Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 37 of 199
Found at i:14795070 original size:17 final size:15
Alignment explanation
Indices: 14795024--14795073 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 15
14795014 CAATATTCAA
*
14795024 AATTAAT-TTAATAT
1 AATTAATATTAATTT
*
14795038 AATTAATATTATTTT
1 AATTAATATTAATTT
14795053 AATTATATTATTAATTT
1 AATTA-A-TATTAATTT
14795070 AATT
1 AATT
14795074 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 7 0.23
15 10 0.33
16 1 0.03
17 12 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTAATATTAATTT
Found at i:14800563 original size:13 final size:14
Alignment explanation
Indices: 14800536--14800565 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14800526 AAAAATAAAA
14800536 TTTTAATTTTAATT
1 TTTTAATTTTAATT
14800550 TTTTAATTTT-ATT
1 TTTTAATTTTAATT
14800563 TTT
1 TTT
14800566 AAAATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:14800573 original size:20 final size:20
Alignment explanation
Indices: 14800534--14800573 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14800524 TTAAAAATAA
**
14800534 AATTTTAATTTTAATTTTTT
1 AATTTTAATTTTAAAATTTT
*
14800554 AATTTTATTTTTAAAATTTT
1 AATTTTAATTTTAAAATTTT
14800574 GGAAACATTT
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:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTAATTTTAAAATTTT
Found at i:14803875 original size:24 final size:24
Alignment explanation
Indices: 14803848--14803921 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
14803838 ATGGAAAATT
*
14803848 GTGAAAAGTAGGTATGGTGTTTCA
1 GTGAAAAGTAGGTATGGAGTTTCA
* * *
14803872 GTGAAAA-AAGCATATTGAG-TT--
1 GTGAAAAGTAG-GTATGGAGTTTCA
14803893 GTGAAAAGTAGGTATGGAGTTTCA
1 GTGAAAAGTAGGTATGGAGTTTCA
14803917 GTGAA
1 GTGAA
14803922 GAAAACCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
21 13 0.34
22 4 0.11
23 4 0.11
24 17 0.45
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.30
Consensus pattern (24 bp):
GTGAAAAGTAGGTATGGAGTTTCA
Found at i:14803897 original size:45 final size:46
Alignment explanation
Indices: 14803846--14803984 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
14803836 CCATGGAAAA
*
14803846 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAA-AAAAGCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
*
14803891 TTGTGAAAAGTAGGTATGGAGTTTCAGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
* * * *
14803937 TTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCAGACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
14803983 TT
1 TT
14803985 ATAGCATCGT
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
45 30 0.35
46 56 0.65
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
Found at i:14803898 original size:21 final size:21
Alignment explanation
Indices: 14803872--14803945 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 21
14803862 TGGTGTTTCA
14803872 GTGAAAAAAGCATATTGAGTT
1 GTGAAAAAAGCATATTGAGTT
* * *
14803893 GTGAAAAGTAG-GTATGGAGTTT
1 GTGAAAA-AAGCATATTGAG-TT
*
14803915 CAGTGAAGAAAACCATATTGAGTT
1 --GTGAA-AAAAGCATATTGAGTT
14803939 GTGAAAA
1 GTGAAAA
14803946 GTAGGTATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
21 15 0.38
22 9 0.22
24 8 0.20
25 8 0.20
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (21 bp):
GTGAAAAAAGCATATTGAGTT
Found at i:14806714 original size:37 final size:35
Alignment explanation
Indices: 14806657--14806730 Score: 121
Period size: 37 Copynumber: 2.1 Consensus size: 35
14806647 TTATCATTCT
*
14806657 CTCTTTATATATATATTATAATATTTAATAAATTA
1 CTCTTTATATATATATTATAATATTTAACAAATTA
14806692 CTCTTTATGTATATATATTATAATATTTAACAAATTA
1 CTCTTTA--TATATATATTATAATATTTAACAAATTA
14806729 CT
1 CT
14806731 ATTATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 7 0.19
37 29 0.81
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.50
Consensus pattern (35 bp):
CTCTTTATATATATATTATAATATTTAACAAATTA
Found at i:14807137 original size:29 final size:31
Alignment explanation
Indices: 14807096--14807154 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14807086 CTTAACAAGA
*
14807096 AAATGCCTCTAAAATAATAAC-TAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAAATTAAC
*
14807126 AAATGTCT-TAAAATAATAACAAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAAATTAA
14807155 GAGTAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (31 bp):
AAATGCCTCTAAAATAATAACAAAAATTAAC
Found at i:14808779 original size:46 final size:46
Alignment explanation
Indices: 14808712--14808857 Score: 265
Period size: 46 Copynumber: 3.2 Consensus size: 46
14808702 ACGATGCTAT
* *
14808712 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
14808758 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
14808804 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
14808850 AACTCAGT
1 AACTCAGT
14808858 TTTATTGTTA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 97 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:14815359 original size:17 final size:17
Alignment explanation
Indices: 14815339--14815375 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
14815329 AATTTTTGAA
14815339 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
14815356 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
14815373 TTA
1 TTA
14815376 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:14816184 original size:46 final size:46
Alignment explanation
Indices: 14816126--14816219 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
14816116 CCATGGAAAA
*
14816126 TTGTGAACAGTAGGTATGATGTTTCAGTGAA-GAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGGAAA-CCATACTGAG
*
14816172 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGGAAACCATACTGAG
14816218 TT
1 TT
14816220 ATAGCATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 41 0.91
47 4 0.09
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGATGTTTCAGTGAAGGAAACCATACTGAG
Found at i:14820046 original size:2 final size:2
Alignment explanation
Indices: 14820039--14820117 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
14820029 GAAAAATACA
14820039 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14820081 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14820118 ATGTTTTGTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14828274 original size:23 final size:23
Alignment explanation
Indices: 14828248--14828294 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14828238 AAAAAAACTA
14828248 ATTTATTCTTTGATTTAATAATG
1 ATTTATTCTTTGATTTAATAATG
14828271 ATTTATTCTTTGATTTAATAATG
1 ATTTATTCTTTGATTTAATAATG
14828294 A
1 A
14828295 CAGCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.55
Consensus pattern (23 bp):
ATTTATTCTTTGATTTAATAATG
Found at i:14828301 original size:20 final size:22
Alignment explanation
Indices: 14828255--14828301 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
14828245 CTAATTTATT
* *
14828255 CTTTGATTTAATAATGATTTATT
1 CTTTGATTTAATAATGA-TCATG
14828278 CTTTGATTTAATAATGA-CA-G
1 CTTTGATTTAATAATGATCATG
14828298 CTTT
1 CTTT
14828302 TTTTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 1 0.05
23 17 0.77
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (22 bp):
CTTTGATTTAATAATGATCATG
Found at i:14837781 original size:3 final size:3
Alignment explanation
Indices: 14837773--14837815 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14837763 TAATTAAAAG
14837773 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14837816 ACCAGCAGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14846153 original size:17 final size:17
Alignment explanation
Indices: 14846133--14846178 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
14846123 AAACATTCTC
*
14846133 ATTAAATTTATATTAGT
1 ATTAAATTTAAATTAGT
*
14846150 ATTAAATGTAAATTAGT
1 ATTAAATTTAAATTAGT
14846167 -TTAAAATTTAAA
1 ATT-AAATTTAAA
14846179 AATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 2 0.08
17 23 0.92
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (17 bp):
ATTAAATTTAAATTAGT
Found at i:14846773 original size:15 final size:15
Alignment explanation
Indices: 14846753--14846783 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14846743 TCTTCTAATA
*
14846753 TTCTAATTCAATGTT
1 TTCTAATTCAAAGTT
