Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 159 of 160
Found at i:32701797 original size:46 final size:46
Alignment explanation
Indices: 32701724--32701857 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 46
32701714 AAAATAATAA
*
32701724 AAAAAGTAAAAATAAATAAAAATAAAAAAATTAAAGAAAAGTAAAAC-
1 AAAAA-TAAAAATAAATAAAGATAAAAAAATTAAA-AAAAGTAAAACT
* * * * *
32701771 AAAAATAAAAATAAGATAAAGA-AAAAATATTAAATAAATTTAATCT
1 AAAAATAAAAATAA-ATAAAGATAAAAAAATTAAAAAAAGTAAAACT
*
32701817 AATAAATAAAAATAAATAAAGATAAAACAAATAAATAAAAA
1 AA-AAATAAAAATAAATAAAGATAAAA-AAATTAA-AAAAA
32701858 AAAAAACCTG
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
45 7 0.10
46 29 0.40
47 27 0.38
48 5 0.07
49 4 0.06
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.19
Consensus pattern (46 bp):
AAAAATAAAAATAAATAAAGATAAAAAAATTAAAAAAAGTAAAACT
Found at i:32701830 original size:10 final size:10
Alignment explanation
Indices: 32701817--32701857 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
32701807 AATTTAATCT
32701817 AATAAATAAA
1 AATAAATAAA
32701827 AATAAATAAA
1 AATAAATAAA
* *
32701837 GATAAA-ACA
1 AATAAATAAA
32701846 AATAAATAAA
1 AATAAATAAA
32701856 AA
1 AA
32701858 AAAAAACCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AATAAATAAA
Found at i:32701862 original size:19 final size:19
Alignment explanation
Indices: 32701826--32701862 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32701816 TAATAAATAA
* *
32701826 AAATAAATAAAGATAAAAC
1 AAATAAATAAAAAAAAAAC
32701845 AAATAAATAAAAAAAAAA
1 AAATAAATAAAAAAAAAA
32701863 ACCTGGAGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (19 bp):
AAATAAATAAAAAAAAAAC
Found at i:32702770 original size:11 final size:12
Alignment explanation
Indices: 32702748--32702779 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
32702738 AAAAAAAATG
32702748 ATAATGATAATA
1 ATAATGATAATA
32702760 ATAAT-ATAATA
1 ATAATGATAATA
32702771 AT-ATGATAA
1 ATAATGATAA
32702780 CATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.11
11 12 0.63
12 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:32702851 original size:84 final size:80
Alignment explanation
Indices: 32702762--32702932 Score: 172
Period size: 78 Copynumber: 2.1 Consensus size: 80
32702752 TGATAATAAT
* *
32702762 AATATAATAATATGATAACATA-ATAATAACAAAT-ATAACTATATAAATAAAATACATATAAAT
1 AATATAATAATAT-ATAA-ATACACAATAA-AAATAATAA-TAAAT-AATAAAATACATA-AAAT
* * *
32702825 ATTAACAGAAA-AAAATAAATA
60 A-CAAAAGAAAGAAAAAAAATA
* *
32702846 AATAT-AT-ATATATTAATACACAATAATAATAATAATAAATAATAAAATACATAAAATACAAAA
1 AATATAATAATATATAAATACACAATAAAAATAATAATAAATAATAAAATACATAAAATACAAAA
32702909 GAAAGAAAAAAAATA
66 GAAAGAAAAAAAATA
*
32702924 AAAATAATA
1 AATATAATA
32702933 CCAGATAGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
77 7 0.09
78 18 0.24
79 15 0.20
80 10 0.14
81 13 0.18
82 4 0.05
83 2 0.03
84 5 0.07
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (80 bp):
AATATAATAATATATAAATACACAATAAAAATAATAATAAATAATAAAATACATAAAATACAAAA
GAAAGAAAAAAAATA
Found at i:32702881 original size:9 final size:8
Alignment explanation
Indices: 32702807--32702903 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 8
32702797 TAACTATATA
32702807 AATAAAAT
1 AATAAAAT
32702815 ACATATAAAT
1 A-ATA-AAAT
* * *
32702825 ATTAACAG
1 AATAAAAT
*
32702833 AAAAAAAT
1 AATAAAAT
32702841 AAATAAATAT
1 -AATAAA-AT
* *
32702851 ATATATATT
1 A-ATAAAAT
32702860 AATACACAAT
1 AATA-A-AAT
32702870 AATAATAAT
1 AATAA-AAT
32702879 AAT-AAAT
1 AATAAAAT
32702886 AATAAAAT
1 AATAAAAT
32702894 ACATAAAAT
1 A-ATAAAAT
32702903 A
1 A
32702904 CAAAAGAAAG
Statistics
Matches: 67, Mismatches: 13, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
7 6 0.09
8 16 0.24
9 28 0.42
10 17 0.25
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (8 bp):
AATAAAAT
Found at i:32702886 original size:16 final size:16
Alignment explanation
Indices: 32702867--32702900 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
32702857 ATTAATACAC
32702867 AATAATAATAATA-ATA
1 AATAATAA-AATACATA
32702883 AATAATAAAATACATA
1 AATAATAAAATACATA
32702899 AA
1 AA
32702901 ATACAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATAATAAAATACATA
Found at i:32703073 original size:2 final size:2
Alignment explanation
Indices: 32703068--32703095 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32703058 GATAAAAATT
32703068 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
32703096 GGACCCTACA
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):
TA
Found at i:32703501 original size:23 final size:22
Alignment explanation
Indices: 32703450--32703501 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
32703440 ATAAAAACCA
*
32703450 AATTTTATTTTTTTTGCTTTTTT
1 AATTTTA-TTTTTTTGCTTTTGT
*
32703473 ATTTTTA-TTTTTTGCATTTATGT
1 AATTTTATTTTTTTGC-TTT-TGT
32703496 AATTTT
1 AATTTT
32703502 TTAATAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 8 0.33
22 3 0.12
23 13 0.54
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.73
Consensus pattern (22 bp):
AATTTTATTTTTTTGCTTTTGT
Found at i:32703543 original size:20 final size:21
Alignment explanation
Indices: 32703518--32703564 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
32703508 AATCTATATT
*
32703518 AATATA-TATTTTTAAATAAA
1 AATATATTACTTTTAAATAAA
*
32703538 AATATATTACTTTTAATTAAA
1 AATATATTACTTTTAAATAAA
32703559 AATATA
1 AATATA
32703565 CTAGTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATATTACTTTTAAATAAA
Found at i:32705665 original size:1 final size:1
Alignment explanation
Indices: 32705654--32705685 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
32705644 CTTTCTCTAT
*
32705654 AAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
32705686 CCTTTATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:32709137 original size:4 final size:4
Alignment explanation
Indices: 32709128--32709198 Score: 63
Period size: 4 Copynumber: 17.2 Consensus size: 4
32709118 CATAATTGTC
* * * *
32709128 TATT TATT TATT TGTT TGTT TGTT TATTT TATTT TATT TATT TATT T-TAC
1 TATT TATT TATT TATT TATT TATT TA-TT TA-TT TATT TATT TATT TAT-T
*
32709178 TATT TATG TATT TATT TATT T
1 TATT TATT TATT TATT TATT T
32709199 TTAAATATTA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
3 1 0.02
4 47 0.81
5 10 0.17
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:32709382 original size:60 final size:60
Alignment explanation
Indices: 32709246--32709397 Score: 170
Period size: 60 Copynumber: 2.5 Consensus size: 60
32709236 TTTTTAAATA
* * * *
32709246 AAATAAAAAGAATCTTACCAACATATT-GAAAGGTTCAAATTTTTTTAAAATAAATGTTT
1 AAATAAAAAAAAGCTTACCAACATATTAGAAAGATTCAAATTTTTATAAAATAAATGTTT
* * *
32709305 AAATAAAAAGAATCTTACCAACATATTAGAAAGATTCAAATTTTTA-ATAAAT-TAT-TTT
1 AAATAAAAAAAAGCTTACCAACATATTAGAAAGATTCAAATTTTTATA-AAATAAATGTTT
32709363 -AATAAAACAAAAAGGCTTACCAACATATTAGAAAG
1 AAAT-AAA-AAAAA-GCTTACCAACATATTAGAAAG
32709398 CAATTTGATT
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
57 3 0.04
58 6 0.07
59 34 0.41
60 40 0.48
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (60 bp):
AAATAAAAAAAAGCTTACCAACATATTAGAAAGATTCAAATTTTTATAAAATAAATGTTT
Found at i:32713950 original size:34 final size:37
Alignment explanation
Indices: 32713912--32714001 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 37
32713902 TGGGGATGTC
* * *
32713912 AATAATGAATAAA-GTGAAACA-AAATGAAAAA-AAA
