACGTGACAAGGGCCAAATGTAGG-GCATTATTCCACACG
1 AGGCCAGATGTGGAGCATCATACCACACATGACAAGGGCCAAATGT-GGAGCATTATTCCACACG
*
15341100 AACACTT
65 AACACTC
* * ** * * * **
15341107 AGGCTAGATGTGGGGCATTGTACCACACATGACAAGGGTCAGATGTGGAGCGTTATTCCACATTA
1 AGGCCAGATGTGGAGCATCATACCACACATGACAAGGGCCAAATGTGGAGCATTATTCCACACGA
15341172 ACACTC
66 ACACTC
* * * *
15341178 ATGCCAGATGTGGAGCATCATACGACACATGATAAGGGCTAAATGTGG
1 AGGCCAGATGTGGAGCATCATACCACACATGACAAGGGCCAAATGTGG
15341226 GGTGTCATAC
Statistics
Matches: 96, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 2 0.02
71 94 0.98
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (71 bp):
AGGCCAGATGTGGAGCATCATACCACACATGACAAGGGCCAAATGTGGAGCATTATTCCACACGA
ACACTC
Found at i:15343749 original size:57 final size:57
Alignment explanation
Indices: 15343659--15343769 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
15343649 GCTCATAAAC
*
15343659 CTTCTCTCCTTTTTTGTTATATCAAAAAATAGTTAAAGTAAAGTTAGCGAATAATAT
1 CTTCTCTCCTTTTTTGTTAAATCAAAAAATAGTTAAAGTAAAGTTAGCGAATAATAT
*
15343716 CTTCTCTCCTTTTTTGTTAAATCAAAAAGTAGTTAAAGTAAAGTTAGCGAATAA
1 CTTCTCTCCTTTTTTGTTAAATCAAAAAATAGTTAAAGTAAAGTTAGCGAATAA
15343770 GAGCATGTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (57 bp):
CTTCTCTCCTTTTTTGTTAAATCAAAAAATAGTTAAAGTAAAGTTAGCGAATAATAT
Found at i:15356375 original size:12 final size:13
Alignment explanation
Indices: 15356358--15356395 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
15356348 CCCCTTTCTC
15356358 TCTCTTTC-CTTT
1 TCTCTTTCTCTTT
15356370 TCTCTTTCTCTTT
1 TCTCTTTCTCTTT
*
15356383 TCT-TTTGTCTTT
1 TCTCTTTCTCTTT
15356395 T
1 T
15356396 TATTTTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 17 0.71
13 7 0.29
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (13 bp):
TCTCTTTCTCTTT
Found at i:15356381 original size:18 final size:18
Alignment explanation
Indices: 15356358--15356394 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15356348 CCCCTTTCTC
15356358 TCTCTTTCCTTTTCTCTT
1 TCTCTTTCCTTTTCTCTT
* *
15356376 TCTCTTTTCTTTTGTCTT
1 TCTCTTTCCTTTTCTCTT
15356394 T
1 T
15356395 TTATTTTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (18 bp):
TCTCTTTCCTTTTCTCTT
Found at i:15365948 original size:2 final size:2
Alignment explanation
Indices: 15365941--15365970 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15365931 ACCCCTTAAT
*
15365941 AC AC AC AC AC AC AC AC AC AC AC AA AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15365971 CAAACTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15368324 original size:22 final size:22
Alignment explanation
Indices: 15368232--15368345 Score: 104
Period size: 22 Copynumber: 5.2 Consensus size: 22
15368222 GGACATTATA
* * * *
15368232 TGACTAGTTTTTAGGCATTACG
1 TGACTAATTTTTAAGTATTGCG
* * *
15368254 TTACTAATTTTTAGGTATTGTG
1 TGACTAATTTTTAAGTATTGCG
* * * **
15368276 TGACTGACTTTGAA-TATTATG
1 TGACTAATTTTTAAGTATTGCG
*
15368297 TGACTAATTTTTAAGCATTGCG
1 TGACTAATTTTTAAGTATTGCG
15368319 TGACTAATTTTTAAGTATTGCG
1 TGACTAATTTTTAAGTATTGCG
15368341 TGACT
1 TGACT
15368346 GGTTGATATG
Statistics
Matches: 73, Mismatches: 18, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
21 17 0.23
22 56 0.77
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (22 bp):
TGACTAATTTTTAAGTATTGCG
Found at i:15368386 original size:22 final size:22
Alignment explanation
Indices: 15368335--15368413 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
15368325 ATTTTTAAGT
* * *
15368335 ATTGCGTGACTGGTTGATATGAT
1 ATTGTGTGACTAGTTGATA-GAC
*
15368358 ATTGTGTGACTAGTTGATAGGC
1 ATTGTGTGACTAGTTGATAGAC
15368380 ATTGTGTGACTAGTT-AGTAAGAC
1 ATTGTGTGACTAGTTGA-T-AGAC
15368403 ATTGTGTGACT
1 ATTGTGTGACT
15368414 TAGGCATTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.02
22 17 0.35
23 31 0.63
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (22 bp):
ATTGTGTGACTAGTTGATAGAC
Found at i:15368451 original size:21 final size:21
Alignment explanation
Indices: 15368427--15368494 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
15368417 GCATTGCTTA
*
15368427 AAAATTAGTCACGTAATGCCT
1 AAAATTAGTCATGTAATGCCT
* *
15368448 AAAAATCAGTCATATAATGCCT
1 -AAAATTAGTCATGTAATGCCT
*
15368470 AAAACTAGTCATGTAATGCCT
1 AAAATTAGTCATGTAATGCCT
15368491 AAAA
1 AAAA
15368495 ATCAATTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 22 0.55
22 18 0.45
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (21 bp):
AAAATTAGTCATGTAATGCCT
Found at i:15368453 original size:22 final size:22
Alignment explanation
Indices: 15368425--15368496 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
15368415 AGGCATTGCT
*
15368425 TAAAAATTAGTCACGTAATGCC
1 TAAAAATTAGTCATGTAATGCC
* *
15368447 TAAAAATCAGTCATATAATGCC
1 TAAAAATTAGTCATGTAATGCC
*
15368469 T-AAAACTAGTCATGTAATGCC
1 TAAAAATTAGTCATGTAATGCC
15368490 TAAAAAT
1 TAAAAAT
15368497 CAATTTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 18 0.43
22 24 0.57
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (22 bp):
TAAAAATTAGTCATGTAATGCC
Found at i:15368558 original size:22 final size:22
Alignment explanation
Indices: 15368533--15368574 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
15368523 TTAAGTCACA
15368533 TAATACCTAAAAATCAGTCTTG
1 TAATACCTAAAAATCAGTCTTG
* *
15368555 TAATACTTAAAAATCTGTCT
1 TAATACCTAAAAATCAGTCT
15368575 AATCAATTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (22 bp):
TAATACCTAAAAATCAGTCTTG
Found at i:15369472 original size:133 final size:134
Alignment explanation
Indices: 15369284--15369551 Score: 396
Period size: 133 Copynumber: 2.0 Consensus size: 134
15369274 TTGAAACTAT
* * * *
15369284 TTTAATTTGTTTGAAATTGTTTAAAGGGTATTGTTATGAAGTCATACCAAAAATTGACTAAAAAT
1 TTTAATTTGTCTGAAATTGTTTAAAGGGTATTGTTATCAAATCATACCAAAAATTGACTAAAAAG
* * * * *
15369349 AGTTAAAATTATAATGAATAATTTTTTTGAATTGAGCTTATGAGGAATGTTATCTCTCATAAT-T
66 AATTAAAATTATAATGAATAATATTTTTAAATTGAGCTTATGAAGAAGGTTATCTCTCATAATAT
15369413 TCTC
131 TCTC
* **
15369417 TTTAATTTGTCTGAAATTGTTTAAAGGGTATTGTTGTCAAATCATGA-CAAAAATTGGTTAAAAA
1 TTTAATTTGTCTGAAATTGTTTAAAGGGTATTGTTATCAAATCAT-ACCAAAAATTGACTAAAAA
*
15369481 GAATTAAAATTATAATGAATGATATTTTTAAATTGAGCTTATGAAGAAGGTTATCTCTCATAATA
65 GAATTAAAATTATAATGAATAATATTTTTAAATTGAGCTTATGAAGAAGGTTATCTCTCATAATA
15369546 TTCTC
130 TTCTC
15369551 T
1 T
15369552 AAAAGTTTTG
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
133 113 0.94
134 7 0.06
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (134 bp):
TTTAATTTGTCTGAAATTGTTTAAAGGGTATTGTTATCAAATCATACCAAAAATTGACTAAAAAG
AATTAAAATTATAATGAATAATATTTTTAAATTGAGCTTATGAAGAAGGTTATCTCTCATAATAT
TCTC
Found at i:15371950 original size:29 final size:29
Alignment explanation