14846768 TTCTAATTCAAAGTT
1 TTCTAATTCAAAGTT
14846783 T
1 T
14846784 AGTTGATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (15 bp):
TTCTAATTCAAAGTT
Found at i:14847066 original size:21 final size:21
Alignment explanation
Indices: 14847033--14847078 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14847023 TTTTTAATAT
*
14847033 TTTTATATATTTTAAAATAAA
1 TTTTAAATATTTTAAAATAAA
* *
14847054 TTTTAAATTTTTTAAAATTAA
1 TTTTAAATATTTTAAAATAAA
14847075 TTTT
1 TTTT
14847079 TTACTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAATATTTTAAAATAAA
Found at i:14851688 original size:11 final size:11
Alignment explanation
Indices: 14851663--14851772 Score: 71
Period size: 11 Copynumber: 10.5 Consensus size: 11
14851653 ATTTTTTTAA
14851663 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
14851676 TTTTTAAA-TT
1 TTTTAAAATTT
14851686 TTTT--AA-TT
1 TTTTAAAATTT
14851694 T-TTAAAATTT
1 TTTTAAAATTT
14851704 TTTTAAAATTT
1 TTTTAAAATTT
14851715 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
14851728 TTTT-TAA--T
1 TTTTAAAATTT
14851736 TTTTAAAA---
1 TTTTAAAATTT
*
14851744 TTTTAAAATAT
1 TTTTAAAATTT
14851755 TTTTAAAATATT
1 TTTTAAAAT-TT
14851767 TTTTAA
1 TTTTAA
14851773 TCTTTATTTT
Statistics
Matches: 82, Mismatches: 4, Indels: 23
0.75 0.04 0.21
Matches are distributed among these distances:
7 2 0.02
8 18 0.22
9 4 0.05
10 9 0.11
11 27 0.33
12 9 0.11
13 13 0.16
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:14851689 original size:9 final size:9
Alignment explanation
Indices: 14851675--14851717 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 9
14851665 TTAAAATACT
14851675 TTTTTTAAA
1 TTTTTTAAA
14851684 TTTTTT-AA
1 TTTTTTAAA
*
14851692 TTTTTAAAA
1 TTTTTTAAA
14851701 TTTTTTTAAAA
1 -TTTTTT-AAA
14851712 TTTTTT
1 TTTTTT
14851718 TAAAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
9 8 0.28
10 11 0.38
11 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:14851751 original size:51 final size:52
Alignment explanation
Indices: 14851663--14851794 Score: 191
Period size: 51 Copynumber: 2.6 Consensus size: 52
14851653 ATTTTTTTAA
* * *
14851663 TTTTAAAATACTTTTTTTAAATTTTTTAATTTTTAAAATTTTTTTAAAAT-TT
1 TTTTAAAATACTTTTTTT-AATTTTTAAAATTTTAAAATATTTTTAAAATATT
14851715 TTTTAAAATACTTTTTTTAATTTTTAAAATTTTAAAATATTTTTAAAATATT
1 TTTTAAAATACTTTTTTTAATTTTTAAAATTTTAAAATATTTTTAAAATATT
14851767 TTTT--AAT-CTTTATTTTAATTTTTAAAAT
1 TTTTAAAATACTTT-TTTTAATTTTTAAAAT
14851795 AAATTTTTGG
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
49 4 0.05
50 19 0.25
51 28 0.37
52 24 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (52 bp):
TTTTAAAATACTTTTTTTAATTTTTAAAATTTTAAAATATTTTTAAAATATT
Found at i:14851815 original size:31 final size:31
Alignment explanation
Indices: 14851753--14851813 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
14851743 ATTTTAAAAT
* *
14851753 ATTTTTAAAATATTTTTTAATCTTTATTTTA
1 ATTTTTAAAATAATTTTTAATATTTATTTTA
**
14851784 ATTTTTAAAATAAATTTTTGGTATTTATTT
1 ATTTTTAAAAT-AATTTTTAATATTTATTT
14851814 AAAAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTTTAAAATAATTTTTAATATTTATTTTA
Found at i:14852993 original size:29 final size:29
Alignment explanation
Indices: 14852927--14852994 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
14852917 AAAATTAGTT
* *
14852927 TTTTTTATTAGCATTTTTTTATTTTCATC
1 TTTTTTATTAGAATTTTTTTATTTTAATC
* **
14852956 ATTCATATTA-AATTTTTTTTATTTTAATC
1 TTTTTTATTAGAA-TTTTTTTATTTTAATC
14852985 TTTTTTATTA
1 TTTTTTATTA
14852995 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTTTATTAGAATTTTTTTATTTTAATC
Found at i:14853314 original size:20 final size:20
Alignment explanation
Indices: 14853291--14853329 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14853281 CATTTATTAA
**
14853291 AATAATAATTTTATAAATAG
1 AATAATAATACTATAAATAG
14853311 AATAATAATACTATAAATA
1 AATAATAATACTATAAATA
14853330 AAATTGTTTA
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:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAATAATACTATAAATAG
Found at i:14853888 original size:18 final size:18
Alignment explanation
Indices: 14853867--14853904 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14853857 AAAAATGAAC
*
14853867 TTTTAAA-TATTTTTTATT
1 TTTTAAAGT-TTTTTAATT
14853885 TTTTAAAGTTTTTTAATT
1 TTTTAAAGTTTTTTAATT
14853903 TT
1 TT
14853905 GAACTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAAAGTTTTTTAATT
Found at i:14875049 original size:125 final size:125
Alignment explanation
Indices: 14874825--14875141 Score: 553
Period size: 125 Copynumber: 2.5 Consensus size: 125
14874815 GATTAAATCA
* * * *
14874825 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAGTTGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
* * *
14874890 AGGTCCTTGAAAAATAATTTCTAGTTGACCTTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACCTTTCTAAGCAAATAGTATAAAAAACGCTTC
*
14874950 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGAGCCCTCGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
*
14875015 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTGACCTTTCTAAGCAAATAGTATAAAAAACGCTTC
14875075 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
14875140 AG
66 AG
14875142 TATGTTTGGG
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
125 182 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (125 bp):
AAGCAGGATGCTTTATCAGAAGAATTTCTGAAATCGCGCCCTCGTAGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACCTTTCTAAGCAAATAGTATAAAAAACGCTTC
Found at i:14878166 original size:19 final size:18
Alignment explanation
Indices: 14878142--14878272 Score: 55
Period size: 16 Copynumber: 7.3 Consensus size: 18
14878132 ATCTAATATT
14878142 TTGTTAGTAAAATTATTAA
1 TTGTTA-TAAAATTATTAA
14878161 TTG-T-T--AATTGCATTAA
1 TTGTTATAAAATT--ATTAA
* *
14878177 TTGTTAGTAAATTTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
14878197 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
*
14878214 TTG-T-T-AATTGTATTAA
1 TTGTTATAAAAT-TATTAA
*
14878230 TTGTTAGTAAAATTATCAAA
1 TTGTTA-TAAAATTAT-TAA
* *
14878250 TT-ATATCAAATTATTAA
1 TTGTTATAAAATTATTAA
14878267 TTGTTA
1 TTGTTA
14878273 GTACCCGTCA
Statistics
Matches: 83, Mismatches: 13, Indels: 33
0.64 0.10 0.26
Matches are distributed among these distances:
14 4 0.05
15 3 0.04
16 19 0.23
17 11 0.13
18 18 0.22
19 14 0.17
20 11 0.13
21 3 0.04
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (18 bp):
TTGTTATAAAATTATTAA
Found at i:14878210 original size:53 final size:53
Alignment explanation
Indices: 14878151--14878369 Score: 228
Period size: 53 Copynumber: 4.0 Consensus size: 53
14878141 TTTGTTAGTA
14878151 AAATTATTAATTGTTAATTGCATTAATTGTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGCATTAATTGTTAGTAAATTTATCAAATTATATC
* *
14878204 AAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATCAAATTATATC
1 AAATTATTAATTGTTAATTGCATTAATTGTTAGTAAATTTATCAAATTATATC
** ** * ** *
14878257 AAATTATTAATTGTTAGTACCCGTCAAAACATT-TT-GTAAAATCTAAT-ATTTTGTTAGTC
1 AAATTATTAATTGTTA--A-TTG-CATTA-ATTGTTAGT-AAAT-TTATCAAATT-ATA-TC
**
14878316 AAATTATTAATTGTTAATTATATTAATTGTTAGTAAATTTATCAAATTATATC
1 AAATTATTAATTGTTAATTGCATTAATTGTTAGTAAATTTATCAAATTATATC
14878369 A
1 A
14878370 TTTAGGGTTA
Statistics
Matches: 132, Mismatches: 22, Indels: 24
0.74 0.12 0.13
Matches are distributed among these distances:
53 70 0.53
54 8 0.06
55 12 0.09
56 5 0.04
57 11 0.08
58 8 0.06
59 18 0.14
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (53 bp):
AAATTATTAATTGTTAATTGCATTAATTGTTAGTAAATTTATCAAATTATATC
Found at i:14878474 original size:22 final size:21
Alignment explanation
Indices: 14878443--14878603 Score: 223
Period size: 21 Copynumber: 7.5 Consensus size: 21
14878433 AGGGTTATGT
14878443 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
*
14878464 TTAGGGTTTTTAAGTTAAGTG
1 TTAGGGTTTTTAAGTTAAGGG
*
14878485 TTAGGGTTTTTAAGTTAAAGGT
1 TTAGGGTTTTTAAGTT-AAGGG
* *
14878507 TTAAGGTTTTTAAGTTGAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* *
14878528 TTAGGGTTTTTAAGTCAAGGAT
1 TTAGGGTTTTTAAGTTAAGG-G
14878550 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
* *
14878571 TTTATGGTTTTTAAGTTAAAGG
1 -TTAGGGTTTTTAAGTTAAGGG
14878593 TTAGGGTTTTT
1 TTAGGGTTTTT
14878604 GTTAGGGTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