1 AATAATGAAAAAATGAGAAAAAGAAATGAAAAAGAAA
32713946 AATAATGAAAAAATGAGAAAAAGAAATGAAAAAGAAA
1 AATAATGAAAAAATGAGAAAAAGAAATGAAAAAGAAA
32713983 AATGAA-G-AAAAATGAGAAA
1 AAT-AATGAAAAAATGAGAAA
32714002 GATGTGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
34 12 0.24
35 6 0.12
36 22 0.45
37 7 0.14
38 2 0.04
ACGTcount: A:0.71, C:0.01, G:0.16, T:0.12
Consensus pattern (37 bp):
AATAATGAAAAAATGAGAAAAAGAAATGAAAAAGAAA
Found at i:32713972 original size:13 final size:13
Alignment explanation
Indices: 32713932--32713994 Score: 53
Period size: 13 Copynumber: 5.0 Consensus size: 13
32713922 AAAGTGAAAC
32713932 AAAATGA-AAAAA
1 AAAATGAGAAAAA
**
32713944 AAAAT-A-ATGAA
1 AAAATGAGAAAAA
32713955 AAAATGAGAAAAA
1 AAAATGAGAAAAA
*
32713968 GAAATGA-AAAAGA
1 AAAATGAGAAAA-A
32713981 AAAATGAAGAAAAA
1 AAAATG-AGAAAAA
32713995 TGAGAAAGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 9 0.22
12 10 0.25
13 15 0.38
14 2 0.05
15 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (13 bp):
AAAATGAGAAAAA
Found at i:32714003 original size:13 final size:13
Alignment explanation
Indices: 32713954--32714003 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
32713944 AAAATAATGA
32713954 AAAAATGAGAAA-
1 AAAAATGAGAAAG
*
32713966 AAGAAATGAAAAAG
1 AA-AAATGAGAAAG
32713980 AAAAAT--G-AAG
1 AAAAATGAGAAAG
32713990 AAAAATGAGAAAG
1 AAAAATGAGAAAG
32714003 A
1 A
32714004 TGTGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
10 9 0.29
12 3 0.10
13 17 0.55
14 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (13 bp):
AAAAATGAGAAAG
Found at i:32714003 original size:34 final size:35
Alignment explanation
Indices: 32713912--32714016 Score: 103
Period size: 34 Copynumber: 3.0 Consensus size: 35
32713902 TGGGGATGTC
* *
32713912 AATAATGAATAAAGTGA-AACA-AAATGAAAAAAAA
1 AATAATGAA-AAAATGAGAAAAGAAATGAAAAAAAA
32713946 AATAATGAAAAAATGAGAAAAAGAAATGAAAAAGAAA
1 AATAATGAAAAAATGAG-AAAAGAAATGAAAAA-AAA
**
32713983 AATGAA-G-AAAAATGAG-AAAGATGTGAAAAAAAA
1 AAT-AATGAAAAAATGAGAAAAGAAATGAAAAAAAA
32714016 A
1 A
32714017 GACTTAAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 10 0.16
34 21 0.34
35 3 0.05
36 19 0.31
37 7 0.11
38 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.16, T:0.12
Consensus pattern (35 bp):
AATAATGAAAAAATGAGAAAAGAAATGAAAAAAAA
Found at i:32714851 original size:15 final size:15
Alignment explanation
Indices: 32714828--32714888 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
32714818 GCATTCATGT
32714828 ATTGCATTCATAAAC
1 ATTGCATTCATAAAC
* *
32714843 ATTGTATTCATAAAT
1 ATTGCATTCATAAAC
* *
32714858 ATTGCTTTCAT--GC
1 ATTGCATTCATAAAC
32714871 ATTGCATTCATAAAC
1 ATTGCATTCATAAAC
32714886 ATT
1 ATT
32714889 ACAGTCATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 10 0.28
15 26 0.72
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.41
Consensus pattern (15 bp):
ATTGCATTCATAAAC
Found at i:32714896 original size:28 final size:28
Alignment explanation
Indices: 32714842--32714897 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
32714832 CATTCATAAA
* * * **
32714842 CATTGTATTCATAAATATTGCTTTCATG
1 CATTGCATTCATAAACATTACAGTCATG
32714870 CATTGCATTCATAAACATTACAGTCATG
1 CATTGCATTCATAAACATTACAGTCATG
32714898 TAATTTGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (28 bp):
CATTGCATTCATAAACATTACAGTCATG
Found at i:32715681 original size:43 final size:43
Alignment explanation
Indices: 32715503--32715707 Score: 123
Period size: 43 Copynumber: 4.7 Consensus size: 43
32715493 AATAAGAATT
* *
32715503 TTTTTTTATATTTCAAAAGTTGTTAAGCCTCTATTGA-AATGAGCA
1 TTTTTTTAT-TTTCAAAAGTTGTTGAGCCTCTATTGAGAGT-AG-A
* * * * *
32715548 TTCTATATT-TTTT-GAAAGTTGTTGAGTCTCTGTTGAGAGAAG-
1 TT-T-TTTTATTTTCAAAAGTTGTTGAGCCTCTATTGAGAGTAGA
* ** * * * * * * *
32715590 TTTTTTATATTTACAAAAACTATTAAGCTTTTGTTTAGAAG-AGC
1 TTTTTT-TATTTTCAAAAGTTGTTGAGCCTCTATTGAG-AGTAGA
*
32715634 TTTTTTTATTTTCAAAAGTTATTGAGCCTCTATTGAGAGTAGA
1 TTTTTTTATTTTCAAAAGTTGTTGAGCCTCTATTGAGAGTAGA
*
32715677 TTTTTATATATTTTTAAAAGTTGTTGAGCCT
1 TTTTT-T-TATTTTCAAAAGTTGTTGAGCCT
32715708 TTGTTGGGAG
Statistics
Matches: 120, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.02
41 2 0.02
42 7 0.06
43 47 0.39
44 30 0.25
45 27 0.22
46 2 0.02
47 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.47
Consensus pattern (43 bp):
TTTTTTTATTTTCAAAAGTTGTTGAGCCTCTATTGAGAGTAGA
Found at i:32715750 original size:48 final size:48
Alignment explanation
Indices: 32715636--32715807 Score: 140
Period size: 48 Copynumber: 3.6 Consensus size: 48
32715626 AGAAGAGCTT
* * * * *
32715636 TTTTTATTTTCAAAAGTTATTGAGCCTCTATTGAGAG-TAGATTTTTATA
1 TTTTT-TTTTC-AAAGTTGTTGAGCCTTTGTTGAGAGAAACATTTTTATA
* * *
32715685 --TATTTTTAAAAGTTGTTGAGCCTTTGTTGGGAGAAACATTTTTATA
1 TTTTTTTTTCAAAGTTGTTGAGCCTTTGTTGAGAGAAACATTTTTATA
* * * *
32715731 TTTTTTTTTCAAAGTTGTTGAG-CTTCTGATAAAAGAAACCTTTTT-T-
1 TTTTTTTTTCAAAGTTGTTGAGCCTT-TGTTGAGAGAAACATTTTTATA
*
32715777 TTTGTATTTTTCAAAGTTGTTAAGCCTTTGT
1 TTT-T-TTTTTCAAAGTTGTTGAGCCTTTGT
32715808 CCACGGGGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 21 0.21
46 17 0.17
47 7 0.07
48 51 0.52
49 3 0.03
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.49
Consensus pattern (48 bp):
TTTTTTTTTCAAAGTTGTTGAGCCTTTGTTGAGAGAAACATTTTTATA
Found at i:32715915 original size:45 final size:44
Alignment explanation
Indices: 32715864--32715952 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 44
32715854 TTTTTAAATA
* *
32715864 TGAATCTTTGATGAGAATCTCAAAAAGTTTTTGAATGCGAACCTT
1 TGAATCTTAGATGAGAATCTCAAAAA-TTTTTGAATGAGAACCTT
** * * *
32715909 TGAATCTTAGATTTGAATTTCTAAGATTTTTGAATGAGAACCTT
1 TGAATCTTAGATGAGAATCTCAAAAATTTTTGAATGAGAACCTT
32715953 AATCTTGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 17 0.46
45 20 0.54
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (44 bp):
TGAATCTTAGATGAGAATCTCAAAAATTTTTGAATGAGAACCTT
Found at i:32716056 original size:17 final size:16
Alignment explanation
Indices: 32716015--32716057 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
32716005 ACGAATATTT
* *
32716015 GAATCTTAAATTTTGC
1 GAATCTTGAATTTTGA
*
32716031 GAATTTTGAATTCTTGA
1 GAATCTTGAATT-TTGA
32716048 GAATCTTGAA
1 GAATCTTGAA
32716058 ACTAGTGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (16 bp):
GAATCTTGAATTTTGA
Found at i:32716140 original size:36 final size:36
Alignment explanation
Indices: 32716078--32716148 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
32716068 TTTTTAACTT
*
32716078 TTACAAATATTTAAATTTTTGCAAATCTTGAATTTC
1 TTACAAATATTTAAATCTTTGCAAATCTTGAATTTC
* * *
32716114 TTACGAATCTTTAAATCTTTGTAAATCTTGAATTT
1 TTACAAATATTTAAATCTTTGCAAATCTTGAATTT
32716149 TTTGCAAGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (36 bp):
TTACAAATATTTAAATCTTTGCAAATCTTGAATTTC
Found at i:32716152 original size:18 final size:18
Alignment explanation
Indices: 32716093--32716241 Score: 104
Period size: 18 Copynumber: 8.3 Consensus size: 18
32716083 AATATTTAAA
32716093 TTTTTGCAAATCTTGAAT
1 TTTTTGCAAATCTTGAAT
* * * * *
32716111 TTCTTACGAATCTTTAAA
1 TTTTTGCAAATCTTGAAT
* *
32716129 TCTTTGTAAATCTTGAAT
1 TTTTTGCAAATCTTGAAT
*
32716147 TTTTTGCAAGTCTTGAAT
1 TTTTTGCAAATCTTGAAT
*** *
32716165 CACTTGCAAATCTGGAAT
1 TTTTTGCAAATCTTGAAT
* * *
32716183 CTTTTACTAATCTTGAAT
1 TTTTTGCAAATCTTGAAT
32716201 TTTTT--ATAATCTTGAAT
1 TTTTTGCA-AATCTTGAAT
* * *
32716218 CTTTTGCGAATTTTGAACT