Indices: 15371917--15371972 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
15371907 ATTTAAGAAA
15371917 ATTCAAAT-AAGTTCTTATACTTTTATTAT
1 ATTC-AATCAAGTTCTTATACTTTTATTAT
* *
15371946 ATTCAATCAAGTTTTTATATTTTTATT
1 ATTCAATCAAGTTCTTATACTTTTATT
15371973 TTGAGTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (29 bp):
ATTCAATCAAGTTCTTATACTTTTATTAT
Found at i:15371993 original size:30 final size:31
Alignment explanation
Indices: 15371957--15372022 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
15371947 TTCAATCAAG
* *
15371957 TTTTTATA-TTTTTATTTTGAGTCTAATAAA
1 TTTTTATATTTTTTATTTCGAGTCAAATAAA
*
15371987 TTTTTATATTTTTTATTTCGAGTGAAATAAA
1 TTTTTATATTTTTTATTTCGAGTCAAATAAA
15372018 TTTTT
1 TTTTT
15372023 TGACTAGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (31 bp):
TTTTTATATTTTTTATTTCGAGTCAAATAAA
Found at i:15372123 original size:33 final size:33
Alignment explanation
Indices: 15372086--15372151 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
15372076 GTTAACATGG
* * *
15372086 CATGTT-AAAATATCGTAATTGATTATGATATGA
1 CATGTTGAAAA-ATCATAATTGATAATAATATGA
*
15372119 CATGTTGACAAATCATAATTGATAATAATATGA
1 CATGTTGAAAAATCATAATTGATAATAATATGA
15372152 TATATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (33 bp):
CATGTTGAAAAATCATAATTGATAATAATATGA
Found at i:15390458 original size:17 final size:18
Alignment explanation
Indices: 15390425--15390461 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15390415 TAACTAAAAT
15390425 AAAAATAAAAATAATTAA
1 AAAAATAAAAATAATTAA
*
15390443 AAAAATAAATAT-ATTAA
1 AAAAATAAAAATAATTAA
15390460 AA
1 AA
15390462 TCCATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATAAAAATAATTAA
Found at i:15391743 original size:29 final size:29
Alignment explanation
Indices: 15391708--15391763 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
15391698 GTGCTTGATC
*
15391708 TGTTCTAATTGATGACTTTGTTGAGCATA
1 TGTTCTAATTGATGACTTGGTTGAGCATA
15391737 TGTTCTAATTGATGACTTGGTTGAGCA
1 TGTTCTAATTGATGACTTGGTTGAGCA
15391764 GTTTGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (29 bp):
TGTTCTAATTGATGACTTGGTTGAGCATA
Found at i:15398752 original size:15 final size:15
Alignment explanation
Indices: 15398732--15398761 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15398722 AAATAGAAAG
*
15398732 TAAATATATTTATAT
1 TAAATATATATATAT
15398747 TAAATATATATATAT
1 TAAATATATATATAT
15398762 ATATATAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATATATATAT
Found at i:15404063 original size:16 final size:16
Alignment explanation
Indices: 15404042--15404073 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15404032 AATTACATTC
15404042 TTGACTTAGAATGTAG
1 TTGACTTAGAATGTAG
15404058 TTGACTTAGAATGTAG
1 TTGACTTAGAATGTAG
15404074 GCATTTTGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (16 bp):
TTGACTTAGAATGTAG
Found at i:15406342 original size:2 final size:2
Alignment explanation
Indices: 15406335--15406359 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15406325 TGTTTACTAA
15406335 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15406360 CACATATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15407114 original size:21 final size:21
Alignment explanation
Indices: 15407088--15407127 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15407078 TCCTATAAGT
15407088 TCAAGAACATT-GTCAAAAATA
1 TCAAGAAC-TTAGTCAAAAATA
15407109 TCAAGAACTTAGTCAAAAA
1 TCAAGAACTTAGTCAAAAA
15407128 CATGTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.53, C:0.15, G:0.10, T:0.23
Consensus pattern (21 bp):
TCAAGAACTTAGTCAAAAATA
Found at i:15413390 original size:6 final size:6
Alignment explanation
Indices: 15413381--15413405 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15413371 TCTGGGTCTG
15413381 GGTTTT GGTTTT GGTTTT GGTTTT G
1 GGTTTT GGTTTT GGTTTT GGTTTT G
15413406 CTGCAGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
GGTTTT
Found at i:15420769 original size:20 final size:20
Alignment explanation
Indices: 15420746--15420784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15420736 ATTGATGTTA
* *
15420746 TTAATTTGACATTTGAATAT
1 TTAATTTCACATTTAAATAT
15420766 TTAATTTCACATTTAAATA
1 TTAATTTCACATTTAAATA
15420785 GTAAAGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAATTTCACATTTAAATAT
Found at i:15421384 original size:17 final size:17
Alignment explanation
Indices: 15421358--15421390 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15421348 GTAGGAAATT
15421358 AACCCACAAAATCATAA
1 AACCCACAAAATCATAA
*
15421375 AACCCCCAAAATCATA
1 AACCCACAAAATCATA
15421391 CGACTCGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (17 bp):
AACCCACAAAATCATAA
Found at i:15425709 original size:22 final size:22
Alignment explanation
Indices: 15425683--15425729 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
15425673 GATGATGCTT
*
15425683 AAATTCTTAAATTATTTTTTTA
1 AAATTCTTAAATTATTTTTTAA
15425705 AAATTCTTAAATTATTTTTTAA
1 AAATTCTTAAATTATTTTTTAA
15425727 AAA
1 AAA
15425730 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATTCTTAAATTATTTTTTAA
Found at i:15425735 original size:21 final size:21
Alignment explanation
Indices: 15425689--15425746 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
15425679 GCTTAAATTC
***
15425689 TTAAATTATTTTTTTAAAATTC
1 TTAAATTA-TTTTTTAAAAAAA
15425711 TTAAATTATTTTTTAAAAAAA
1 TTAAATTATTTTTTAAAAAAA
*
15425732 TTAAATAAATTTTTT
1 TTAAAT-TATTTTTT
15425747 TTATTTTGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAATTATTTTTTAAAAAAA
Found at i:15434519 original size:3 final size:3
Alignment explanation
Indices: 15434511--15434538 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
15434501 AATTGTTCCT
15434511 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
15434539 TTGGTATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:15435771 original size:21 final size:21
Alignment explanation
Indices: 15435733--15435772 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15435723 CACACAATAA
*
15435733 AAAGTAAATATATTTATATTT
1 AAAGTAAATATATATATATTT
* *
15435754 AAAGTATATATGTATATAT
1 AAAGTAAATATATATATAT
15435773 ACACACACGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
AAAGTAAATATATATATATTT
Found at i:15436226 original size:336 final size:339
Alignment explanation
Indices: 15435806--15436466 Score: 883
Period size: 338 Copynumber: 2.0 Consensus size: 339
15435796 TTTTAATATA
*
15435806 TATATATATAATAGTAATTATATTCCTTATAAATGAATCTAATATATATAAAGTATATATATTAA
1 TATATATATAATAGTAATTATATTCCTTATAAATGAATCTAATATATATAAACTATATATATTAA
* *
15435871 AAGACATTACAAGTTAATTAATAATTATAGTTTCATGAATTAATTTAATTAACTATACA-AGTTT
66 AAGAAATTACAAGTTAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATACAGA-TTT