21 66 0.54
22 56 0.46
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:14878516 original size:43 final size:43
Alignment explanation
Indices: 14878443--14878603 Score: 229
Period size: 43 Copynumber: 3.8 Consensus size: 43
14878433 AGGGTTATGT
* *
14878443 TTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTAAGTTAAGTG
1 TTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGG
* *
14878485 TTAGGGTTTTTAAGTTAAAGGTTTAAGGTTTTTAAGTTGAGGG
1 TTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGG
*
14878528 TTAGGGTTTTTAAG-TCAAGGATTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAAGG-TTTAGGGTTTTTAAGTTAAGGG
*
14878571 TTTATGGTTTTTAAGTTAAAGG-TTAGGGTTTTT
1 -TTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTT
14878604 GTTAGGGTTT
Statistics
Matches: 106, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
42 21 0.20
43 67 0.63
44 13 0.12
45 5 0.05
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (43 bp):
TTAGGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAAGTTAAGGG
Found at i:14878632 original size:7 final size:7
Alignment explanation
Indices: 14878620--14878659 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
14878610 GTTTGTCAAT
14878620 TAAATTA
1 TAAATTA
14878627 TAAATT-
1 TAAATTA
14878633 T-AATTA
1 TAAATTA
14878639 TAAATTA
1 TAAATTA
14878646 TAAATTTA
1 TAAA-TTA
14878654 TAAATT
1 TAAATT
14878660 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:14878632 original size:12 final size:12
Alignment explanation
Indices: 14878617--14878659 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
14878607 AGGGTTTGTC
14878617 AATTAAATTATA
1 AATTAAATTATA
*
14878629 AATTTAATTATA
1 AATTAAATTATA
14878641 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
14878656 AATT
1 AATT
14878660 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:14878897 original size:21 final size:21
Alignment explanation
Indices: 14878873--14878912 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14878863 TTGTGGTTGC
14878873 TCCGGT-GGGAATTCTGGTTCT
1 TCCGGTAGGGAA-TCTGGTTCT
*
14878894 TCCGGTAGGGCATCTGGTT
1 TCCGGTAGGGAATCTGGTT
14878913 GTCGGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.10, C:0.20, G:0.35, T:0.35
Consensus pattern (21 bp):
TCCGGTAGGGAATCTGGTTCT
Found at i:14881054 original size:29 final size:28
Alignment explanation
Indices: 14881021--14881077 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
14881011 GGATTTAAGA
*
14881021 GAAATTTAAGAGGAAATTGAGAGCAAATT
1 GAAATTAAAGAGGAAATTGAGAG-AAATT
* * *
14881050 GAAATTAAATATGAATTTGAGAGAAATT
1 GAAATTAAAGAGGAAATTGAGAGAAATT
14881078 TGGAAGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.49, C:0.02, G:0.21, T:0.28
Consensus pattern (28 bp):
GAAATTAAAGAGGAAATTGAGAGAAATT
Found at i:14881964 original size:16 final size:16
Alignment explanation
Indices: 14881943--14881973 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14881933 GAGAAAAATA
*
14881943 AAAAGTTTTAGAGAAT
1 AAAAGTTTGAGAGAAT
14881959 AAAAGTTTGAGAGAA
1 AAAAGTTTGAGAGAA
14881974 AGTAAATAGG
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:0.52, C:0.00, G:0.23, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGAGAAT
Found at i:14882254 original size:29 final size:30
Alignment explanation
Indices: 14882212--14882268 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
14882202 AGGTTGGGAG
*
14882212 GGGAGAGGAATAAAAGTTTTGGGGGAAAGT
1 GGGAGAGGAATAAAAGTTTTGAGGGAAAGT
*
14882242 GGGA-AGGAGTAAAAGTTTTGAGGGAAA
1 GGGAGAGGAATAAAAGTTTTGAGGGAAA
14882269 AGTAAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (30 bp):
GGGAGAGGAATAAAAGTTTTGAGGGAAAGT
Found at i:14888145 original size:22 final size:22
Alignment explanation
Indices: 14888116--14888163 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
14888106 AGTTCATGTG
14888116 TATT-TCATTTTTCATA-ATTCT
1 TATTATCATTTTTCATATATT-T
*
14888137 TATTATCATTTTTTATATATTT
1 TATTATCATTTTTCATATATTT
14888159 TATTA
1 TATTA
14888164 AGTTTTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 17 0.71
23 3 0.12
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTATCATTTTTCATATATTT
Found at i:14888982 original size:17 final size:17
Alignment explanation
Indices: 14888962--14888998 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
14888952 AATTTTTGAA
14888962 TTAGTGAATTTTGCGAT
1 TTAGTGAATTTTGCGAT
*
14888979 TTAGTGAATTTTGTGAT
1 TTAGTGAATTTTGCGAT
14888996 TTA
1 TTA
14888999 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTTTGCGAT
Found at i:14889800 original size:46 final size:46
Alignment explanation
Indices: 14889733--14889918 Score: 282
Period size: 46 Copynumber: 4.0 Consensus size: 46
14889723 CCATGGAAAA
*
14889733 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAGCCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* *
14889779 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAATAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* * *
14889825 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAATCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
* * * *
14889871 TTGTGAAAAGTAGGTATGGTATTTCAATGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
14889917 TT
1 TT
14889919 ATAGCATTGT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.35, C:0.08, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
Found at i:14892694 original size:62 final size:63
Alignment explanation
Indices: 14892591--14892715 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 63
14892581 TTCTGATCAA
14892591 GTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAG-AAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTAACAAAGTGATAAGTG
* * *
14892652 GTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAGTAACAAAGTGATAAGTG
14892716 ATAGCTTTAG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
61 21 0.36
62 23 0.40
63 2 0.03
64 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (63 bp):
GTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGTAACAAAGTGATAAGTG
Found at i:14892717 original size:61 final size:58
Alignment explanation
Indices: 14892584--14892718 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 58
14892574 TGAGTACTTC
*
14892584 TGATCAAGTGACAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGAACAAG
1 TGAT-AAGTGATAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGAACAAG
* *
14892643 TGATAAGTGGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAG
1 TGATAA---GTGATAAAGTGATAAGTGATAGC-TTAGCTACACTTATCTGATCAAG-AAC-AAG
14892707 TGATAAGTGATA
1 TGATAAGTGATA
14892719 GCTTTAGCTA
Statistics
Matches: 67, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
58 2 0.03
59 4 0.06
61 27 0.40
62 23 0.34
63 2 0.03
64 9 0.13
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (58 bp):
TGATAAGTGATAAAGTGATAAGTGATAGCTTAGCTACACTTATCTGATCAAGAACAAG
Found at i:14892793 original size:43 final size:44
Alignment explanation
Indices: 14892658--14892804 Score: 226
Period size: 46 Copynumber: 3.3 Consensus size: 44
14892648 AGTGGTGATA
*
14892658 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
1 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG-GAC
*
14892703 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGGTC-AGGAAC
1 -AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGG-AC
*
14892748 AAGTGATAAGTGATAGC-CTAGCTACACTTATCTGATCAAGGAC
1 AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGGAC
14892791 AAGTGATAAGTGAT
1 AAGTGATAAGTGAT
14892805 CATACGTAAG
Statistics
Matches: 95, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
43 34 0.36
44 21 0.22
45 4 0.04
46 36 0.38
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (44 bp):
AAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGGAC
Found at i:14897264 original size:46 final size:46
Alignment explanation
Indices: 14897161--14897318 Score: 250
Period size: 46 Copynumber: 3.5 Consensus size: 46
14897151 TACATATGAT
* *
14897161 CACTTATCACTTT-TC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
14897204 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
14897250 CACTTATCACTTTGTCACTTGATCATATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
14897296 CACTTATCACCTTATCACTTGAT