1 TTTTTGCAAATCTTGAA-T
32716237 TTTTT
1 TTTTT
32716242 AAATATTTGA
Statistics
Matches: 96, Mismatches: 31, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
17 14 0.15
18 77 0.80
19 5 0.05
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTTTGCAAATCTTGAAT
Found at i:32716177 original size:54 final size:52
Alignment explanation
Indices: 32716075--32716218 Score: 128
Period size: 54 Copynumber: 2.7 Consensus size: 52
32716065 AACTTTTTAA
* * * ** * *
32716075 CTTTTACAAATATTTAAATTTTTGCAAATCTTGAATTTCTTACGAATCTTTAAAT
1 CTTTTAC-AATCTTGAATTTTTTGC-AATCTTGAATCACTTACAAATC-TGAAAT
* *
32716130 CTTTGTA-AATCTTGAATTTTTTGCAAGTCTTGAATCACTTGCAAATCTGGAAT
1 CTTT-TACAATCTTGAATTTTTTGCAA-TCTTGAATCACTTACAAATCTGAAAT
**
32716183 CTTTTACTAATCTTGAATTTTTTATAATCTTGAATC
1 CTTTTAC-AATCTTGAATTTTTTGCAATCTTGAATC
32716219 TTTTGCGAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
52 2 0.03
53 19 0.26
54 47 0.64
55 4 0.05
56 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (52 bp):
CTTTTACAATCTTGAATTTTTTGCAATCTTGAATCACTTACAAATCTGAAAT
Found at i:32716218 original size:35 final size:36
Alignment explanation
Indices: 32716173--32716242 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
32716163 ATCACTTGCA
*
32716173 AATCTGGAATCTTTTACTAATCTTGAA-TTTTTTAT
1 AATCTGGAATCTTTTACGAATCTTGAACTTTTTTAT
* * *
32716208 AATCTTGAATCTTTTGCGAATTTTGAACTTTTTTA
1 AATCTGGAATCTTTTACGAATCTTGAACTTTTTTA
32716243 AATATTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 23 0.77
36 7 0.23
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.51
Consensus pattern (36 bp):
AATCTGGAATCTTTTACGAATCTTGAACTTTTTTAT
Found at i:32716944 original size:4 final size:4
Alignment explanation
Indices: 32716929--32716996 Score: 57
Period size: 4 Copynumber: 16.8 Consensus size: 4
32716919 ATCATAATTG
* * * * *
32716929 TTTA TCTA TTTA TTTA TTTG TTTA TTTG TTTA TTTTG TTTA TTTGA -CTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA
*
32716978 TTTA TGTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT
32716997 TTAAATATTT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
3 1 0.02
4 44 0.90
5 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.07, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:32716960 original size:16 final size:16
Alignment explanation
Indices: 32716935--32716996 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
32716925 ATTGTTTATC
32716935 TATTTATTTATTTGTT
1 TATTTATTTATTTGTT
*
32716951 TATTTGTTTATTTTGTT
1 TATTTATTTA-TTTGTT
* * *
32716968 TATTTGA-CTATTTATG
1 TATTT-ATTTATTTGTT
32716984 TATTTATTTATTT
1 TATTTATTTATTT
32716997 TTAAATATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.03
16 23 0.62
17 13 0.35
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (16 bp):
TATTTATTTATTTGTT
Found at i:32717042 original size:22 final size:20
Alignment explanation
Indices: 32716999--32717043 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
32716989 ATTTATTTTT
*
32716999 AAATATTTATAAAAAAGAAA
1 AAATATTTATAAAAAAAAAA
*
32717019 AAATATTTTTAAAATAAAATAA
1 AAATATTTATAAAA-AAAA-AA
32717041 AAA
1 AAA
32717044 GAACCTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 3 0.14
22 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATATTTATAAAAAAAAAA
Found at i:32717564 original size:66 final size:66
Alignment explanation
Indices: 32717489--32717626 Score: 231
Period size: 66 Copynumber: 2.1 Consensus size: 66
32717479 TTTTACAAAG
* * * *
32717489 TTAGATTTTGAATCTTTGATGATGAAATCATTAAAAACGTTGTAAATAGTAATCTTATATAAATT
1 TTAGATTTTGAATATTCGATGATGAAATCATTAAAAACATTGTAAATAGTAATCTTATATAAAAT
32717554 A
66 A
*
32717555 TTAGATTTTGAATATTCGATGATGAAATCATTAAAAGCATTGTAAATAGTAATCTTATATAAAAT
1 TTAGATTTTGAATATTCGATGATGAAATCATTAAAAACATTGTAAATAGTAATCTTATATAAAAT
32717620 A
66 A
32717621 TTAGAT
1 TTAGAT
32717627 GAGAAATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (66 bp):
TTAGATTTTGAATATTCGATGATGAAATCATTAAAAACATTGTAAATAGTAATCTTATATAAAAT
A
Found at i:32719694 original size:2 final size:2
Alignment explanation
Indices: 32719656--32719680 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32719646 AAAGCTTGAG
32719656 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
32719681 AAGAAACAAT
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:32720381 original size:1 final size:1
Alignment explanation
Indices: 32720375--32720402 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
32720365 GATTCTCATG
32720375 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
32720403 CTGAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32730699 original size:15 final size:17
Alignment explanation
Indices: 32730669--32730700 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
32730659 AAATAATGAG
32730669 TTTTATATTATGTATAT
1 TTTTATATTATGTATAT
32730686 TTTTA-ATT-TGTATAT
1 TTTTATATTATGTATAT
32730701 ATATTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTATATTATGTATAT
Found at i:32731540 original size:97 final size:97
Alignment explanation
Indices: 32731423--32731619 Score: 376
Period size: 97 Copynumber: 2.0 Consensus size: 97
32731413 CTCCCATCCC
*
32731423 ATCAACCCGTTTCATTCATAAATGAAAAATAAAATCCGGTCTCCTTTTTCATTCTTCAAATTTTC
1 ATCAACCCGTTTCATTCATAAATGAAAAATAAAATCCGGTCTCCTTTTTCATTCTCCAAATTTTC
32731488 TGAATATAATTTACAAAATTAAGGTAGATGCT
66 TGAATATAATTTACAAAATTAAGGTAGATGCT
*
32731520 ATCAACCCGTTTCATTCATAAATGAAAAATAAAATCTGGTCTCCTTTTTCATTCTCCAAATTTTC
1 ATCAACCCGTTTCATTCATAAATGAAAAATAAAATCCGGTCTCCTTTTTCATTCTCCAAATTTTC
32731585 TGAATATAATTTACAAAATTAAGGTAGATGCT
66 TGAATATAATTTACAAAATTAAGGTAGATGCT
32731617 ATC
1 ATC
32731620 CGGAGATCAT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 98 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (97 bp):
ATCAACCCGTTTCATTCATAAATGAAAAATAAAATCCGGTCTCCTTTTTCATTCTCCAAATTTTC
TGAATATAATTTACAAAATTAAGGTAGATGCT
Found at i:32732546 original size:2 final size:2
Alignment explanation
Indices: 32732539--32732568 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32732529 TTCTCCAGGA
32732539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32732569 GTATGTATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32733032 original size:14 final size:13
Alignment explanation
Indices: 32733007--32733046 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
32732997 AAGAAAATCT
*
32733007 AAGAAAATAAAAA
1 AAGAAAAAAAAAA
*
32733020 AGGAAAAAAAAAA
1 AAGAAAAAAAAAA
*
32733033 AAGAAAGAAAAAA
1 AAGAAAAAAAAAA
32733046 A
1 A
32733047 TGATTGCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:32733202 original size:60 final size:60
Alignment explanation
Indices: 32733061--32733282 Score: 285
Period size: 58 Copynumber: 3.8 Consensus size: 60
32733051 TGCTTTTGTA
* * * * * * *
32733061 CAAGAAAAATTAATACTTTTAACTTTTTC-CAAAAA-AAAATTTTT-GAAAACCTAGTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATATTTTTAGAAAGCTTA-TTTT
* * *
32733119 -AAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATAATTTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATATTTTTAGAAAGCTTATTTT
*
32733178 CAAAGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-AT-TTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATATTTTTAGAAAGCTTATTTT
32733236 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-ATATTTTT
32733283 GAATTTTATT
Statistics
Matches: 145, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
57 25 0.17
58 60 0.41