* * * * *
15435935 GTCCTTAATTAT-ATAAAATTAAAAAAAATAACTAGGTTTTACAACTATTCTAATTTCACAA-CT
130 GTCCTTAATT-TCATAAAATTAAAAAAAAT---TAGATTTCAAAACTATTCTAATCTCAAAAGCT
* * * *
15435998 TCTCTTTAAG-T-T-TA-TATAAGTTTATATAAATAAAGTTGTATATATTATAATTAATAATTTT
191 T-TCTTTAAGATATATATTATAAGATTATATAAACAAAGGTATATATATTATAATTAATAATTTT
* ** * * * * * *
15436059 ATAAGTTATAATTTTGTAATGTTAGCACAAAATAGAAAGCAGATACGTTTATATTTAAAGTTTAT
255 ATAAGTCATAAGATTGTAATGTTAACACAAAATAAAAAGCAAATACATTTATATTAAAAGTATAT
15436124 ATATACTAAAAATATTTTAG
320 ATATACTAAAAATATTTTAG
* *
15436144 TATATATATAATAGTAATTATATTTCTTATAAATTAA-C-ACA-ATATATAAACTATATATATTA
1 TATATATATAATAGTAATTATATTCCTTATAAATGAATCTA-ATATATATAAACTATATATATTA
* * *
15436206 AAAGAAATTACAAGTTAATTAATAATAATAGTTTCATGAATTAATTTGATTAATTATACGGATTT
65 AAAGAAATTACAAGTTAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATACAGATTT
* * *
15436271 GTTCTTAATTTCATGAAATTAAAAAAAATTAGATTTCAAAACTATTTTAATCTCAAAAGCTTTCT
130 GTCCTTAATTTCATAAAATTAAAAAAAATTAGATTTCAAAACTATTCTAATCTCAAAAGCTTTCT
* *
15436336 TTAAGTATATATATTATAAGATTATATAAACAATGGTATTTATATTATAATTAATAATTTTATAA
195 TTAAG-ATATATATTATAAGATTATATAAACAAAGGTATATATATTATAATTAATAATTTTATAA
* *
15436401 GTCATAAGATTGTAATGTTAACACAAAATAAAAAGTAAATATATTTATATTAAAAGTATATATAT
259 GTCATAAGATTGTAATGTTAACACAAAATAAAAAGCAAATACATTTATATTAAAAGTATATATAT
15436466 A
324 A
15436467 ATAGTAATTA
Statistics
Matches: 281, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
333 31 0.11
334 3 0.01
335 2 0.01
336 105 0.37
337 5 0.02
338 135 0.48
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (339 bp):
TATATATATAATAGTAATTATATTCCTTATAAATGAATCTAATATATATAAACTATATATATTAA
AAGAAATTACAAGTTAATTAATAATAATAGTTTCATGAATTAATTTAATTAACTATACAGATTTG
TCCTTAATTTCATAAAATTAAAAAAAATTAGATTTCAAAACTATTCTAATCTCAAAAGCTTTCTT
TAAGATATATATTATAAGATTATATAAACAAAGGTATATATATTATAATTAATAATTTTATAAGT
CATAAGATTGTAATGTTAACACAAAATAAAAAGCAAATACATTTATATTAAAAGTATATATATAC
TAAAAATATTTTAG
Found at i:15437234 original size:3 final size:3
Alignment explanation
Indices: 15437226--15437261 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
15437216 GGGGGACGCC
15437226 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15437262 TATTTAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15441637 original size:17 final size:19
Alignment explanation
Indices: 15441603--15441640 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
15441593 ATATTGTAAT
15441603 TATTTTTAATAGATAAAAA
1 TATTTTTAATAGATAAAAA
15441622 TATTTTTAA-A-ATAAAAA
1 TATTTTTAATAGATAAAAA
15441639 TA
1 TA
15441641 AAAATTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 1 0.05
19 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
TATTTTTAATAGATAAAAA
Found at i:15442452 original size:67 final size:67
Alignment explanation
Indices: 15442334--15442683 Score: 198
Period size: 64 Copynumber: 5.4 Consensus size: 67
15442324 AATGCATCTA
* * *
15442334 TATTACTATACAATGAGTAACTGAATTAACATCAGAGTTAATTATTGAATACTACCCATACCTGT
1 TATTACTATACAATGAATAACTGAATTAACATCAGAGGTAACTATTGAATACTACCCATACCTGT
15442399 TT
66 TT
* * * * ** *
15442401 TATTATTATATAATGAATAATTGAATTAACATTATGAGGTAACTATT-AATACTACCCATGTCTA
1 TATTACTATACAATGAATAACTGAATTAACATCA-GAGGTAACTATTGAATACTACCCATACCTG
*
15442465 TAT
65 TTT
* ** * * * *
15442468 TATTA-TATA-ACA--AATAACTGAATTAACGTCACGAATTAACTATTG-ATGCTATCTATATCT
1 TATTACTATACA-ATGAATAACTGAATTAACATCA-GAGGTAACTATTGAATACTACCCATACCT
* *
15442528 ATAT
64 GTTT
* * * * * * *
15442532 TATTA-TAT--AACGAATAACTGAATTAACATCAAAAGTTAACTATTG-ATGCTTCCCAT--TTA
1 TATTACTATACAATGAATAACTGAATTAACATC-AGAGGTAACTATTGAATACTACCCATACCTG
*
15442591 TCT
65 TTT
* * * * * *
15442594 TATT-GTAT--AACGAATAACTGAATTAACATCACGAGTTAACTATTG-ATGCTACCCATATCTA
1 TATTACTATACAATGAATAACTGAATTAACATCA-GAGGTAACTATTGAATACTACCCATACCTG
*
15442655 TAT
65 TTT
*
15442658 TATTA-TAT--AACGAATAACTGAATTAA
1 TATTACTATACAATGAATAACTGAATTAA
15442684 TGTTACGAGT
Statistics
Matches: 239, Mismatches: 33, Indels: 25
0.80 0.11 0.08
Matches are distributed among these distances:
61 1 0.00
62 56 0.23
63 1 0.00
64 114 0.48
65 2 0.01
66 5 0.02
67 50 0.21
68 10 0.04
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (67 bp):
TATTACTATACAATGAATAACTGAATTAACATCAGAGGTAACTATTGAATACTACCCATACCTGT
TT
Found at i:15442803 original size:254 final size:254
Alignment explanation
Indices: 15442351--15448779 Score: 12486
Period size: 254 Copynumber: 25.3 Consensus size: 254
15442341 ATACAATGAG
* * * * *
15442351 TAACTGAATTAACATCA-GAGTTAATTATTGAATACTACCCATACCTGTTTTATTATTATATAAT
1 TAACTGAATTAACATCACGAGTTAACTATTG-ATGCTACCCATA--T-CTATATTATTATATAAC
* ** * * ** * *** * * * **
15442415 GAATAATTGAATTAACATTATGAGGTAACTATTAATACTACCCATGTCTATATTATTATATAACA
62 GAATAACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATG
* * * * * * * *
15442480 AATAACTGAATTAACGTCACGAA-TTAACTATTGATGCTATCTATATCTATATTATTATATAACG
127 AATAACTGAATCAACATCAC-AAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACG
* * * *
15442544 AATAACTGAATTAACATCAAA-AGTTAACTATTGATGCTTCCCATTTATCTTATTGTATAACGAA
191 AATAACAGAATTAACAT-AAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15442608 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15442673 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15442738 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15442803 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15442862 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15442927 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15442992 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15443057 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15443116 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15443181 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15443246 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15443311 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15443370 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15443435 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15443500 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15443565 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15443624 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15443689 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15443754 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15443819 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15443878 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15443943 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15444008 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15444073 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15444132 