1 CACTTATCACTTTGTCACTTGAT
14897319 TAGAAGTACT
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
43 13 0.12
44 2 0.02
45 20 0.19
46 72 0.67
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:14910228 original size:21 final size:21
Alignment explanation
Indices: 14910202--14910242 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14910192 TGGATTGGAG
*
14910202 GATAAGTATCATTCCTTTTGT
1 GATAAGGATCATTCCTTTTGT
* *
14910223 GATAAGGATGATTTCTTTTG
1 GATAAGGATCATTCCTTTTG
14910243 GTATTATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (21 bp):
GATAAGGATCATTCCTTTTGT
Found at i:14911137 original size:6 final size:6
Alignment explanation
Indices: 14911113--14911151 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
14911103 AAACTAAAAT
* *
14911113 AAATTA AAACTGA ACATGA AAATGA AAATGA AAATGA AA
1 AAATGA AAA-TGA AAATGA AAATGA AAATGA AAATGA AA
14911152 TATTAAACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
6 25 0.86
7 4 0.14
ACGTcount: A:0.64, C:0.05, G:0.13, T:0.18
Consensus pattern (6 bp):
AAATGA
Found at i:14911149 original size:18 final size:19
Alignment explanation
Indices: 14911102--14911151 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
14911092 TTTAGAAGTT
*
14911102 AAAACT-AAAAT--AAATT
1 AAAACTGAAAATGAAAATG
*
14911118 AAAACTGAACATGAAAATG
1 AAAACTGAAAATGAAAATG
14911137 AAAA-TGAAAATGAAA
1 AAAACTGAAAATGAAA
14911152 TATTAAACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.21
17 4 0.14
18 10 0.36
19 8 0.29
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (19 bp):
AAAACTGAAAATGAAAATG
Found at i:14923436 original size:25 final size:23
Alignment explanation
Indices: 14923408--14923454 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
14923398 AAATTCATTA
14923408 AAATTATATATAAATATATCAAATT
1 AAATTATA-ATAAAT-TATCAAATT
*
14923433 AAATTATAATAAATTATTAAAT
1 AAATTATAATAAATTATCAAAT
14923455 GTTTGCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTATAATAAATTATCAAATT
Found at i:14923557 original size:23 final size:24
Alignment explanation
Indices: 14923507--14923558 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
14923497 AATATAAATC
*
14923507 TTAAA-TGTTTTTAAAACATTAAT
1 TTAAATTGTTCTTAAAACATTAAT
* *
14923530 ATAAATTGTTCTTAAAA-TTTAAT
1 TTAAATTGTTCTTAAAACATTAAT
14923553 TTAAAT
1 TTAAAT
14923559 ATATAAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
TTAAATTGTTCTTAAAACATTAAT
Found at i:14925499 original size:21 final size:21
Alignment explanation
Indices: 14925473--14925532 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
14925463 TTCTCTAACC
14925473 ATGGTCAAAATTATTTTGAAA
1 ATGGTCAAAATTATTTTGAAA
** *
14925494 ATGGTCAAAATTATAATGGAA
1 ATGGTCAAAATTATTTTGAAA
* *
14925515 GTGGTCAGAATTATTTTG
1 ATGGTCAAAATTATTTTG
14925533 CTGGTCAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGGTCAAAATTATTTTGAAA
Found at i:14925555 original size:18 final size:17
Alignment explanation
Indices: 14925515--14925560 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
14925505 TATAATGGAA
* *
14925515 GTGGTCAGAATTATTTT
1 GTGGTCAAAATTATATT
14925532 GCTGGTCAAAATTATGATT
1 G-TGGTCAAAATTAT-ATT
14925551 GTGGTCAAAA
1 GTGGTCAAAA
14925561 GTGGTATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.37
Consensus pattern (17 bp):
GTGGTCAAAATTATATT
Found at i:14933003 original size:19 final size:20
Alignment explanation
Indices: 14932967--14933004 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
14932957 AGTCTTGTTT
* *
14932967 TATTATTTTAATTTGATTTG
1 TATTATTTTAAGTAGATTTG
14932987 TATT-TTTTAAGTAGATTT
1 TATTATTTTAAGTAGATTT
14933005 AAATTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (20 bp):
TATTATTTTAAGTAGATTTG
Found at i:14936677 original size:17 final size:17
Alignment explanation
Indices: 14936651--14936684 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14936641 TACGCTTATT
* *
14936651 TATTTTTTTATTTGTTC
1 TATTTATTTAGTTGTTC
14936668 TATTTATTTAGTTGTTC
1 TATTTATTTAGTTGTTC
14936685 CCATAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.71
Consensus pattern (17 bp):
TATTTATTTAGTTGTTC
Found at i:14936786 original size:21 final size:21
Alignment explanation
Indices: 14936762--14936803 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14936752 AGTAAATTAC
14936762 TAAA-AAAATTAATACATAAAA
1 TAAATAAAA-TAATACATAAAA
* *
14936783 TAAATACAATAATAGATAAAA
1 TAAATAAAATAATACATAAAA
14936804 CGATATGCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAATAAAATAATACATAAAA
Found at i:14937622 original size:20 final size:21
Alignment explanation
Indices: 14937593--14937634 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14937583 ATAATAATAT
*
14937593 CAATAAAAAATT-AAATCAAA
1 CAATAAAAAATTCAAACCAAA
*
14937613 CAATATAAAATTCAAACCAAA
1 CAATAAAAAATTCAAACCAAA
14937634 C
1 C
14937635 CAAACTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (21 bp):
CAATAAAAAATTCAAACCAAA
Found at i:14947235 original size:32 final size:32
Alignment explanation
Indices: 14947198--14947259 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
14947188 CCCAATTCAG
14947198 AGAGCACACTCCCACGAACCTCATTTCTTAAA
1 AGAGCACACTCCCACGAACCTCATTTCTTAAA
*
14947230 AGAGCACACTCCCGCGAACCTCATTTCTTA
1 AGAGCACACTCCCACGAACCTCATTTCTTA
14947260 CAGTGGGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.35, G:0.11, T:0.23
Consensus pattern (32 bp):
AGAGCACACTCCCACGAACCTCATTTCTTAAA
Found at i:14947507 original size:57 final size:57
Alignment explanation
Indices: 14947419--14947527 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
14947409 AATTCGGATT
*
14947419 ACCCGTTCGGGCTAAATCCATTTTCCACATATTCTTCGGG-AGGACTATATCAAGATC
1 ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAAGG-CTATATCAAGATC
* *
14947476 ACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAAGGCTATATCA
1 ACCCGTCCGGGCTAAATCCATTTTC-CACATATTCTTCGGGAAGGCTATATCA
14947528 GGATAGGATC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
56 6 0.13
57 38 0.81
58 3 0.06
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (57 bp):
ACCCGTCCGGGCTAAATCCATTTTCCACATATTCTTCGGGAAGGCTATATCAAGATC
Found at i:14950755 original size:31 final size:31
Alignment explanation
Indices: 14950720--14950824 Score: 92
Period size: 31 Copynumber: 3.4 Consensus size: 31
14950710 TATTATCATC
14950720 GAATGTATATACACTTTAAACATGAATAGCT
1 GAATGTATATACACTTTAAACATGAATAGCT
* * *
14950751 GAATGCT-TATACAC-ATAACAAAT-ATTATCA-CC
1 GAATG-TATATACACTTTAA-ACATGA--AT-AGCT
*
14950783 GAATGTATATACACTTTAAACATGAATAGTT
1 GAATGTATATACACTTTAAACATGAATAGCT
*
14950814 GAATGCATATA
1 GAATGTATATA
14950825 TACATATGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 18
0.69 0.10 0.22
Matches are distributed among these distances:
30 5 0.09
31 28 0.49
32 19 0.33
33 5 0.09
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (31 bp):
GAATGTATATACACTTTAAACATGAATAGCT
Found at i:14950794 original size:32 final size:33
Alignment explanation
Indices: 14950703--14950797 Score: 85
Period size: 32 Copynumber: 3.0 Consensus size: 33
14950693 CATATATGCT
* *
14950703 TAACAAATATTATCATCGAATGTATATACACTT
1 TAACAAATATTATCACCGAATGTATATACACTA
* *
14950736 TAA-ACATGA--AT-AGCTGAATGCT-TATACAC-A
1 TAACAAAT-ATTATCA-CCGAATG-TATATACACTA
14950766 TAACAAATATTATCACCGAATGTATATACACT
1 TAACAAATATTATCACCGAATGTATATACACT
14950798 TTAAACATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
30 5 0.11
31 18 0.38
32 19 0.40
33 5 0.11
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (33 bp):
TAACAAATATTATCACCGAATGTATATACACTA
Found at i:14950802 original size:63 final size:67
Alignment explanation
Indices: 14950703--14950864 Score: 242
Period size: 63 Copynumber: 2.4 Consensus size: 67
14950693 CATATATGCT
*
14950703 TAACAAATATTATCATCGAATGTATATACACTTTAAACATGAATAGCTGAATGC-T-TATAC-A-
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACAAG
14950764 CA
66 CA
*
14950766 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGTTGAATGCATATATACATA
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACA-A
*
14950831 TGCC
65 -GCA
*
14950835 TAACAAGTATTATCACCGAATGTATATACA
1 TAACAAATATTATCACCGAATGTATATACA
14950865 TGTTCTTCAA
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
63 52 0.58
64 1 0.01
65 5 0.06
67 1 0.01
69 30 0.34