59 13 0.09
60 42 0.29
61 5 0.03
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (60 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATATTTTTAGAAAGCTTATTTT
Found at i:32733211 original size:30 final size:30
Alignment explanation
Indices: 32733177--32733269 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 30
32733167 AAGCTTATTT
32733177 TCAAAGAAAATTGATACTTTCAACTTTTCC
1 TCAAAGAAAATTGATACTTTCAACTTTTCC
* * *
32733207 TCAAA-AATATT--T--TTTAGAAAGCTTATT-T
1 TCAAAGAAAATTGATACTTT--CAA-CTT-TTCC
*
32733235 TCAAGGAAAATTGATACTTTCAACTTTTCC
1 TCAAAGAAAATTGATACTTTCAACTTTTCC
32733265 TCAAA
1 TCAAA
32733270 AATATATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 20
0.62 0.11 0.27
Matches are distributed among these distances:
25 3 0.07
27 3 0.07
28 7 0.16
29 14 0.31
30 12 0.27
31 3 0.07
33 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (30 bp):
TCAAAGAAAATTGATACTTTCAACTTTTCC
Found at i:32733253 original size:118 final size:118
Alignment explanation
Indices: 32733066--32733282 Score: 296
Period size: 118 Copynumber: 1.8 Consensus size: 118
32733056 TTGTACAAGA
*
32733066 AAAATTAATACTTTTAACTTTTTCCAAAAAAAAATTTTTGAAAACCTAGTTTTAAGGAAAATTGA
1 AAAATTAATACTTTCAACTTTTTCCAAAAAAAAATTTTTGAAAACCTAGTTTTAAGGAAAATTGA
* * *
32733131 TACTTTCAACTTTTTCTTAAAAATA-ATTTTTTTAGAAAGCTTATTTTCAAAG
66 TACTTTCAACTTTTCCTCAAAAATATATATTTTTAGAAAGCTTATTTTCAAAG
* * * * * *
32733183 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAGCTTA-TTTTCAAGGAAAAT
1 AAAATTAATACTTTCAACTTTTTCC-AAAAAAAAATTTTT-GAAAACCTAGTTTT-AAGGAAAAT
32733246 TGATACTTTCAACTTTTCCTCAAAAATATATATTTTT
63 TGATACTTTCAACTTTTCCTCAAAAATATATATTTTT
32733283 GAATTTTATT
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 6 0.07
117 31 0.36
118 42 0.49
119 7 0.08
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (118 bp):
AAAATTAATACTTTCAACTTTTTCCAAAAAAAAATTTTTGAAAACCTAGTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATATATTTTTAGAAAGCTTATTTTCAAAG
Found at i:32733347 original size:3 final size:3
Alignment explanation
Indices: 32733334--32733373 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
32733324 AATTCTAATC
32733334 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32733374 ATAAATAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32734272 original size:3 final size:3
Alignment explanation
Indices: 32734264--32734347 Score: 51
Period size: 3 Copynumber: 24.7 Consensus size: 3
32734254 TAAATAGATA
*
32734264 AAT AAT AAT AAT AAT AAT ATAT AAT AGAT ATAT AAAC AGAT AAT ATAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT A-AT A-AT -AAT A-AT AAT A-AT
* *
32734312 ATT AAT AAAT AGT AAT AAT AGAT AAAT AAAT AAT AA
1 AAT AAT -AAT AAT AAT AAT A-AT -AAT -AAT AAT AA
32734348 ATAAATAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
3 39 0.59
4 25 0.38
5 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32734279 original size:42 final size:41
Alignment explanation
Indices: 32734220--32734341 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 41
32734210 ATAAAATAAA
* * * *
32734220 ATAA-AATATATATTAATAGATAAATGATA-ATATGTAAATAG
1 ATAATAATA-ATAATAATA-ATAAATAATAGATATATAAACAG
*
32734261 ATAAATAATAATAATAATAATATATAATAGATATATAAACAG
1 AT-AATAATAATAATAATAATAAATAATAGATATATAAACAG
* * *
32734303 ATAATATATATTAATAAATAGT-AATAATAGATAAATAAA
1 ATAATA-ATAATAAT-AATAATAAATAATAGATATATAAA
32734342 TAATAAATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
41 14 0.21
42 44 0.66
43 9 0.13
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (41 bp):
ATAATAATAATAATAATAATAAATAATAGATATATAAACAG
Found at i:32734339 original size:21 final size:22
Alignment explanation
Indices: 32734254--32734347 Score: 85
Period size: 21 Copynumber: 4.5 Consensus size: 22
32734244 TGATAATATG
32734254 TAAATAGATAAATAATA-AT-AA
1 TAAATAGAT-AATAATAGATAAA
*
32734275 T-AATA-ATATATAATAGATATA
1 TAAATAGATA-ATAATAGATAAA
* * *
32734296 TAAACAGATAAT-ATATATTAA
1 TAAATAGATAATAATAGATAAA
32734317 TAAATAG-TAATAATAGATAAA
1 TAAATAGATAATAATAGATAAA
32734338 TAAATA-ATAA
1 TAAATAGATAA
32734348 ATAAATAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
18 1 0.02
19 8 0.14
20 10 0.17
21 31 0.53
22 5 0.09
23 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (22 bp):
TAAATAGATAATAATAGATAAA
Found at i:32734381 original size:14 final size:15
Alignment explanation
Indices: 32734356--32734388 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32734346 AAATAAATAA
32734356 AATACAAAAATACAC
1 AATACAAAAATACAC
*
32734371 AATAC-AAAATACAG
1 AATACAAAAATACAC
32734385 AATA
1 AATA
32734389 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (15 bp):
AATACAAAAATACAC
Found at i:32734668 original size:45 final size:43
Alignment explanation
Indices: 32734599--32734706 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
32734589 CTGATGAAAA
* * *
32734599 CTCCTTTAAGCAGAGGTTCAACGACTCTGAAAAACATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTCTG--AAACATAAACAAAG
* * *
32734644 CTCCTCTAATCAGAGGCTCCACGACTTTGAAAGATAAACAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTCTGAAACATAAACAAAG
32734687 CTCCTCTAATCAGAGGCTCA
1 CTCCTCTAATCAGAGGCTCA
32734707 CACTGGATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 32 0.57
45 24 0.43
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGCTCAACGACTCTGAAACATAAACAAAG
Found at i:32734779 original size:159 final size:157
Alignment explanation
Indices: 32734562--32734865 Score: 500
Period size: 159 Copynumber: 1.9 Consensus size: 157
32734552 CTACTCGACC
* * * *
32734562 TTTTTTTTTATTTTTTTCGTTAAAATTCTGATGAAAACTCCTTTAAGCAGAGGTTCAACGACTCT
1 TTTTTTTTTATTTTTTTCGTTAAAATTCTGATCAAAACTCCTCTAAGCAAAGGCTCAACGACTCT
32734627 GAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCCACGACTTTGAAAGATAAACAAAGCTCCT
66 GAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCCACGACTTTGAAAGATAAACAAAGCTCCT
32734692 CTAATCAGAGGCTCACACTGGATCTTT
131 CTAATCAGAGGCTCACACTGGATCTTT
* *
32734719 TTTTCTTTTTACTTTTTTTCGTTCAAATTCTGATCAAAGCTCCTCTAAGCAAAGGCTCAACGACT
1 TTTT-TTTTTA-TTTTTTTCGTTAAAATTCTGATCAAAACTCCTCTAAGCAAAGGCTCAACGACT
* * * *
32734784 TTGAAAACCATAAACAAAGCTCCTCTAATTAGAGGCTCTACGACTTTGAAAGATAAACAAAGCTC
64 CTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCCACGACTTTGAAAGATAAACAAAGCTC
32734849 CTCTAATCAGAGGCTCA
129 CTCTAATCAGAGGCTCA
32734866 ACGACTTTGA
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
157 4 0.03
158 6 0.04
159 125 0.93
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (157 bp):
TTTTTTTTTATTTTTTTCGTTAAAATTCTGATCAAAACTCCTCTAAGCAAAGGCTCAACGACTCT
GAAAAACATAAACAAAGCTCCTCTAATCAGAGGCTCCACGACTTTGAAAGATAAACAAAGCTCCT
CTAATCAGAGGCTCACACTGGATCTTT
Found at i:32734895 original size:42 final size:43
Alignment explanation
Indices: 32734754--32735052 Score: 337
Period size: 42 Copynumber: 7.0 Consensus size: 43
32734744 AATTCTGATC
* * *
32734754 AAAGCTCCTCTAAGCAAAGGCTCAACGAC-TTTGAAAACCATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTG-AAA--ATAAAT
* * *
32734799 AAAGCTCCTCTAATTAGAGGCTCTACGAC-TTTGAAAGATAAAC
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAA-ATAAAT
32734842 AAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAATAAAT
* *
32734884 AAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAGAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTT-GAAAATAAAT
*
32734928 --GGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAATAAAT
* **
32734970 --GGCTCCTCTAATCAGAGATTCAACGACTTTTGAAAAATAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTG-AAAATAAAT
* * *
32735012 --AGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAGTAAAT
1 AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAATAAAT
32735053 TGCTCCTTTA
Statistics
Matches: 230, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
41 9 0.04
42 136 0.59
43 43 0.19
44 13 0.06
45 29 0.13
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.25
Consensus pattern (43 bp):
AAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAATAAAT
Found at i:32734976 original size:84 final size:81
Alignment explanation
Indices: 32734756--32735100 Score: 327
Period size: 84 Copynumber: 4.1 Consensus size: 81
32734746 TTCTGATCAA
* * * **
32734756 AGCTCCTCTAAGCAAAGGCTCAACGACTTTGAAAACCATAAACAAAGCTCCTCTAATTAGAGGCT
1 AGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAA--AT-AA-ATAGCTCCTCTAAACAGAGGCT
* *
32734821 CTACGAC-TTTGAAAGATAAACAA
61 CAACGACTTTTGAAA-AT-AA-AT
*
32734844 AGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAAAGCTCCTCTAAACAAAGGCTCAA
1 AGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT--AGCTCCTCTAAACAGAGGCTCAA
32734909 CGACTTTTAGAAAATAAAT
64 CGACTTTT-GAAAATAAAT
* * * **
32734928 GGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATGGCTCCTCTAATCAGAGATTCAA
1 AGCTCCTCTAATCAGAGGCTCAACGAC-TTTG-AAAATAAATAGCTCCTCTAAACAGAGGCTCAA
32734993 CGACTTTTGAAAAATAAAT
64 CGACTTTTG-AAAATAAAT
* * * * * *
32735012 AGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAGTAAATTGCTCCTTTAAACAGAGGTATC-A
1 AGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAATAAATAGCTCCTCTAAACAGAGG-CTCAA
*
32735076 CAAC-TTTGAAAAATAAAT
64 CGACTTTTG-AAAATAAAT
*
32735094 CGCTCCT
1 AGCTCCT
32735101 TGAAACTCAT
Statistics
Matches: 223, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
82 19 0.09
83 28 0.13
84 95 0.43
85 31 0.14
86 14 0.06
87 7 0.03
88 29 0.13
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (81 bp):
AGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAATAGCTCCTCTAAACAGAGGCTCAACG
ACTTTTGAAAATAAAT
Found at i:32735031 original size:126 final size:122
Alignment explanation
Indices: 32734755--32735100 Score: 354
Period size: 126 Copynumber: 2.7 Consensus size: 122
32734745 ATTCTGATCA
* * ** *
32734755 AAGCTCCTCTAAGCAAAGGCTCAACGAC-TTTGAAAACCATAAACAAAGCTCCTCTAATTAGAGG
1 AAGCTCCTCTAAACAAAGGCTCAACAACTTTTG-AAA--AT-AA-ATGGCTCCTCTAATCAGAGG
* * *
32734819 CTCTACGACTTTGAAAGATAAACAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAATAAAT
61 CTC-ACGACTTTGAAAAAT-AA-ATAGCTCCTCTAATCAGAGACTCAACGACTTTGAAAATAAAT
*
32734884 AAAGCTCCTCTAAACAAAGGCTCAACGACTTTTAGAAAATAAATGGCTCCTCTAATCAGAGGCTC
1 -AAGCTCCTCTAAACAAAGGCTCAACAACTTTT-GAAAATAAATGGCTCCTCTAATCAGAGGCTC
* *
32734949 AACGACTTTTGAAAAATAAATGGCTCCTCTAATCAGAGATTCAACGACTTTTGAAAAATAAAT
64 -ACGAC-TTTGAAAAATAAATAGCTCCTCTAATCAGAGACTCAACGAC-TTTG-AAAATAAAT
* * * * * * * *
32735012 -AGCTTCTCTAATCAGAGGCTCAACAACTTTTGAAAGTAAATTGCTCCTTTAAACAGAGGTATCA
1 AAGCTCCTCTAAACAAAGGCTCAACAACTTTTGAAAATAAATGGCTCCTCTAATCAGAGG-CTCA
* *
32735076 CAACTTTGAAAAATAAATCGCTCCT
65 CGACTTTGAAAAATAAATAGCTCCT
32735101 TGAAACTCAT
Statistics
Matches: 189, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
124 20 0.11
125 28 0.15
126 54 0.29
127 31 0.16
128 20 0.11
129 2 0.01
130 27 0.14
131 6 0.03
132 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (122 bp):
AAGCTCCTCTAAACAAAGGCTCAACAACTTTTGAAAATAAATGGCTCCTCTAATCAGAGGCTCAC
GACTTTGAAAAATAAATAGCTCCTCTAATCAGAGACTCAACGACTTTGAAAATAAAT
Found at i:32736113 original size:17 final size:16
Alignment explanation
Indices: 32736078--32736138 Score: 63
Period size: 17 Copynumber: 3.7 Consensus size: 16
32736068 TCTTTTTTCA
*
32736078 TTCACTTTTTTTTTATT
1 TTCA-TTTTTTTTTTTT
32736095 TTCATTTTTTTTATTTT
1 TTCATTTTTTTT-TTTT
32736112 TTC-TTTTTCATTTTTTT
1 TTCATTTTT--TTTTTTT
32736129 TT-ATTTTTTT
1 TTCATTTTTTT
32736139 AAGCATAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 2 0.05
16 13 0.33
17 21 0.54
18 3 0.08
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (16 bp):
TTCATTTTTTTTTTTT
Found at i:32736126 original size:24 final size:24
Alignment explanation
Indices: 32736084--32736137 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
32736074 TTCATTCACT
*
32736084 TTTTTTTTATTTTCATTTTTTTTA
1 TTTTTTCTATTTTCATTTTTTTTA
32736108 TTTTTTCT-TTTTCATTTTTTTTTA
1 TTTTTTCTATTTTCA-TTTTTTTTA
32736132 TTTTTT
1 TTTTTT
32736138 TAAGCATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTTTTCTATTTTCATTTTTTTTA
Found at i:32738698 original size:58 final size:57
Alignment explanation
Indices: 32738569--32738952 Score: 397
Period size: 58 Copynumber: 6.6 Consensus size: 57
32738559 TTTTGTACAG
* *
32738569 GAAAAATTGATACTTTCAACTTTTTCTC-AAAATATTTTTTAG-AAACTTTAATTTT-GA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTAGAAAAC-TT-ATTTTCAA
* * *
32738626 GAAAAATTAATACTTTCAACTTTTCCTCAAAAATCCACTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTAGAAAACTTATTTTCAA
* * * * *
32738684 GGAAAATTAATACTTTCAACTTTTTTCC-AAAAAAAATTTTT-GAAAACTTATTTTTAA
1 GAAAAATTGATACTTTCAAC--TTTTCCTCAAAAATATTTTTAGAAAACTTATTTTCAA
* *
32738741 GAAAAATTGATACTTTCAACCTTT-CTCCAAAAATATTTTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATA---TTTTTAGAAAACTTATTTTCAA
* **
32738801 GAAAAATTGATACTTTCAACTTTTTCGT-AAAAATATTTTTTAGAAAGTTTATTTTCAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATA-TTTTTAGAAAACTTATTTTCAA
* * *
32738859 GGAAAATCGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTAGAAAACTTATTTTCAA
* * *
32738917 GGAAAATGGATACTTTCAACTTTTTCTCAAAAATAT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
32738953 ATATTTTTTA
Statistics
Matches: 287, Mismatches: 24, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
54 1 0.00
55 3 0.01
56 6 0.02
57 77 0.27
58 130 0.45
59 18 0.06
60 48 0.17
61 3 0.01
62 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTAGAAAACTTATTTTCAA
Found at i:32738914 original size:116 final size:114
Alignment explanation
Indices: 32738569--32738952 Score: 470
Period size: 116 Copynumber: 3.3 Consensus size: 114
32738559 TTTTGTACAG
* * *
32738569 GAAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAGAAACTTTAATTTTGAGAAAAATT
1 GAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTAGAAAATTT-ATTTTAAGAAAAATT
* * * *
32738634 AATACTTTCAACTTTTCCTCAAAAATCCA-CTTTT-GAAAACTTATTTTTAA
65 GATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTAGAAAGCTTATTTTCAA
* * * * * *
32738684 GGAAAATTAATACTTTCAACTTTTTTCCAAAAAAAATTTTT-GAAAACTTATTTTTAAGAAAAAT
1 GAAAAATTGATACTTTCAAC-TTTTTCTAAAAATATTTTTTAGAAAATTTA-TTTTAAGAAAAAT
*
32738748 TGATACTTTCAACCTTT-CTCCAAAAATATTTTTTTTAGAAAGCTTATTTTCAA
64 TGATACTTTCAACTTTTCCT-CAAAAATA--TTTTTTAGAAAGCTTATTTTCAA
* *
32738801 GAAAAATTGATACTTTCAACTTTTTCGTAAAAATATTTTTTAGAAAGTTTATTTTCAAGGAAAAT
1 GAAAAATTGATACTTTCAACTTTTTC-TAAAAATATTTTTTAGAAAATTTATTTT-AAGAAAAAT
*
32738866 CGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
64 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
* *
32738917 GGAAAATGGATACTTTCAACTTTTTCTCAAAAATAT
1 GAAAAATTGATACTTTCAACTTTTTCT-AAAAATAT
32738953 ATATTTTTTA
Statistics
Matches: 231, Mismatches: 26, Indels: 23
0.82 0.09 0.08
Matches are distributed among these distances:
113 1 0.00
114 3 0.01
115 59 0.26
116 81 0.35
117 47 0.20
118 38 0.16