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15444197 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15444262 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15444327 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15444386 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15444451 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15444516 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15444581 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15444640 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15444705 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15444770 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15444835 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15444894 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15444959 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15445024 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15445089 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15445148 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15445213 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15445278 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15445343 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15445402 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15445467 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15445532 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15445597 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15445656 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15445721 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15445786 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15445851 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15445910 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15445975 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15446040 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15446105 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15446164 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15446229 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15446294 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15446359 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15446418 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15446483 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15446548 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15446613 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15446672 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15446737 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15446802 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15446867 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15446926 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15446991 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15447056 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15447121 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15447180 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15447245 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15447310 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15447375 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15447434 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15447499 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15447564 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15447629 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15447688 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15447753 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15447818 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15447883 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15447942 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15448007 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15448072 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15448137 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15448196 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15448261 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15448326 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15448391 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15448450 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15448515 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
66 AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
15448580 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
131 ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
15448645 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
196 CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
15448704 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
1 TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
15448769 AACTGAATTAA
66 AACTGAATTAA
15448780 NNNNNNNNNN
Statistics
Matches: 6136, Mismatches: 33, Indels: 9
0.99 0.01 0.00
Matches are distributed among these distances:
253 5 0.00
254 6090 0.99
255 1 0.00
257 28 0.00
258 12 0.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (254 bp):
TAACTGAATTAACATCACGAGTTAACTATTGATGCTACCCATATCTATATTATTATATAACGAAT
AACTGAATTAATGTTACGAGTTAACTATTGGTGCTATTTATATCTATATTATTGTGTAATGAATA
ACTGAATCAACATCACAAGTTAACTATTGAAGTTACCCATAGCCATATTATTATATAACGAATAA
CAGAATTAACATAAAGAGTTAACTATCGATGCTCCCCATTTATCTTCTTGTATAACGAA
Found at i:15495596 original size:20 final size:20
Alignment explanation
Indices: 15495559--15495605 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15495549 AGTGAATATT
* *
15495559 TTAATTTAATGAAAAAAATTA
1 TTAA-TTAAGGAAAAAAATAA
*
15495580 TTAATTAAGGAATAAAATAA
1 TTAATTAAGGAAAAAAATAA
15495600 TTAATT
1 TTAATT
15495606 CTATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
TTAATTAAGGAAAAAAATAA
Found at i:15520919 original size:26 final size:26
Alignment explanation
Indices: 15520890--15520945 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
15520880 GAGAATTTTG
*
15520890 AGAATTTTTGGTAAGAAAAGTTGTAA
1 AGAATTTTTGATAAGAAAAGTTGTAA
*
15520916 AGAATTTTTGATATGAAAAGTTGTAA
1 AGAATTTTTGATAAGAAAAGTTGTAA
15520942 AGAA
1 AGAA
15520946 AACTTGATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (26 bp):
AGAATTTTTGATAAGAAAAGTTGTAA
Found at i:15520952 original size:26 final size:26
Alignment explanation
Indices: 15520904--15520955 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15520894 TTTTTGGTAA
***
15520904 GAAAAGTTGTAAAGAATTTTTGATAT
1 GAAAAGTTGTAAAGAAAACTTGATAT
15520930 GAAAAGTTGTAAAGAAAACTTGATAT
1 GAAAAGTTGTAAAGAAAACTTGATAT
15520956 ATTGGTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (26 bp):