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (67 bp):
TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACAAG
CA
Found at i:14951037 original size:41 final size:41
Alignment explanation
Indices: 14950978--14951095 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 41
14950968 TGATTCAGTA
* * * * * *
14950978 CACCGGCTTTTAGCCTGCTAGACTTATAGTCTGAATTGTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
*
14951019 CACCGGCATTAAGTCTGCTAGACATAAAGTCTGAAATCTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
* * *
14951060 CACCGGCATCAAACCTGCTAGACGTAAAGTCTGAAA
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAA
14951096 CATTCGATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATCTTT
Found at i:14952437 original size:44 final size:44
Alignment explanation
Indices: 14952384--14952474 Score: 155
Period size: 44 Copynumber: 2.1 Consensus size: 44
14952374 TGAAGTATTC
* *
14952384 AAAGGAACAATCTCAAAAACGTAAAAATTATCAAAAACCGAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCAAGCT
*
14952428 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAATCAAGCT
1 AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCAAGCT
14952472 AAA
1 AAA
14952475 ATGAACTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.57, C:0.18, G:0.09, T:0.16
Consensus pattern (44 bp):
AAAGCAACAATCTCAAAAACGTAAAAATTATCAAAAACCAAGCT
Found at i:14953583 original size:16 final size:16
Alignment explanation
Indices: 14953559--14953593 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14953549 ATTTTGCCTA
*
14953559 AAATGTGAATTGAATT
1 AAATATGAATTGAATT
*
14953575 AAATATGAATTGTATT
1 AAATATGAATTGAATT
14953591 AAA
1 AAA
14953594 CTGAGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (16 bp):
AAATATGAATTGAATT
Found at i:14954125 original size:25 final size:25
Alignment explanation
Indices: 14954097--14954238 Score: 107
Period size: 24 Copynumber: 5.9 Consensus size: 25
14954087 GGCTTTTTAT
**
14954097 GAGCTTCTTGATTAATGGCTCTCCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
14954122 GAGCTTCCAGA-T-ATGGCTCGTTC-
1 GAGCTTCCCGATTAATGGCTC-TCCG
* * *
14954145 GAACTTCCCGATTTATGGCTATCCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* *
14954170 GAGCTTCTCG-TTAATGGCTCTTCG
1 GAGCTTCCCGATTAATGGCTCTCCG
* * * **
14954194 GAGCTACCCG-TTATTGGCTCGCAT
1 GAGCTTCCCGATTAATGGCTCTCCG
14954218 GAGCTTCCCGATT-ATGGCTCT
1 GAGCTTCCCGATTAATGGCTCT
14954239 TATGAGCTTC
Statistics
Matches: 90, Mismatches: 22, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
23 16 0.18
24 49 0.54
25 25 0.28
ACGTcount: A:0.16, C:0.27, G:0.24, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCTCCG
Found at i:14954235 original size:72 final size:73
Alignment explanation
Indices: 14954097--14954236 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 73
14954087 GGCTTTTTAT
* * *
14954097 GAGCTTCTTGATTAATGGCTCTCCGGAGCTTCCAGATATGGCTCGTTCGAACTTCCCGATTTATG
1 GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATTTATG
14954162 GCTATCCG
66 GCTATCCG
* * * *
14954170 GAGCTTCTCG-TTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCAT-GAGCTTCCCGA-TTA
1 GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATA-TGGCTCG-ATCGAACTTCCCGATTTA
14954232 TGGCT
64 TGGCT
14954237 CTTATGAGCT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
72 31 0.53
73 26 0.45
74 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.24, T:0.33
Consensus pattern (73 bp):
GAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATTTATG
GCTATCCG
Found at i:14954246 original size:72 final size:73
Alignment explanation
Indices: 14954093--14954248 Score: 174
Period size: 72 Copynumber: 2.2 Consensus size: 73
14954083 TAAAGGCTTT
* * *
14954093 TTATGAGCTTCTTGATTAATGGCTCTCCGGAGCTTCCAGATATGGCTCGTTCGAACTTCCCGATT
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATT
14954158 TATGGCTA
66 TATGGCTA
*** * * * *
14954166 TCCGGAGCTTCTCG-TTAATGGCTCTTCGGAGCTACCCGTTATTGGCTCGCAT-GAGCTTCCCGA
1 TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATA-TGGCTCG-ATCGAACTTCCCGA
*
14954229 -TTATGGCTC
64 TTTATGGCTA
14954238 TTATGAGCTTC
1 TTATGAGCTTC
14954249 CCTTTATACA
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
72 39 0.58
73 27 0.40
74 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.35
Consensus pattern (73 bp):
TTATGAGCTTCTCGATTAATGGCTCTCCGGAGCTACCAGATATGGCTCGATCGAACTTCCCGATT
TATGGCTA
Found at i:14957844 original size:48 final size:48
Alignment explanation
Indices: 14957777--14957872 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
14957767 ATATACATTT
* *
14957777 TAATTTAATCTCTTGACTAGTGAATGGTCATTTTCTAT-TGTCATTTAC
1 TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCT-TCTGTCATTTAC
*
14957825 TAATTTAATGTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
1 TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
14957873 ATTTTCTGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 43 0.98
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (48 bp):
TAATTTAATCTCTTAACTAGTGAATGGTCAATTTCTTCTGTCATTTAC
Found at i:14966625 original size:36 final size:36
Alignment explanation
Indices: 14966578--14966649 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
14966568 GAGTGAGACA
14966578 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
* *
14966614 TTGAATGTGATGGGATAGGTGTAGTGGAGGTAGGTG
1 TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
14966650 GCGTATTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.46, T:0.29
Consensus pattern (36 bp):
TTGAATGTGATGGAAAAGGTGTAGTGGAGGTAGGTG
Found at i:14994265 original size:22 final size:21
Alignment explanation
Indices: 14994229--14994288 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
14994219 GGCCCGGCCC
*
14994229 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA-AAAAA
14994251 ATTTATTTTAAAAATTAAAAAA
1 ATTTATTTTAAAAA-TAAAAAA
*
14994273 ATATATTTTAAAAATA
1 ATTTATTTTAAAAATA
14994289 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 2 0.06
22 24 0.71
23 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTATTTTAAAAATAAAAAA
Found at i:14994302 original size:17 final size:16
Alignment explanation
Indices: 14994261--14994312 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
14994251 ATTTATTTTA
*
14994261 AAAATTAAAAAAATAT
1 AAAATTAAAAAAATTT
** *
14994277 -ATTTTAAAAATATTTT
1 AAAATTAAAAA-AATTT
14994293 AAAATTAAAAAAATTT
1 AAAATTAAAAAAATTT
14994309 AAAA
1 AAAA
14994313 AGTATTTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTAAAAAAATTT
Found at i:14994311 original size:27 final size:28
Alignment explanation
Indices: 14994279--14994332 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
14994269 AAAAATATAT
14994279 TTTAAAAA-TATTTTAAAATTAAAAAAA
1 TTTAAAAAGTATTTTAAAATTAAAAAAA
14994306 TTTAAAAAGTATTTTAAAATTAAAAAA
1 TTTAAAAAGTATTTTAAAATTAAAAAA
14994333 TAATAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (28 bp):
TTTAAAAAGTATTTTAAAATTAAAAAAA
Found at i:14994384 original size:17 final size:17
Alignment explanation
Indices: 14994351--14994397 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14994341 AAAAAGTATT
*
14994351 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
14994368 TTAAAAA-ACTTTAAAAA
1 TTAAAAATA-TTTAAAAA
* *
14994385 ATAAATATATTTA
1 TTAAAAATATTTA
14994398 TTATATCGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 23 0.92
18 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:14996603 original size:30 final size:29
Alignment explanation
Indices: 14996537--14996605 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
14996527 ACATTTGTAT
* *
14996537 TTTTATTTTTTTATTTTTTAAATTCGTCAA
1 TTTTATTTTTTTATTTTTAAAATTC-TAAA
*
14996567 TATTATTTTTTATATTTTTAAAATT-TAAAA
1 TTTTATTTTTT-TATTTTTAAAATTCT-AAA
14996597 TTTTATTTT
1 TTTTATTTT
14996606 ATTCAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 20 0.61
31 12 0.36
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (29 bp):
TTTTATTTTTTTATTTTTAAAATTCTAAA
Found at i:14998611 original size:5 final size:5
Alignment explanation
Indices: 14998601--14998625 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14998591 ATTTAATCAA
14998601 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