119 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.42
Consensus pattern (114 bp):
GAAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTAGAAAATTTATTTTAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
Found at i:32739017 original size:10 final size:11
Alignment explanation
Indices: 32738975--32739016 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 11
32738965 TTTATTTAAA
32738975 AAAATAAAAAT
1 AAAATAAAAAT
32738986 GAAAATAAAAAT
1 -AAAATAAAAAT
*
32738998 -AAAGAAAAAT
1 AAAATAAAAAT
32739008 AAAATAAAA
1 AAAATAAAA
32739017 TGTATTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:32739109 original size:13 final size:13
Alignment explanation
Indices: 32739091--32739115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32739081 AATCTGGGAA
32739091 CGGCTCAGCTTGG
1 CGGCTCAGCTTGG
32739104 CGGCTCAGCTTG
1 CGGCTCAGCTTG
32739116 ACACAGTTTG
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:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CGGCTCAGCTTGG
Found at i:32739934 original size:3 final size:3
Alignment explanation
Indices: 32739926--32740024 Score: 53
Period size: 3 Copynumber: 30.7 Consensus size: 3
32739916 TAAATAGATA
32739926 AAT AAT AAT AAT AAT AGAT AAAT AAT AAT ATAT AAT AGAT ATAT AA-
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT A-AT AAT A-AT A-AT AAT
* *
32739972 ACA- AAT AA- AA- AAT ATAT ATT AAT AAAT AGT AAT AAT AGAT AAAT
1 A-AT AAT AAT AAT AAT A-AT AAT AAT -AAT AAT AAT AAT A-AT -AAT
32740016 AAAT AAT AA
1 -AAT AAT AA
32740025 ATACAAAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
2 6 0.08
3 45 0.56
4 27 0.34
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:32739999 original size:4 final size:4
Alignment explanation
Indices: 32739865--32740027 Score: 56
Period size: 4 Copynumber: 40.2 Consensus size: 4
32739855 CCAAGAAAAA
* * *
32739865 AAAT AAAAT AAAAT AAAAT AAA- AAAT ATAT TAAT AGAT AAAT GATAAT
1 AAAT -AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT -A-AAT
** * *
32739913 ATGT AAAT AGAT AAAT -AAT -AAT -AAT -AAT AGAT AAAT -AAT AATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT
* * * *
32739957 ATAAT AGAT ATAT AAAC AAAT AAA- AAAT ATATAT TAAT AAAT AGTAAT
1 A-AAT AAAT AAAT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT
*
32740005 -AAT AGAT AAAT AAAT -AAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
32740028 CAAAAAAATA
Statistics
Matches: 121, Mismatches: 23, Indels: 29
0.70 0.13 0.17
Matches are distributed among these distances:
3 27 0.22
4 61 0.50
5 24 0.20
6 9 0.07
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:32740016 original size:21 final size:21
Alignment explanation
Indices: 32739865--32740024 Score: 120
Period size: 21 Copynumber: 7.6 Consensus size: 21
32739855 CCAAGAAAAA
32739865 AAATAAAATAA-AATAA-A-AT
1 AAAT-AAATAATAATAATAGAT
*
32739884 AAA-AAAT-ATATTAATAGAT
1 AAATAAATAATAATAATAGAT
* *
32739903 AAAT-GATAATATGTAAATAGAT
1 AAATAAATAATA-AT-AATAGAT
32739925 AAAT-AATAATAATAATAGAT
1 AAATAAATAATAATAATAGAT
32739945 AAAT-AATAATATATAATAGAT
1 AAATAAATAATA-ATAATAGAT
* * * *
32739966 ATATAAACAAATAAAAAATATAT
1 AAATAAA-TAAT-AATAATAGAT
*
32739989 ATTAATAAATAGTAATAATAGAT
1 A--AATAAATAATAATAATAGAT
32740012 AAATAAATAATAA
1 AAATAAATAATAA
32740025 ATACAAAAAA
Statistics
Matches: 113, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
16 1 0.01
17 8 0.07
18 1 0.01
19 10 0.09
20 21 0.19
21 25 0.22
22 19 0.17
23 20 0.18
24 3 0.03
25 5 0.04
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (21 bp):
AAATAAATAATAATAATAGAT
Found at i:32740023 original size:7 final size:7
Alignment explanation
Indices: 32739880--32740027 Score: 67
Period size: 7 Copynumber: 20.7 Consensus size: 7
32739870 AAATAAAATA
*
32739880 AAATAAA
1 AAATAAT
32739887 AAATATAT
1 AAATA-AT
*
32739895 TAATAGAT
1 AAATA-AT
*
32739903 AAATGAT
1 AAATAAT
*
32739910 -AATATGT
1 AAATA-AT
32739917 AAATAGAT
1 AAATA-AT
32739925 AAATAAT
1 AAATAAT
32739932 -AATAAT
1 AAATAAT
32739938 -AATAGAT
1 AAATA-AT
32739945 AAATAAT
1 AAATAAT
32739952 -AAT-AT
1 AAATAAT
32739957 ATAATAGAT
1 A-AATA-AT
* *
32739966 ATATAAAC
1 AAAT-AAT
*
32739974 AAATAAA
1 AAATAAT
32739981 AAAT-AT
1 AAATAAT
*
32739987 ATATTAAT
1 A-AATAAT
*
32739995 AAATAGT
1 AAATAAT
32740002 -AATAAT
1 AAATAAT
*
32740008 AGATAAAT
1 AAAT-AAT
32740016 AAATAAT
1 AAATAAT
32740023 AAATA
1 AAATA
32740028 CAAAAAAATA
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
5 2 0.02
6 23 0.21
7 39 0.36
8 39 0.36
9 4 0.04
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (7 bp):
AAATAAT
Found at i:32740038 original size:10 final size:11
Alignment explanation
Indices: 32740023--32740090 Score: 56
Period size: 10 Copynumber: 6.5 Consensus size: 11
32740013 AATAAATAAT
32740023 AAATACAAA-A
1 AAATACAAATA
32740033 AAATACAAA-A
1 AAATACAAATA
* * *
32740043 ATACACAATACA
1 AAATACAA-ATA
32740055 AAATACAGAAT-
1 AAATACA-AATA
32740066 AAATA-AAATA
1 AAATACAAATA
32740076 AAATA-AAATA
1 AAATACAAATA
32740086 AAATA
1 AAATA
32740091 AAACAAACTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 3 0.06
10 32 0.65
11 6 0.12
12 7 0.14
13 1 0.02
ACGTcount: A:0.74, C:0.09, G:0.01, T:0.16
Consensus pattern (11 bp):
AAATACAAATA
Found at i:32740059 original size:14 final size:15
Alignment explanation
Indices: 32740034--32740066 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32740024 AATACAAAAA
32740034 AATACAAAAATACAC
1 AATACAAAAATACAC
*
32740049 AATAC-AAAATACAG
1 AATACAAAAATACAC
32740063 AATA
1 AATA
32740067 AATAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (15 bp):
AATACAAAAATACAC
Found at i:32740074 original size:5 final size:5
Alignment explanation
Indices: 32740066--32740104 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
32740056 AATACAGAAT
* *
32740066 AAATA AAATA AAATA AAATA AAATA AAACA AACTA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT
32740105 GGACTTACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:32744458 original size:14 final size:14
Alignment explanation
Indices: 32744424--32744460 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32744414 TTTTAAAGTT
32744424 AAAATTTATTTATA
1 AAAATTTATTTATA
**
32744438 ATTATTTATTTATA
1 AAAATTTATTTATA
32744452 AAAATTTAT
1 AAAATTTAT
32744461 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AAAATTTATTTATA
Found at i:32745242 original size:19 final size:19
Alignment explanation
Indices: 32745204--32745243 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
32745194 AAACTACACT
*
32745204 AAAATTTAATATCATATTA
1 AAAATTTAATATAATATTA
32745223 AAAATTTAACTATAAT-TTA
1 AAAATTTAA-TATAATATTA
32745242 AA
1 AA
32745244 CGTCATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTAATATAATATTA
Found at i:32762222 original size:14 final size:12
Alignment explanation
Indices: 32762191--32762237 Score: 67
Period size: 12 Copynumber: 3.7 Consensus size: 12
32762181 ATATTATTTT
32762191 AAATATAAATATA
1 AAAT-TAAATATA
32762204 AAATTAAATATA
1 AAATTAAATATA
32762216 TATAATTAAATATA
1 -A-AATTAAATATA
32762230 AAATTAAA
1 AAATTAAA
32762238 AAATTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.47
13 6 0.19
14 11 0.34
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAATTAAATATA
Found at i:32762228 original size:26 final size:24
Alignment explanation
Indices: 32762196--32762249 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 24