GAAAAGTTGTAAAGAAAACTTGATAT
Found at i:15521074 original size:5 final size:5
Alignment explanation
Indices: 15521058--15521099 Score: 57
Period size: 5 Copynumber: 8.0 Consensus size: 5
15521048 ATTTACGTTC
*
15521058 CATTT ACATTT CATTT CATTT GATTT CATTT ACATTT CATTT
1 CATTT -CATTT CATTT CATTT CATTT CATTT -CATTT CATTT
15521100 GCCTCTGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (5 bp):
CATTT
Found at i:15521093 original size:21 final size:21
Alignment explanation
Indices: 15521059--15521100 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15521049 TTTACGTTCC
15521059 ATTTACATTTCATTTCATTTG
1 ATTTACATTTCATTTCATTTG
15521080 ATTT-CATTTACATTTCATTTG
1 ATTTACATTT-CATTTCATTTG
15521101 CCTCTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTACATTTCATTTCATTTG
Found at i:15521224 original size:72 final size:72
Alignment explanation
Indices: 15521133--15521430 Score: 299
Period size: 72 Copynumber: 4.0 Consensus size: 72
15521123 AAGACTGAGT
* * * *
15521133 CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAAAGGCTATCTTGGCTTCTGC
1 CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAGAGGCTGTCTTGTCTTCTGA
15521198 TTTTCAC
66 TTTTCAC
* * * *
15521205 CATCTTCTTTTCTTTTGCTTTGATTTCCTTTGTCGAAAGCATGCAGAGGTTGTCTTGTCTTTTTT
1 CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAGAGGCTGTCTTGTC--TTCT
*
15521270 GTTTTTGAAAGACTAATC
64 GATTTT------C--A-C
* * * * *
15521288 CGTCTTTTTTTGTTTTGCTTTGATTCCCTTTGTCAAAAGCATGCAGAGGCTGTCTTGTCTTCTGA
1 CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAGAGGCTGTCTTGTCTTCTGA
15521353 TTTTCAC
66 TTTTCAC
* * * * * * * *
15521360 CGTCCTCTTTTCTTCAGCTTTGATTCTCTTTGTCGAAAGCATGCAGAGTCCGTCTTGTCTTTTGC
1 CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAGAGGCTGTCTTGTCTTCTGA
15521425 TTTTCA
66 TTTTCA
15521431 TTTTCTTTTT
Statistics
Matches: 188, Mismatches: 27, Indels: 22
0.79 0.11 0.09
Matches are distributed among these distances:
72 114 0.61
73 1 0.01
74 8 0.04
75 1 0.01
80 1 0.01
81 8 0.04
82 1 0.01
83 54 0.29
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (72 bp):
CATCTTCTTTTCTTCTGCTTTGATTCCCTTTGTCGAAAGCATGCAGAGGCTGTCTTGTCTTCTGA
TTTTCAC
Found at i:15527514 original size:12 final size:12
Alignment explanation
Indices: 15527497--15527528 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
15527487 TAAATATAGT
*
15527497 TACTACTACTGC
1 TACTACTACTCC
15527509 TACTACTACTCC
1 TACTACTACTCC
15527521 TACTACTA
1 TACTACTA
15527529 TTACTAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.34, G:0.03, T:0.34
Consensus pattern (12 bp):
TACTACTACTCC
Found at i:15533990 original size:30 final size:30
Alignment explanation
Indices: 15533954--15534021 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
15533944 CTTGATTGAG
*
15533954 GATGAAGACGATGACATGCAAAGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
* *
15533984 GATGAAGAAGATGACATGGAAGGAGATGAA
1 GATGAAGAAGATGACATGCAAAGAGATGAA
*
15534014 AATGAAGA
1 GATGAAGA
15534022 TGACGATGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.32, T:0.13
Consensus pattern (30 bp):
GATGAAGAAGATGACATGCAAAGAGATGAA
Found at i:15534031 original size:18 final size:18
Alignment explanation
Indices: 15534008--15534042 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15533998 CATGGAAGGA
15534008 GATGAA-AATGAAGATGAC
1 GATGAAGAA-GAAGATGAC
15534026 GATGAAGAAGAAGATGA
1 GATGAAGAAGAAGATGA
15534043 ACTTGAAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.51, C:0.03, G:0.31, T:0.14
Consensus pattern (18 bp):
GATGAAGAAGAAGATGAC
Found at i:15534814 original size:19 final size:20
Alignment explanation
Indices: 15534769--15534806 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
15534759 AAGATGTTTC
15534769 TAATATTTGTTAATGAAATTG
1 TAATATTTGTTAA-GAAATTG
*
15534790 TTATATTTGTTAA-AAAT
1 TAATATTTGTTAAGAAAT
15534807 ATTAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
21 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TAATATTTGTTAAGAAATTG
Found at i:15536516 original size:30 final size:29
Alignment explanation
Indices: 15536481--15536543 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
15536471 CTAGTAAAAT
*
15536481 AATTTCCGTTGGAAAAGCATTTCCAACGGA
1 AATTTCCGTTGCAAAAGCATTTCCAAC-GA
* *
15536511 AATTTCCGTTGCAAATGCTTTTCCAACGA
1 AATTTCCGTTGCAAAAGCATTTCCAACGA
15536540 AATT
1 AATT
15536544 GTTTCCAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (29 bp):
AATTTCCGTTGCAAAAGCATTTCCAACGA
Found at i:15537846 original size:2 final size:2
Alignment explanation
Indices: 15537839--15537915 Score: 68
Period size: 2 Copynumber: 37.5 Consensus size: 2
15537829 TACGTATTTA
* * *
15537839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AGT TT AGT AT TT CCT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT -AT
*
15537883 -T CAT NT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15537916 AGTTTTGATG
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
1 2 0.03
2 56 0.89
3 5 0.08
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:15540842 original size:15 final size:14
Alignment explanation
Indices: 15540816--15540847 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
15540806 ATTTATAATT
15540816 TTATAATAATTATA
1 TTATAATAATTATA
15540830 TTATAATTAATTATA
1 TTATAA-TAATTATA
15540845 TTA
1 TTA
15540848 AAAATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAATAATTATA
Found at i:15542783 original size:2 final size:2
Alignment explanation
Indices: 15542776--15542827 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
15542766 AACATAATAA
15542776 AT AT AT AT AT AT AT AT -T AT A- AT AT AT AT AT AT AT -T AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15542814 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
15542828 GGGTGTGTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:15542800 original size:20 final size:21
Alignment explanation
Indices: 15542775--15542827 Score: 92
Period size: 20 Copynumber: 2.6 Consensus size: 21
15542765 AAACATAATA
15542775 AATATATATATATA-TATTAT
1 AATATATATATATATTATTAT
15542795 AATATATATATATATTATTAT
1 AATATATATATATATTATTAT
15542816 -ATATATATATAT
1 AATATATATATAT
15542828 GGGTGTGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 26 0.81
21 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATATATATATATTATTAT
Found at i:15542801 original size:18 final size:18
Alignment explanation
Indices: 15542778--15542827 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
15542768 CATAATAAAT
15542778 ATATATATATATATTATA
1 ATATATATATATATTATA
*
15542796 ATATATATATATATTATT
1 ATATATATATATATTATA
15542814 ATATATATATATAT
1 ATATATATATATAT