14998626 GGCCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15003601 original size:31 final size:31
Alignment explanation
Indices: 15003529--15003603 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
15003519 ATGTATAATT
*
15003529 TTTTGGACAAGTTTAAGTATCAACTAGATAC
1 TTTTGGACAAGTTTAAGTACCAACTAGATAC
*** *
15003560 TTTCATACAAGTTTAGGTACCAACTAGATAC
1 TTTTGGACAAGTTTAAGTACCAACTAGATAC
15003591 TTTTGGACAAGTT
1 TTTTGGACAAGTT
15003604 CATAGGGCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTTGGACAAGTTTAAGTACCAACTAGATAC
Found at i:15025833 original size:18 final size:16
Alignment explanation
Indices: 15025793--15025841 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
15025783 GAAAAAATTC
*
15025793 TAATTAATATTTTTAA
1 TAATTATTATTTTTAA
15025809 TAA-TATTATTTATTACA
1 TAATTATTATTT-TTA-A
15025826 TAATTATTATTTTTAA
1 TAATTATTATTTTTAA
15025842 AGTTACAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 7 0.24
16 7 0.24
17 7 0.24
18 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATTATTTTTAA
Found at i:15026111 original size:9 final size:9
Alignment explanation
Indices: 15026094--15026130 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15026084 TGAGTTTTCG
15026094 AATTCGAAT
1 AATTCGAAT
*
15026103 AACTCGAAT
1 AATTCGAAT
15026112 AATTCGAAT
1 AATTCGAAT
15026121 AATTCGAAT
1 AATTCGAAT
15026130 A
1 A
15026131 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15026668 original size:17 final size:17
Alignment explanation
Indices: 15026648--15026694 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
15026638 CACATTTTAT
15026648 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
15026665 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
15026683 A-TATTTATATTA
1 ATTATTTATATTA
15026695 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:15027151 original size:5 final size:5
Alignment explanation
Indices: 15027141--15027167 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15027131 AAAATTTTTA
15027141 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
15027168 CAAATACTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:15034860 original size:38 final size:39
Alignment explanation
Indices: 15034764--15034885 Score: 121
Period size: 38 Copynumber: 3.2 Consensus size: 39
15034754 CTTCGAATGC
** * *
15034764 ATATATATA-TTATTCAAATACATATGCCAAAAGCAA-AT
1 ATATATATACTTA-TCAACCACATATGCCGAATGCAACAT
*
15034802 A-AT-TATACTTATCAACCACATGTGCCGAATGC-ACAT
1 ATATATATACTTATCAACCACATATGCCGAATGCAACAT
*
15034838 ATATATATACTTAT-AATTCACATATGCCGAATGCATACAT
1 ATATATATACTTATCAA-CCACATATGCCGAATGCA-ACAT
15034878 ATATATAT
1 ATATATAT
15034886 CCAACAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
35 1 0.01
36 23 0.33
37 9 0.13
38 25 0.36
40 12 0.17
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (39 bp):
ATATATATACTTATCAACCACATATGCCGAATGCAACAT
Found at i:15035105 original size:41 final size:41
Alignment explanation
Indices: 15035060--15035172 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 41
15035050 ACAGATTCAT
*
15035060 CGGCACTTAGCTTGCTAGGCTTAAAGCCTGATTCAAATCAC
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
* ** *
15035101 CGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCAT
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
* *
15035142 CGGCACTTAGCCTGCCAGGCTTTAAGCCTGA
1 CGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
15035173 ATTGATTCAC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (41 bp):
CGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAAATCAC
Found at i:15035211 original size:82 final size:82
Alignment explanation
Indices: 15035055--15035213 Score: 189
Period size: 82 Copynumber: 1.9 Consensus size: 82
15035045 TTAAAACAGA
* * *
15035055 TTCATCGGCACTTAGCTTGCTAGGCTTAAAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCTGATTCAAATCACCGGCAATTAGCCTGCTAGG
* *
15035120 CTTATAGCCTGATTCAG
66 CCTAGAGCCTGATTCAG
* * * *
15035137 TTCATCGGCACTTAGCCTGCCAGGCTTTAAGCCTGAATT-GATTCACTGGCAATATA-CCTGCTA
1 TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCTG-ATTCAAATCACCGGCAAT-TAGCCTGCTA
15035200 GGCGCT-GAGCCTGA
64 GGC-CTAGAGCCTGA
15035214 ATACGCAATT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
82 59 0.91
83 6 0.09
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (82 bp):
TTCATCGGCACTTAGCCTGCCAGGCTTAAAGCCTGATTCAAATCACCGGCAATTAGCCTGCTAGG
CCTAGAGCCTGATTCAG
Found at i:15035391 original size:2 final size:2
Alignment explanation
Indices: 15035384--15035408 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15035374 CGAATACATT
15035384 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
15035409 CTTTATACCA
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:15041965 original size:19 final size:19
Alignment explanation
Indices: 15041913--15041966 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
15041903 TCTACTAGAC
15041913 AAAAAGAATAACATTAATAAT
1 AAAAA-AATAA-ATTAATAAT
15041934 AAAAAAATCAAATTAA-AAT
1 AAAAAAAT-AAATTAATAAT
15041953 ACAAAAAATAAATT
1 A-AAAAAATAAATT
15041967 CCATCATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 9 0.29
20 15 0.48
21 7 0.23
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAAAATAAATTAATAAT
Found at i:15050307 original size:20 final size:20
Alignment explanation
Indices: 15050267--15050322 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
15050257 GTTATACGTT
15050267 TAAAAATTAAAATTAATTTAAA
1 TAAAAATT-AAATT-ATTTAAA
15050289 TAAAAATTAAATTATTTAAA
1 TAAAAATTAAATTATTTAAA
*
15050309 -AAATAATAAAATTA
1 TAAA-AATTAAATTA
15050323 AATTTCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 3 0.09
20 16 0.50
21 5 0.16
22 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATTAAATTATTTAAA
Found at i:15063493 original size:9 final size:9
Alignment explanation
Indices: 15063479--15063508 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15063469 TTAATTTTCA
15063479 TTTTTCCTT
1 TTTTTCCTT
*
15063488 TTTTTCTTT
1 TTTTTCCTT
15063497 TTTTTCCTT
1 TTTTTCCTT
15063506 TTT
1 TTT
15063509 CCTTTTTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:15063515 original size:18 final size:18
Alignment explanation
Indices: 15063479--15063515 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
15063469 TTAATTTTCA
*
15063479 TTTTTCCTTTTTTTCTTT
1 TTTTTCCTTTTTCTCTTT
15063497 TTTTTCCTTTTTC-CTTT
1 TTTTTCCTTTTTCTCTTT
15063514 TT
1 TT
15063516 CCCATTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTTTCCTTTTTCTCTTT
Found at i:15064095 original size:26 final size:25
Alignment explanation
Indices: 15064048--15064096 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15064038 CTCGGTGGAG
*
15064048 TGGATACGCGACTCGGACGATGGGT
1 TGGATACGCGAATCGGACGATGGGT
15064073 TGGATGACGCTGAATCGGA-GATGG
1 TGGAT-ACGC-GAATCGGACGATGG
15064097 TGCCACCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 5 0.24
26 9 0.43
27 7 0.33
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.20
Consensus pattern (25 bp):
TGGATACGCGAATCGGACGATGGGT
Found at i:15066477 original size:20 final size:21
Alignment explanation
Indices: 15066452--15066496 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
15066442 ACAAAAATTA
15066452 TAAAAAATT-AAAATAATTTT
1 TAAAAAATTCAAAATAATTTT
15066472 T-AAAAATTCAAAATAATTTT
1 TAAAAAATTCAAAATAATTTT
15066492 TAAAA
1 TAAAA
15066497 TTCCAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.30
20 13 0.57
21 3 0.13
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATTCAAAATAATTTT
Found at i:15066503 original size:20 final size:20
Alignment explanation
Indices: 15066454--15066523 Score: 92
Period size: 19 Copynumber: 3.6 Consensus size: 20
15066444 AAAAATTATA
15066454 AAAAATT-AAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
15066473 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAATAATTTTT
* *
15066493 -AAAATTCCAAAT-ATTTAT
1 AAAAATTCAAAATAATTTTT
*
15066511 AAAAATTCTAAAT
1 AAAAATTCAAAAT
15066524 TGTATATTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
18 5 0.11
19 29 0.63
20 12 0.26
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTT
Found at i:15078965 original size:19 final size:18
Alignment explanation
Indices: 15078911--15078969 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
15078901 TTTCTATACT