32762186 ATTTTAAATA
*
32762196 TAAATATAAAATTAAATATATATAAT
1 TAAATATAAAATTAAA-AAAT-TAAT
32762222 TAAATATAAAATTAAAAAATTAAT
1 TAAATATAAAATTAAAAAATTAAT
32762246 TAAA
1 TAAA
32762250 AAATATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 8 0.30
25 3 0.11
26 16 0.59
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAATATAAAATTAAAAAATTAAT
Found at i:32767349 original size:4 final size:4
Alignment explanation
Indices: 32767335--32767491 Score: 51
Period size: 4 Copynumber: 39.5 Consensus size: 4
32767325 TTTTTGTATC
* * * *
32767335 TTAT GTAT TTAT TTACT ATTA- CTAT TTAT TAATAT ATAT TTATT TTTT
1 TTAT TTAT TTAT TTA-T -TTAT TTAT TTAT T--TAT TTAT TTA-T TTAT
* * * * *
32767383 TTAT TTAT CTGT TAATAT ATAT TTA- TTAT TTAT CTAT TTAT ATA- TTA-
1 TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * * *
32767430 TTAT ATAT ATAT GTAT TTA- TTA- TTAT TTAT CTAT TTAT ATA- TTA-
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
32767474 TTAT TTAT CTAA TTAT TT
1 TTAT TTAT TTAT TTAT TT
32767492 TTTTTAATTA
Statistics
Matches: 112, Mismatches: 29, Indels: 24
0.68 0.18 0.15
Matches are distributed among these distances:
3 21 0.19
4 79 0.71
5 4 0.04
6 8 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (4 bp):
TTAT
Found at i:32767430 original size:22 final size:22
Alignment explanation
Indices: 32767405--32767512 Score: 128
Period size: 22 Copynumber: 5.0 Consensus size: 22
32767395 TAATATATAT
32767405 TTATTATTTATCTATTTATATA
1 TTATTATTTATCTATTTATATA
* * * *
32767427 TTATTATATATATATGTATTTA
1 TTATTATTTATCTATTTATATA
32767449 TTATTATTTATCTATTTATATA
1 TTATTATTTATCTATTTATATA
* *
32767471 TTATTATTTATCTAATTAT-TT
1 TTATTATTTATCTATTTATATA
* * *
32767492 TTTTTAATTATCTATTAATAT
1 TTATTATTTATCTATTTATAT
32767513 TTTTTGATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 16 0.23
22 55 0.77
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (22 bp):
TTATTATTTATCTATTTATATA
Found at i:32767476 original size:44 final size:43
Alignment explanation
Indices: 32767395--32767512 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 43
32767385 ATTTATCTGT
*
32767395 TAATATATATTTATTATTTATCTATTTATATATTATTATATATA
1 TAAT-TATTTTTATTATTTATCTATTTATATATTATTATATATA
* *
32767439 T-ATGTATTTATTATTATTTATCTATTTATATATTATTATTTATC
1 TAAT-TATTT-TTATTATTTATCTATTTATATATTATTATATATA
* * *
32767483 TAATTATTTTTTTTAATTATCTATTAATAT
1 TAATTATTTTTATTATTTATCTATTTATAT
32767513 TTTTTGATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
43 24 0.37
44 39 0.60
45 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (43 bp):
TAATTATTTTTATTATTTATCTATTTATATATTATTATATATA
Found at i:32768071 original size:15 final size:15
Alignment explanation
Indices: 32768049--32768090 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
32768039 GTCTATTTAG
32768049 AGAGAAGGGAGAGGAA
1 AGAGAAGGGAGA-GAA
32768065 A-AGAAGGGA-AGAA
1 AGAGAAGGGAGAGAA
32768078 AGAGAAGAGGAGA
1 AGAGAAG-GGAGA
32768091 AGGGAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 11 0.48
16 2 0.09
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (15 bp):
AGAGAAGGGAGAGAA
Found at i:32768346 original size:4 final size:4
Alignment explanation
Indices: 32768337--32768362 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
32768327 CCGTTTCTAG
32768337 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
32768363 ATTATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:32768412 original size:6 final size:6
Alignment explanation
Indices: 32768403--32768455 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
32768393 AATTATCTAG
* * *
32768403 TATTTT TA-TTT TA-TAT TATTTT TATCTT TATTTT TATTTT TATTAT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
32768449 T-TTTT TA
1 TATTTT TA
32768456 AATAAATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 13 0.33
6 26 0.67
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TATTTT
Found at i:32768420 original size:29 final size:27
Alignment explanation
Indices: 32768388--32768447 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
32768378 TGTTGATTAG
32768388 ATTAAAATTATCTAGTATTTTTATTTTAT
1 ATTAAAATTATCT-GTATTTTTATTTT-T
*** *
32768417 ATTATTTTTATCTTTATTTTTATTTTT
1 ATTAAAATTATCTGTATTTTTATTTTT
32768444 ATTA
1 ATTA
32768448 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 12 0.44
29 10 0.37
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (27 bp):
ATTAAAATTATCTGTATTTTTATTTTT
Found at i:32768530 original size:58 final size:58
Alignment explanation
Indices: 32768455--32768626 Score: 224
Period size: 58 Copynumber: 3.0 Consensus size: 58
32768445 TTATTTTTTT
* * * *
32768455 AAATAAA-TTTTTAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGA
1 AAATAAAGTTTCT-AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGA
*
32768513 AAAT-AAGCTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTCGA
1 AAATAAAG-TTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGA
* * * *
32768571 AATTAAAGTTTCTAAAAATTATTTTGGA-AAAAAGTTAAAAGCATCAATTTTTCTTG
1 AAATAAAGTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTG
32768627 TATAAAAGCA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
57 28 0.28
58 66 0.65
59 7 0.07
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (58 bp):
AAATAAAGTTTCTAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTGA
Found at i:32779042 original size:8 final size:8
Alignment explanation
Indices: 32779029--32779069 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
32779019 ATTATGCTTG
32779029 AATAAAAA
1 AATAAAAA
32779037 AATAAAAA
1 AATAAAAA
*
32779045 AAT-TAAA
1 AATAAAAA
32779052 AATAAAAA
1 AATAAAAA
32779060 AGA-AAAAA
1 A-ATAAAAA
32779068 AA
1 AA
32779070 GTGAATGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 7 0.24
8 21 0.72
9 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:32780128 original size:41 final size:41
Alignment explanation
Indices: 32780080--32780251 Score: 193
Period size: 41 Copynumber: 4.1 Consensus size: 41
32780070 GATTGTCAAT
* * * *
32780080 GAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
* *
32780121 GAACAATTTACTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
** * *
32780162 GAGCTTTGTTTATGTTTTTCAAAGTCGT-AGAGCCTCTGTTTAGAG
1 GAGC--AATTTA--CTTTTCAAAGTCGTGA-AGCCTCTGATTAGAG
*
32780207 GAGCAATTTACTTTTCAAAGTCGTTAAGCCTCTGATTAGAG
1 GAGCAATTTACTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
32780248 GAGC
1 GAGC
32780252 TTTGTTTATG
Statistics
Matches: 110, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 69 0.63
42 1 0.01
43 8 0.07
44 1 0.01
45 31 0.28
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (41 bp):
GAGCAATTTACTTTTCAAAGTCGTGAAGCCTCTGATTAGAG
Found at i:32780197 original size:86 final size:86
Alignment explanation
Indices: 32780090--32780345 Score: 354
Period size: 86 Copynumber: 2.9 Consensus size: 86
32780080 GAGCAATTTA
*
32780090 TTTTTCAAAGTTGT-GATGCCTCTGTTTAGAGGAACAATTTACTTTTCAAAGTCGTTAAGCCTCT
1 TTTTTCAAAGTCGTAGA-GCCTCTGTTTAGAGGAACAATTTACTTTTCAAAGTCGTTAAGCCTCT
32780154 GATTAGAGGAGCTTTGTTTATG
65 GATTAGAGGAGCTTTGTTTATG
*
32780176 TTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTTAAGCCTCTG
1 TTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAACAATTTACTTTTCAAAGTCGTTAAGCCTCTG
32780241 ATTAGAGGAGCTTTGTTTATG
66 ATTAGAGGAGCTTTGTTTATG
* * ** * *
32780262 TTTTTCAAAGTCGTAGAGCTTCTGATTAGA-GAAGCTTTGTTTATGTTTTTCAAAGTCGTTGAGC