15542828 GGGTGTGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATATATATATATTATA
Found at i:15543462 original size:14 final size:14
Alignment explanation
Indices: 15543443--15543469 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15543433 CTAAAATTAT
15543443 AACTTATAAAAAAG
1 AACTTATAAAAAAG
15543457 AACTTATAAAAAA
1 AACTTATAAAAAA
15543470 AAATTTACCA
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:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (14 bp):
AACTTATAAAAAAG
Found at i:15544939 original size:20 final size:20
Alignment explanation
Indices: 15544910--15544947 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15544900 GAGTGTGGGT
15544910 TTTGATTTTTAGG-GGGAGA
1 TTTGATTTTTAGGAGGGAGA
15544929 TTTGAATTTTTAGGAGGGA
1 TTTG-ATTTTTAGGAGGGA
15544948 TTTTGGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.42
Consensus pattern (20 bp):
TTTGATTTTTAGGAGGGAGA
Found at i:15549920 original size:81 final size:80
Alignment explanation
Indices: 15549784--15549945 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 80
15549774 AAATTCTTTA
15549784 TCTTTGTATGTGTATATATATATATATATACCATGAAATAATATTTTATATATATTATTTTCATC
1 TCTTTGTATGTGTATATATATATATATATACCATGAAATAATATTTTATATATATTATTTTCATC
15549849 CAACTATATTTTATT
66 CAACTATATTTTATT
15549864 TNCTTTGTATGTGTATATATATATATATATACCATGAAATAATATTTTATATATATTATTTTCAT
1 T-CTTTGTATGTGTATATATATATATATATACCATGAAATAATATTTTATATATATTATTTTCAT
15549929 CCAACTATATTTTATT
65 CCAACTATATTTTATT
15549945 T
1 T
15549946 TATTATATAT
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 1 0.01
81 80 0.99
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (80 bp):
TCTTTGTATGTGTATATATATATATATATACCATGAAATAATATTTTATATATATTATTTTCATC
CAACTATATTTTATT
Found at i:15549976 original size:25 final size:26
Alignment explanation
Indices: 15549934--15549984 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
15549924 TTCATCCAAC
* *
15549934 TATATTTTATTTTATTATATATTTTT
1 TATATTTAATTATATTATATATTTTT
*
15549960 TATATTTAATTAT-TTATCTATTTTT
1 TATATTTAATTATATTATATATTTTT
15549985 CGATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TATATTTAATTATATTATATATTTTT
Found at i:15551654 original size:18 final size:18
Alignment explanation
Indices: 15551631--15551666 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15551621 CAAACACCAG
15551631 TCACCAGATCTTTCTTCT
1 TCACCAGATCTTTCTTCT
15551649 TCACCAGATCTTTCTTCT
1 TCACCAGATCTTTCTTCT
15551667 CTTTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.33, G:0.06, T:0.44
Consensus pattern (18 bp):
TCACCAGATCTTTCTTCT
Found at i:15552568 original size:20 final size:20
Alignment explanation
Indices: 15552543--15552580 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15552533 TTATATTTGA
*
15552543 TGTTATTATGATTTTTATTT
1 TGTTATAATGATTTTTATTT
*
15552563 TGTTATAATTATTTTTAT
1 TGTTATAATGATTTTTAT
15552581 AACTATAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (20 bp):
TGTTATAATGATTTTTATTT
Found at i:15553196 original size:19 final size:19
Alignment explanation
Indices: 15553168--15553204 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15553158 CCATTTAACT
15553168 TATTGAAGTATGATTTGAG
1 TATTGAAGTATGATTTGAG
*
15553187 TATTGGAGTATGATTTGA
1 TATTGAAGTATGATTTGA
15553205 AGTTTAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (19 bp):
TATTGAAGTATGATTTGAG
Found at i:15556803 original size:172 final size:171
Alignment explanation
Indices: 15556516--15556859 Score: 679
Period size: 172 Copynumber: 2.0 Consensus size: 171
15556506 CCTTTATAAA
15556516 CCAGCATAAACCATTCCCAATTCACTCTTCATTGCCGTAAAAGCCAAAGAAAAGAGGAAAAAGAA
1 CCAGCATAAACCATTCCCAATTCACTCTTCATTGCCGTAAAAGCCAAAGAAAAGAGGAAAAAGAA
15556581 TAGAAACAACCCTAAGGAGGAAAAATTCAACAGAAATTCATTAGATTTTTGAAAAACAACGCGAT
66 TAGAAACAACCCTAAGGAGGAAAAATTCAACAGAAATTCATTAGATTTTTGAAAAACAACGCGAT
15556646 CGGAGGTAAGATTTCTCGATTTAGCTTAAGATCTACCTACC
131 CGGAGGTAAGATTTCTCGATTTAGCTTAAGATCTACCTACC
15556687 CNCAGCATAAACCATTCCCAATTCACTCTTCATTGCCGTAAAAGCCAAAGAAAAGAGGAAAAAGA
1 C-CAGCATAAACCATTCCCAATTCACTCTTCATTGCCGTAAAAGCCAAAGAAAAGAGGAAAAAGA
15556752 ATAGAAACAACCCTAAGGAGGAAAAATTCAACAGAAATTCATTAGATTTTTGAAAAACAACGCGA
65 ATAGAAACAACCCTAAGGAGGAAAAATTCAACAGAAATTCATTAGATTTTTGAAAAACAACGCGA
15556817 TCGGAGGTAAGATTTCTCGATTTAGCTTAAGATCTACCTACC
130 TCGGAGGTAAGATTTCTCGATTTAGCTTAAGATCTACCTACC
15556859 C
1 C
15556860 ATGCTTTCTT
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 1 0.01
172 171 0.99
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (171 bp):
CCAGCATAAACCATTCCCAATTCACTCTTCATTGCCGTAAAAGCCAAAGAAAAGAGGAAAAAGAA
TAGAAACAACCCTAAGGAGGAAAAATTCAACAGAAATTCATTAGATTTTTGAAAAACAACGCGAT
CGGAGGTAAGATTTCTCGATTTAGCTTAAGATCTACCTACC
Found at i:15564198 original size:13 final size:13
Alignment explanation
Indices: 15564180--15564204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15564170 TTTCAGAAAA
15564180 TTTATAAAATCAT
1 TTTATAAAATCAT
15564193 TTTATAAAATCA
1 TTTATAAAATCA
15564205 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15565453 original size:20 final size:20
Alignment explanation
Indices: 15565428--15565473 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
15565418 CTTCTAAACC
* *
15565428 TCAAATCCTACTTCAATAAG
1 TCAAATCATACTCCAATAAG
* *
15565448 TTAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
15565468 TCAAAT
1 TCAAAT
15565474 GGGGCCAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:15571477 original size:15 final size:15
Alignment explanation
Indices: 15571457--15571503 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
15571447 TAAAACAACC
15571457 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
15571472 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
* *
15571487 TTAAAACCAAAATCT
1 TTAAAATCAAAAACT
15571502 TT
1 TT
15571504 GATCTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:15572917 original size:13 final size:13
Alignment explanation
Indices: 15572899--15572923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15572889 TTTCAGAAAA
15572899 TTTATAAAATCAT
1 TTTATAAAATCAT
15572912 TTTATAAAATCA
1 TTTATAAAATCA
15572924 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15578559 original size:16 final size:16
Alignment explanation
Indices: 15578529--15578569 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
15578519 TCTTAAAACA
15578529 ACTTTAAAA-CCAAAG
1 ACTTTAAAATCCAAAG
15578544 ACTTTAAAATCCAAAG
1 ACTTTAAAATCCAAAG
15578560 -CTTTAAAATC
1 ACTTTAAAATC
15578570 AAAATATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (16 bp):
ACTTTAAAATCCAAAG
Found at i:15579981 original size:13 final size:13
Alignment explanation
Indices: 15579963--15579987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15579953 TTCCAGAAAA