15078911 TTTATTCAGATTAAAATGTC
1 TTTATTCAGATT-AAATG-C
* * * *
15078931 ATTAGTAAGCTTAAATGC
1 TTTATTCAGATTAAATGC
15078949 TTTATTCAGATTGAAATGC
1 TTTATTCAGATT-AAATGC
15078968 TT
1 TT
15078970 ATGCAAACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
20 8 0.27
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTATTCAGATTAAATGC
Found at i:15081192 original size:23 final size:23
Alignment explanation
Indices: 15081165--15081217 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
15081155 AGTGTTATTG
15081165 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15081188 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15081211 ATCAGTG
1 ATCAGTG
15081218 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15081389 original size:38 final size:37
Alignment explanation
Indices: 15081347--15081419 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
15081337 ATGTGTGGAA
* *
15081347 TTGAATTGAATATTGACTTGAAAA-TGGAAAAGTGAATT
1 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAATT
15081385 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAA
15081420 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.45, C:0.01, G:0.22, T:0.32
Consensus pattern (37 bp):
TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAATT
Found at i:15132282 original size:9 final size:9
Alignment explanation
Indices: 15132268--15132339 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
15132258 TATTTCATTG
15132268 TTTAAATTT
1 TTTAAATTT
15132277 TTTAAATTT
1 TTTAAATTT
15132286 TTT-AATTT
1 TTTAAATTT
*
15132294 GTTAAATTT
1 TTTAAATTT
* *
15132303 ATTCATATTT
1 -TTTAAATTT
15132313 TTATAAATTCT
1 TT-TAAATT-T
*
15132324 ATATAAA-TT
1 -TTTAAATTT
15132333 TTTAAAT
1 TTTAAAT
15132340 AATAATATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
8 12 0.24
9 20 0.41
10 11 0.22
11 5 0.10
12 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTAAATTT
Found at i:15133445 original size:24 final size:24
Alignment explanation
Indices: 15133418--15133463 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
15133408 AACACAATTC
15133418 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
15133442 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
15133464 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:15133479 original size:24 final size:24
Alignment explanation
Indices: 15133429--15133480 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
15133419 AATCAAAGTC
** **
15133429 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
15133453 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15133477 AAAT
1 AAAT
15133481 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15141265 original size:19 final size:21
Alignment explanation
Indices: 15141243--15141286 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
15141233 TAAATATGAA
15141243 AAAAAT-TAAGTAC-AAAAAG
1 AAAAATGTAAGTACGAAAAAG
*
15141262 -AAAATGTAAGTACGAAAATG
1 AAAAATGTAAGTACGAAAAAG
15141282 AAAAA
1 AAAAA
15141287 ACCGATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 5 0.24
21 4 0.19
ACGTcount: A:0.66, C:0.05, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAAATGTAAGTACGAAAAAG
Found at i:15150704 original size:41 final size:41
Alignment explanation
Indices: 15150654--15150884 Score: 322
Period size: 41 Copynumber: 5.6 Consensus size: 41
15150644 TTAATTTAAA
** *
15150654 CAGATTCACCGGCACTTAGCCTATTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGGTT
* * *
15150696 CAGATCACCGACACTTATCCTGCTAGGCTTATAGCCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGGTT
*
15150737 CAGATCACCGGCACTTAGCCTGGTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGGTT
* * **
15150778 CAGATCACCGACACTTAGCCTGCTAGGCTTATAGCCTAATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGGTT
15150819 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGGTT
15150860 CAGATCACCGGCACTTAGCCTGCTA
1 CAGATCACCGGCACTTAGCCTGCTA
15150885 AACATAAAGG
Statistics
Matches: 167, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 160 0.96
42 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGGTT
Found at i:15150800 original size:82 final size:82
Alignment explanation
Indices: 15150654--15150884 Score: 365
Period size: 82 Copynumber: 2.8 Consensus size: 82
15150644 TTAATTTAAA
** * *
15150654 CAGATTCACCGGCACTTAGCCTATTAGGCTTA-AAGCCTGATTCAGATCACCGACACTTATCCTG
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTGGTTCAGATCACCGACACTTAGCCTG
**
15150718 CTAGGCTTATAGCCTGGTT
64 CTAGGCTTATAGCCTAATT
*
15150737 CAGATCACCGGCACTTAGCCTGGTAGGCTTATAACCTGGTTCAGATCACCGACACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCACCGACACTTAGCCTGCT
15150802 AGGCTTATAGCCTAATT
66 AGGCTTATAGCCTAATT
*
15150819 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCACCGACACTTAGCCTGCT
15150884 A
66 A
15150885 AACATAAAGG
Statistics
Matches: 139, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
82 133 0.96
83 6 0.04
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGGTTCAGATCACCGACACTTAGCCTGCT
AGGCTTATAGCCTAATT
Found at i:15150878 original size:123 final size:124
Alignment explanation
Indices: 15150654--15150881 Score: 377
Period size: 123 Copynumber: 1.8 Consensus size: 124
15150644 TTAATTTAAA
* * * *
15150654 CAGATTCACCGGCACTTAGCCTATTAGGCTTAAAGCCTGATTCAGATCACCGACACTTATCCTGC
1 CAGATTCACCGACACTTAGCCTACTAGGCTTAAAGCCTAATTCAGATCACCGACACTTAGCCTGC
*
15150719 TAGGCTTATAGCCTGGTTCAGATCACCGGCACTTAGCCTGGTAGGCTTATAACCTGGTT
66 TAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTGGTAGGCTTATAACCTGGTT
* * *
15150778 CAGA-TCACCGACACTTAGCCTGCTAGGCTTATAGCCTAATTCAGATCACCGGCACTTAGCCTGC
1 CAGATTCACCGACACTTAGCCTACTAGGCTTAAAGCCTAATTCAGATCACCGACACTTAGCCTGC
15150842 TAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTG
66 TAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTG
15150882 CTAAACATAA
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
123 92 0.96
124 4 0.04
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (124 bp):
CAGATTCACCGACACTTAGCCTACTAGGCTTAAAGCCTAATTCAGATCACCGACACTTAGCCTGC
TAGGCTTATAACCTGGTTCAGATCACCGGCACTTAGCCTGGTAGGCTTATAACCTGGTT
Found at i:15151633 original size:153 final size:156
Alignment explanation
Indices: 15151458--15151829 Score: 436
Period size: 153 Copynumber: 2.4 Consensus size: 156
15151448 TATATTATAC
* * * *
15151458 ATATATATATGTAACATCCATACTTTTAA-TAAAATCCAATAATTTGTACTCA-TATATACATAC
1 ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAA-TT-TACTCAGTATATACATAC
* * * * *
15151521 CTATTCGAACCTCTTGTAAACATATATAACATTCA-AC-ATTAACTAAATTCAA-AACTTATTCA
64 ATATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCA
*
15151583 TGTATATACACATATATCCGAACTTTAT
129 TGTATATACAAATATATCCGAACTTTAT
* * *
15151611 ATATATAAATATAACATACATACTTTTAACT-AAATTCAAGAATTTATTCATGTATATACATATA
1 ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAATTTACTCA-GTATATACATACA
* * * * * *
15151675 TATCCGAACTTTTTATATATAAATATAACATACATACTTTTAACTAAATTCAAGAATTTATTCAT
65 TATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCAT
*
15151740 GTATATACAAATATATCTGAACTTTAT
130 GTATATACAAATATATCCGAACTTTAT
* *
15151767 ATATATAAATATTAACATACATACTTTTAACT-AAATTCAAGAACTTA-TACATGTATATACATA
1 ATATATAAATA-TAACATACATACTTTTAACTAAAATCCAAGAATTTACT-CA-GTATATACATA
15151830 TAGTATCCAC
Statistics
Matches: 190, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
151 5 0.03
152 2 0.01
153 71 0.37
154 3 0.02
155 14 0.07
156 47 0.25
157 48 0.25
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (156 bp):
ATATATAAATATAACATACATACTTTTAACTAAAATCCAAGAATTTACTCAGTATATACATACAT
ATCCGAACCTCTTATAAACAAATATAACATACATACTATTAACTAAATTCAAGAACTTATTCATG
TATATACAAATATATCCGAACTTTAT
Found at i:15151676 original size:78 final size:78
Alignment explanation
Indices: 15151559--15151837 Score: 470
Period size: 78 Copynumber: 3.6 Consensus size: 78
15151549 ACATTCAACA
*
15151559 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
15151623 AACATACATACTT
66 AACATACATACTT
* *
15151636 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTTTATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
15151701 AACATACATACTT
66 AACATACATACTT
* * *
15151714 TTAACTAAATTCAAGAATTTATTCATGTATATACAAATATATCTGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATA-