15579963 TTTATAAAATCAT
1 TTTATAAAATCAT
15579976 TTTATAAAATCA
1 TTTATAAAATCA
15579988 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:15581155 original size:28 final size:27
Alignment explanation
Indices: 15581116--15581168 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
15581106 ATGTCCTGGT
*
15581116 GGTGGAAAATTA-CAATTTTGCCCTTGG
1 GGTGGAAAATTATC-ATTTTACCCTTGG
15581143 GGTGGCAAAATTATCATTTTACCCTT
1 GGTGG-AAAATTATCATTTTACCCTT
15581169 TTACTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 5 0.22
28 17 0.74
29 1 0.04
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTGGAAAATTATCATTTTACCCTTGG
Found at i:15600993 original size:20 final size:21
Alignment explanation
Indices: 15600953--15600995 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
15600943 TAAACTTCCT
* *
15600953 TTAACACTTGTAATTCATGTC
1 TTAACACTTGAAATCCATGTC
15600974 TTAACACTT-AAATCCATGTC
1 TTAACACTTGAAATCCATGTC
15600994 TT
1 TT
15600996 GACAAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (21 bp):
TTAACACTTGAAATCCATGTC
Found at i:15605335 original size:20 final size:21
Alignment explanation
Indices: 15605299--15605337 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15605289 TAAACTTCCT
15605299 TTAACACTTGTAATCCATGCC
1 TTAACACTTGTAATCCATGCC
15605320 TTAACACTTG-AATCCATG
1 TTAACACTTGTAATCCATG
15605338 TCTTGACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAACACTTGTAATCCATGCC
Found at i:15606418 original size:17 final size:17
Alignment explanation
Indices: 15606396--15606429 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
15606386 ACTAGCAAAC
15606396 GTTACACTTTTTTATAT
1 GTTACACTTTTTTATAT
15606413 GTTACACTTTTTTATAT
1 GTTACACTTTTTTATAT
15606430 TTCTACTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.59
Consensus pattern (17 bp):
GTTACACTTTTTTATAT
Found at i:15613088 original size:43 final size:44
Alignment explanation
Indices: 15613031--15613162 Score: 153
Period size: 43 Copynumber: 3.1 Consensus size: 44
15613021 GTAATTATAT
* *
15613031 TGACTCAGCTATGTGTGAGTAAGGAGTGTGCATAAGCTGAG-GA
1 TGACCCAGCTATGTGTGAGTAAGGAGTGCGCATAAGCTGAGTGA
* * * * * *
15613074 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
1 TGACCCAGCTATGTGTGAGTAAGGAGTGCGCATAAGCTGAGTGA
* *
15613117 TGACCCAGCCATGTGTGAGTAAGGAGTGCGCATGAGCT-AGTGA
1 TGACCCAGCTATGTGTGAGTAAGGAGTGCGCATAAGCTGAGTGA
15613160 TGA
1 TGA
15613163 TGATGATGTG
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.25, C:0.17, G:0.36, T:0.23
Consensus pattern (44 bp):
TGACCCAGCTATGTGTGAGTAAGGAGTGCGCATAAGCTGAGTGA
Found at i:15623697 original size:16 final size:16
Alignment explanation
Indices: 15623660--15623697 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
15623650 ATAATTTATT
* *
15623660 AATTTTTAAAAATTAA
1 AATTTATAAAAAATAA
15623676 AA-TTATAAAAAATAA
1 AATTTATAAAAAATAA
15623691 AATTTAT
1 AATTTAT
15623698 GTAACATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTTATAAAAAATAA
Found at i:15623849 original size:9 final size:9
Alignment explanation
Indices: 15623828--15623877 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
15623818 ACATATGAAC
15623828 AAATAAA-A
1 AAATAAATA
15623836 AAATAAATA
1 AAATAAATA
15623845 AAATAAATA
1 AAATAAATA
15623854 AATATAAATTA
1 AA-ATAAA-TA
15623865 AAA-AAATTA
1 AAATAAA-TA
15623874 AAAT
1 AAAT
15623878 TGAATGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.18
9 21 0.55
10 6 0.16
11 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAATAAATA
Found at i:15625591 original size:2 final size:2
Alignment explanation
Indices: 15625584--15625619 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
15625574 AATACTGTAC
* *
15625584 CT CT CT CT CT CC CT CT CT CT TT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15625620 TCCACAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15631058 original size:15 final size:15
Alignment explanation
Indices: 15631038--15631067 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15631028 CTACAGAAAC
*
15631038 CCTAACAGTATTATG
1 CCTAACAATATTATG
15631053 CCTAACAATATTATG
1 CCTAACAATATTATG
15631068 AAAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (15 bp):
CCTAACAATATTATG
Found at i:15632717 original size:17 final size:17
Alignment explanation
Indices: 15632695--15632729 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15632685 AAATATGAAT
15632695 TTATAAAATAAATGGAA
1 TTATAAAATAAATGGAA
*
15632712 TTATAAAATAAATTGAA
1 TTATAAAATAAATGGAA
15632729 T
1 T
15632730 ATTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (17 bp):
TTATAAAATAAATGGAA
Found at i:15636314 original size:2 final size:2
Alignment explanation
Indices: 15636309--15636345 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
15636299 TATATATGTA
15636309 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15636346 ATAAATACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15643463 original size:26 final size:23
Alignment explanation
Indices: 15643402--15643461 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
15643392 TATACGTATA
*
15643402 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
15643425 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
15643448 CACATCATCATCAT
1 CCCATCATCATCAT
15643462 CACCAACTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.42, G:0.02, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:15643580 original size:43 final size:43
Alignment explanation
Indices: 15643471--15643572 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
15643461 TCACCAACTC
* ** * *
15643471 ATGCGCATTCCCTACTCGCACATGGCTGGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGCTT
*
15643514 ATGCGTACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGCTT
15643557 ATGCGCACTCCCTACT
1 ATGCGCACTCCCTACT
15643573 TGTACATAGC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.18, C:0.36, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCACCGGCTT
Found at i:15659666 original size:13 final size:13
Alignment explanation
Indices: 15659648--15659672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15659638 TGATAAATTT
15659648 ATTTTTTTTATAA
1 ATTTTTTTTATAA
15659661 ATTTTTTTTATA
1 ATTTTTTTTATA
15659673 GATAAGCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTTTTATAA
Found at i:15659929 original size:18 final size:18
Alignment explanation
Indices: 15659906--15659945 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15659896 AGTTCCACAA
* *
15659906 ATAATTTATAAGTAACAC
1 ATAATTCATAAATAACAC
*
15659924 ATAATTCATAAATAACTC
1 ATAATTCATAAATAACAC
15659942 ATAA
1 ATAA
15659946 ATTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATTCATAAATAACAC
Found at i:15673209 original size:2 final size:2
Alignment explanation
Indices: 15673198--15673232 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15673188 AATTATTGAT
15673198 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15673233 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15674435 original size:40 final size:40
Alignment explanation
Indices: 15674408--15674521 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
15674398 AAGCTGTTTT
15674408 TTCTTCTTTCTTTTCTTCCCCAACCACTGCCAACCGCTCA
1 TTCTTCTTTCTTTTCTTCCCCAACCACTGCCAACCGCTCA
* * * ***
15674448 TTCTTCTTTCTTTTCTTCCCCAGCCATTACCAGTAGCTCA
1 TTCTTCTTTCTTTTCTTCCCCAACCACTGCCAACCGCTCA
* *
15674488 TTCTTCATTTTTTTTTCTTCCTCAACCACTGCCA
1 TTCTTC--TTTCTTTTCTTCCCCAACCACTGCCA
15674522 GCTGCTACTT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 40 0.66
42 21 0.34
ACGTcount: A:0.15, C:0.37, G:0.05, T:0.43
Consensus pattern (40 bp):
TTCTTCTTTCTTTTCTTCCCCAACCACTGCCAACCGCTCA
Found at i:15674599 original size:40 final size:39
Alignment explanation
Indices: 15674555--15674697 Score: 116
Period size: 37 Copynumber: 3.6 Consensus size: 39
15674545 CAACTGTTCC
**
15674555 TTCTTCTTTTGTTTCTTCCCTAGCCACTGACAGTAGCTCA
1 TTCTTCTTTT-TTTCTTCCCTAGCCACTGACAACAGCTCA
* * *
15674595 TTCTT-TTTTTTT-TCCCCTAACCACTGCCAACAGCTCA
1 TTCTTCTTTTTTTCTTCCCTAGCCACTGACAACAGCTCA
* *
15674632 TTCTTCATTTTTTTTCTT-CCTCAGCCACTGCCAGCCA-CT-A
1 TTCTTC--TTTTTTTCTTCCCT-AGCCACTGACA-ACAGCTCA
* *
15674672 CTTCTTCTTTTTTTCTGCCCCAGCCA
1 -TTCTTCTTTTTTTCTTCCCTAGCCA
15674698 TTACTAGCTG
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
37 25 0.29
38 3 0.04
39 18 0.21
40 18 0.21
41 19 0.22
42 2 0.02
ACGTcount: A:0.15, C:0.34, G:0.08, T:0.43
Consensus pattern (39 bp):
TTCTTCTTTTTTTCTTCCCTAGCCACTGACAACAGCTCA
Found at i:15677313 original size:2 final size:2
Alignment explanation
Indices: 15677306--15677330 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15677296 CCGACCGAGG
15677306 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15677331 CCGGATTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15679915 original size:40 final size:40
Alignment explanation
Indices: 15679766--15679967 Score: 242
Period size: 40 Copynumber: 5.0 Consensus size: 40
15679756 TTTAACTAGC
* *
15679766 TGTTTGGATATTTATTTTTAGTTATTTAAGTTTATATGGTTGT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAG-TT-TAT-GTTGT
* * *
15679809 TGTTTGGATATTTATGTTTGGTTATTTAAGTTTATGTTATT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTT-GT
* *
15679850 TGTTTGGATCTTTGTGTTTAATTATTTAAGTTTATGTTGT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
* * * *
15679890 TATTTGGATATTTGTGTATAGTTATTTAAATTTATGTCGT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
** *
15679930 TGCATGGATATTTGTTTTTAGTTATTTAAGTTTATGTT
1 TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTT
15679968 TAAGATTATT
Statistics
Matches: 137, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 69 0.50
41 38 0.28
42 2 0.01
43 28 0.20
ACGTcount: A:0.21, C:0.01, G:0.19, T:0.59
Consensus pattern (40 bp):
TGTTTGGATATTTGTGTTTAGTTATTTAAGTTTATGTTGT
Found at i:15680626 original size:32 final size:32
Alignment explanation
Indices: 15680588--15680648 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
15680578 CCAATCACAG
* *
15680588 TTTAGTACACATTTAATGTAGAATTTACGCAT
1 TTTAGTACACATTCAATATAGAATTTACGCAT
15680620 TTTAGTACACATTCAATATAGAATTTACG
1 TTTAGTACACATTCAATATAGAATTTACG
15680649 ACTTCCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (32 bp):
TTTAGTACACATTCAATATAGAATTTACGCAT
Found at i:15687485 original size:3 final size:3
Alignment explanation
Indices: 15687477--15687502 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15687467 AGATGAATCT
15687477 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
15687503 GGAGGAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:15691187 original size:8 final size:8
Alignment explanation
Indices: 15691170--15691200 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
15691160 AAAACAAAGG
15691170 AAAAGAAGA
1 AAAAG-AGA
15691179 AAAAGAGA
1 AAAAGAGA
15691187 AAAAGAGA
1 AAAAGAGA
15691195 AAAAGA
1 AAAAGA
15691201 TTGTTGCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.77
9 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:15691499 original size:35 final size:35
Alignment explanation
Indices: 15691444--15691520 Score: 127
Period size: 35 Copynumber: 2.2 Consensus size: 35
15691434 TGTTGTATAG
* *
15691444 AGAACAACCAGAACAAGTGAAGTGTTACTTCACGC
1 AGAATAACCAGAACAAGTGAAGCGTTACTTCACGC
*
15691479 AGAATAACTAGAACAAGTGAAGCGTTACTTCACGC
1 AGAATAACCAGAACAAGTGAAGCGTTACTTCACGC
15691514 AGAATAA
1 AGAATAA
15691521 GTGAAGCGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.18
Consensus pattern (35 bp):
AGAATAACCAGAACAAGTGAAGCGTTACTTCACGC
Found at i:15691848 original size:29 final size:28
Alignment explanation
Indices: 15691805--15691885 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 28
15691795 CTTATCTTGC
* *
15691805 TCTCGTATACTTATTCATGTACAGCTTAT
1 TCTCTTATACCTATTC-TGTACAGCTTAT
*
15691834 TCTCTTATACCTATTCTCGTACAGCTTCT
1 TCTCTTATACCTATTCT-GTACAGCTTAT
*
15691863 TCTCTTGTACCTATTCTTGTACA
1 TCTCTTATACCTATTC-TGTACA
15691886 CCTCTTTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 1 0.02
29 44 0.96
30 1 0.02
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.46
Consensus pattern (28 bp):
TCTCTTATACCTATTCTGTACAGCTTAT
Found at i:15692123 original size:13 final size:13
Alignment explanation
Indices: 15692105--15692129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15692095 ACTTGAGAGC
15692105 TTCTCTCTCTAAA
1 TTCTCTCTCTAAA
15692118 TTCTCTCTCTAA
1 TTCTCTCTCTAA
15692130 TTATTTTGTA
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:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTCTCTCTAAA
Found at i:15692705 original size:31 final size:31
Alignment explanation
Indices: 15692670--15692734 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
15692660 ATAATTGTAC
*
15692670 AAATTATCTAGTTT-TCTTAATAAAGACATAT
1 AAATTATATA-TTTATCTTAATAAAGACATAT
15692701 AAATTATATATTTATCTTAATAAAGACATAT
1 AAATTATATATTTATCTTAATAAAGACATAT
15692732 AAA
1 AAA
15692735 ATATTTGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (31 bp):
AAATTATATATTTATCTTAATAAAGACATAT
Found at i:15693812 original size:19 final size:19
Alignment explanation
Indices: 15693788--15693824 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15693778 CCATTTGACT
15693788 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
15693807 TATTGGAGTATGATTTGA
1 TATTGGAGTATGATTTGA
15693825 AGGTTTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Done.