15151779 TAACATACATACTT
65 TAACATACATACTT
*
15151793 TTAACTAAATTCAAGAACTTATACATGTATATACATATAGTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
15151838 ACTATTAGTT
Statistics
Matches: 189, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
77 14 0.07
78 121 0.64
79 50 0.26
80 4 0.02
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:15157568 original size:6 final size:6
Alignment explanation
Indices: 15157557--15157592 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
15157547 GGGAGTTGGT
* *
15157557 GGTGGC GGTGGC GGTGGC GGTGGA GGTGGG GGTGGC
1 GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC GGTGGC
15157593 AAAGGAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.11, G:0.69, T:0.17
Consensus pattern (6 bp):
GGTGGC
Found at i:15159903 original size:34 final size:35
Alignment explanation
Indices: 15159859--15159925 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15159849 CAGTAAAATA
*
15159859 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
15159893 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
15159926 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:15166109 original size:2 final size:2
Alignment explanation
Indices: 15166102--15166133 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15166092 GACAAACATT
15166102 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
15166134 AATCAGACCA
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:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:15170837 original size:6 final size:6
Alignment explanation
Indices: 15170826--15170850 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15170816 TTAAAACCGG
15170826 AATTAA AATTAA AATTAA AATTAA A
1 AATTAA AATTAA AATTAA AATTAA A
15170851 TGGAATAACT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATTAA
Found at i:15181822 original size:18 final size:19
Alignment explanation
Indices: 15181795--15181830 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15181785 GGATATAATA
15181795 AATTAATTATT-TTAAAAG
1 AATTAATTATTATTAAAAG
*
15181813 AATTATTTATTATTAAAA
1 AATTAATTATTATTAAAA
15181831 ATTAACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
AATTAATTATTATTAAAAG
Found at i:15188823 original size:39 final size:37
Alignment explanation
Indices: 15188756--15188848 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
15188746 ACCAGAATGG
* *
15188756 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
15188795 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
15188832 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
15188849 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:15189212 original size:3 final size:3
Alignment explanation
Indices: 15189204--15189251 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
15189194 ATTCCCACTC
* * * *
15189204 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15189252 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:15189252 original size:18 final size:18
Alignment explanation
Indices: 15189205--15189253 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
15189195 TTCCCACTCA
*
15189205 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
15189223 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
15189241 TAATATTAATACT
1 TAATAATAATACT
15189254 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:15189253 original size:12 final size:12
Alignment explanation
Indices: 15189204--15189251 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
15189194 ATTCCCACTC
*
15189204 ATAATAATAATA
1 ATAATACTAATA
15189216 ATAATACTAATA
1 ATAATACTAATA
15189228 ATAATACTAATA
1 ATAATACTAATA
* *
15189240 CTAATATTAATA
1 ATAATACTAATA
15189252 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:15189921 original size:11 final size:11
Alignment explanation
Indices: 15189905--15189930 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15189895 CTTTTTCTTC
15189905 TTTCTCCCCTG
1 TTTCTCCCCTG
15189916 TTTCTCCCCTG
1 TTTCTCCCCTG
15189927 TTTC
1 TTTC
15189931 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:15190312 original size:21 final size:21
Alignment explanation
Indices: 15190288--15190330 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15190278 AATAATAACT
15190288 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
15190309 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
15190330 A
1 A
15190331 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:15190828 original size:20 final size:20
Alignment explanation
Indices: 15190803--15190840 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15190793 TATGTTTAAA
15190803 ATGTTA-CATTTTAGTTACTT
1 ATGTTATCATTTT-GTTACTT
15190823 ATGTTATCATTTTGTTAC
1 ATGTTATCATTTTGTTAC
15190841 GAAGCGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.55
Consensus pattern (20 bp):
ATGTTATCATTTTGTTACTT
Found at i:15191276 original size:31 final size:31
Alignment explanation
Indices: 15191241--15191305 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
15191231 ATCAAATTTT
*
15191241 GAAATTGGAATAAAAAAATGATCAGAAATCC
1 GAAATTGGAATAAAAAAATGATCAAAAATCC
15191272 GAAATTGGAATAAAAAAATGATCAAAAATCC
1 GAAATTGGAATAAAAAAATGATCAAAAATCC
15191303 GAA
1 GAA
15191306 TTAACTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.18
Consensus pattern (31 bp):
GAAATTGGAATAAAAAAATGATCAAAAATCC
Found at i:15197789 original size:21 final size:20
Alignment explanation
Indices: 15197764--15197813 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
15197754 ATCCAATACA
15197764 CATTTCAATACCACAATAAT-T
1 CATTTCAAT-CCA-AATAATAT
*
15197785 CATTT-AATTCAAATAATAT
1 CATTTCAATCCAAATAATAT
15197804 CATTTGCAAT
1 CATTT-CAAT
15197814 TTCCATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.24
19 8 0.32
20 3 0.12
21 8 0.32
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.38
Consensus pattern (20 bp):
CATTTCAATCCAAATAATAT
Found at i:15199286 original size:23 final size:22
Alignment explanation
Indices: 15199243--15199286 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15199233 TTCTAAGTCG
15199243 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15199266 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15199287 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15199441 original size:51 final size:50
Alignment explanation
Indices: 15199375--15199519 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
15199365 TCAATGATGT
* *
15199375 TCGGTTCACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAAC-ATC
* * * * * *
15199427 T-GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCCATCATT
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATC
* *
15199476 TCGGTACACGTAGTAGCCTGCACATTGTACTACACACGTGACCA
1 TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
15199520 TCACTTTCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.04
50 39 0.50
51 35 0.45
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (50 bp):
TCGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATC
Found at i:15200457 original size:11 final size:11
Alignment explanation
Indices: 15200421--15200450 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
15200411 TTTTCAAACA
15200421 AAATTTTCACG
1 AAATTTTCACG
15200432 AAATTTTCACG
1 AAATTTTCACG
15200443 AAATTTTC
1 AAATTTTC
15200451 GTGAAATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (11 bp):
AAATTTTCACG
Found at i:15204170 original size:23 final size:23
Alignment explanation
Indices: 15204138--15204192 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
15204128 CATGCATGCC
*
15204138 AACACGTATGCTATCCTAAACTT
1 AACACATATGCTATCCTAAACTT
* * * *
15204161 CACACATATGCTGTTCTAGACTT
1 AACACATATGCTATCCTAAACTT
15204184 AACACATAT
1 AACACATAT
15204193 TCGCTGGTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (23 bp):
AACACATATGCTATCCTAAACTT
Found at i:15209274 original size:21 final size:21
Alignment explanation
Indices: 15209248--15209288 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15209238 ATCTGCTCAA
* *
15209248 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
15209269 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
15209289 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Done.