1 TTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAA-C--AATTTA--CTTTTCAAAGTCGTTAAGC
* *
32780326 CTCTGCTTAGAGGAGTTTTG
61 CTCTGATTAGAGGAGCTTTG
32780346 ATCAAATTTT
Statistics
Matches: 153, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
85 2 0.01
86 110 0.72
87 2 0.01
88 4 0.03
90 35 0.23
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.40
Consensus pattern (86 bp):
TTTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAACAATTTACTTTTCAAAGTCGTTAAGCCTCTG
ATTAGAGGAGCTTTGTTTATG
Found at i:32780356 original size:45 final size:45
Alignment explanation
Indices: 32780132--32780345 Score: 292
Period size: 45 Copynumber: 4.8 Consensus size: 45
32780122 AACAATTTAC
*
32780132 TTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGT
* * ** *
32780177 TTTTCAAAGTCGTAGAGCCTCTGTTTAGAGGAGC--AATTTA--C
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGT
*
32780218 TTTTCAAAGTCGTTAAGCCTCTGATTAGAGGAGCTTTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGT
* * *
32780263 TTTTCAAAGTCGTAGAGCTTCTGATTAGAGAAGCTTTGTTTATGT
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGT
* *
32780308 TTTTCAAAGTCGTTGAGCCTCTGCTTAGAGGAGTTTTG
1 TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTG
32780346 ATCAAATTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
41 31 0.22
43 8 0.06
45 105 0.73
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (45 bp):
TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTGTTTATGT
Found at i:32780544 original size:8 final size:8
Alignment explanation
Indices: 32780519--32780562 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
32780509 GGTAGGCCCA
32780519 TTTTATTT
1 TTTTATTT
*
32780527 TCTTATTT
1 TTTTATTT
32780535 TTTTATTT
1 TTTTATTT
32780543 TTTGTA-TT
1 TTT-TATTT
*
32780551 TTGTATTT
1 TTTTATTT
32780559 TTTT
1 TTTT
32780563 TTGTGTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
7 2 0.07
8 26 0.87
9 2 0.07
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:32780550 original size:25 final size:25
Alignment explanation
Indices: 32780522--32780593 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
32780512 AGGCCCATTT
32780522 TATTTTCTTATTTTTTTATTT-TTTG
1 TATTTT-TTATTTTTTTATTTGTTTG
*
32780547 TATTTTGTATTTTTTT-TTGTGTTTG
1 TATTTTTTATTTTTTTATT-TGTTTG
* *
32780572 TATCTTATATATTTATTTATTT
1 TAT-TT-TTTATTTTTTTATTT
32780594 ATTTATTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.05
24 10 0.26
25 13 0.33
26 2 0.05
27 10 0.26
28 2 0.05
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (25 bp):
TATTTTTTATTTTTTTATTTGTTTG
Found at i:32780590 original size:4 final size:4
Alignment explanation
Indices: 32780576--32780782 Score: 121
Period size: 4 Copynumber: 52.5 Consensus size: 4
32780566 TGTTTGTATC
* *
32780576 TTAT ATAT TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT TTAT
* * * * *
32780623 TTAT TTTT TTA- TTAT TTAT CTGT TAATAT ATAT TTA- TTAT TTAT CTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT
* * * *
32780671 TTAT ATA- TTAT TATAT ATAT GTAT TTA- TTA- TTAT TTAT CTAT TTAT
1 TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* *
32780717 TTA- TTA- TTAT TTAT CTAT TTAT TTA- TTA- TTAT TTAT CTA- TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * *
32780760 TATTT TTAT TTAT CTAA TTAT TT
1 T-TAT TTAT TTAT TTAT TTAT TT
32780783 TCTTTTAATT
Statistics
Matches: 156, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
3 31 0.20
4 110 0.71
5 6 0.04
6 9 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (4 bp):
TTAT
Found at i:32780681 original size:22 final size:22
Alignment explanation
Indices: 32780576--32780799 Score: 200
Period size: 22 Copynumber: 10.4 Consensus size: 22
32780566 TGTTTGTATC
*
32780576 TTATATATTTATTTA-T-TTAT
1 TTATCTATTTATTTATTATTAT
*
32780596 TTAT-TATTACTATTTATTAATAT
1 TTATCTATT--TATTTATTATTAT
* *
32780619 ATATTTA-TT-TTT-TTATTAT
1 TTATCTATTTATTTATTATTAT
* *
32780638 TTATCTGTTAATATATATTTATTAT
1 TTATCTATT--TATTTA-TTATTAT
*
32780663 TTATCTATTTATATATTATTA-
1 TTATCTATTTATTTATTATTAT
* *
32780684 -TATATATGTATTTATTATTAT
1 TTATCTATTTATTTATTATTAT
32780705 TTATCTATTTATTTATTATTAT
1 TTATCTATTTATTTATTATTAT
32780727 TTATCTATTTATTTATTATTAT
1 TTATCTATTTATTTATTATTAT
*
32780749 TTATCTA-TTA-TTATTTTTAT
1 TTATCTATTTATTTATTATTAT
* * *
32780769 TTATCTAATTATTT-TCTTTTAA
1 TTATCTATTTATTTAT-TATTAT
32780791 TTATCTATT
1 TTATCTATT
32780800 AACATTTTTT
Statistics
Matches: 172, Mismatches: 16, Indels: 30
0.79 0.07 0.14
Matches are distributed among these distances:
19 14 0.08
20 41 0.24
21 14 0.08
22 71 0.41
23 15 0.09
24 2 0.01
25 15 0.09
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (22 bp):
TTATCTATTTATTTATTATTAT
Found at i:32780763 original size:42 final size:42
Alignment explanation
Indices: 32780631--32780800 Score: 175
Period size: 42 Copynumber: 3.9 Consensus size: 42
32780621 ATTTATTTTT
* *
32780631 TTATTATTTATCTGTTAATATATATTTATTATTTATCTA-T-TTA
1 TTATTATTTATCTATT--TATTTA-TTATTATTTATCTATTATTA
* *
32780674 TATATTATTATATATATGTATTTATTATTATTTATCTATTTATTTA
1 T-TATTATT-TATCTATTTATTTATTATTATTTATCTA-TTA-TTA
32780720 TTATTATTTATCTATTTATTTATTATTATTTATCTATTATTA
1 TTATTATTTATCTATTTATTTATTATTATTTATCTATTATTA
* * * *
32780762 TTTTTATTTATCTAATTATTT-TCTTTTAATTATCTATTA
1 TTATTATTTATCTATTTATTTAT-TATTATTTATCTATTA
32780801 ACATTTTTTA
Statistics
Matches: 110, Mismatches: 10, Indels: 15
0.81 0.07 0.11
Matches are distributed among these distances:
41 1 0.01
42 50 0.45
43 9 0.08
44 34 0.31
45 12 0.11
46 4 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (42 bp):
TTATTATTTATCTATTTATTTATTATTATTTATCTATTATTA
Found at i:32780782 original size:64 final size:64
Alignment explanation
Indices: 32780588--32780799 Score: 210
Period size: 64 Copynumber: 3.4 Consensus size: 64
32780578 ATATATTTAT
* * * *
32780588 TTATTTATTTATTA-TTA-CTATTTA-TTAATATATATTTATT-TTTTTATTATTTATCTGT-TA
1 TTATTTATTTATTATTTATCTATTTATTTATTAT-TATTTATTATTATTATT-TTTATTTATCTA
32780648 A
64 A
* * * *
32780649 -TATATATTTATTATTTATCTATTTATATATTATTATATA-TATGTATTTATTATTATTTATCTA
1 TTATTTATTTATTATTTATCTATTTATTTATTATTATTTATTAT-TA-TTATTTTTATTTATCTA
*
32780712 T
64 A
32780713 TTATTTA-TTATTATTTATCTATTTATTTATTATTATTTATCTATTATTATTTTTATTTATCTAA
1 TTATTTATTTATTATTTATCTATTTATTTATTATTATTTAT-TATTATTATTTTTATTTATCTAA
*
32780777 TTATTT-TCTT-TTAATTATCTATT
1 TTATTTAT-TTATTATTTATCTATT
32780800 AACATTTTTT
Statistics
Matches: 124, Mismatches: 15, Indels: 21
0.77 0.09 0.13
Matches are distributed among these distances:
60 12 0.10
61 4 0.03
62 13 0.10
63 12 0.10
64 71 0.57
65 9 0.07
66 3 0.02
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (64 bp):
TTATTTATTTATTATTTATCTATTTATTTATTATTATTTATTATTATTATTTTTATTTATCTAA
Found at i:32780807 original size:42 final size:43
Alignment explanation
Indices: 32780692--32780813 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 43
32780682 TATATATATG
* * * *
32780692 TATTTATTATTATTTATCTATTTA-TTTATTATTATTTATCTATT
1 TATTTATTATTAATTATCTATTAACATT-TT-TTATTTATCTAAT
* **
32780736 TATTTATTATTATTTATCTATTATTA-TTTTTATTTATCTAAT
1 TATTTATTATTAATTATCTATTAACATTTTTTATTTATCTAAT
*
32780778 TATTT-TCTTTTAATTATCTATTAACATTTTTTATTT
1 TATTTAT-TATTAATTATCTATTAACATTTTTTATTT
32780814 GATTTTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 32 0.48
43 11 0.16
44 23 0.34
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (43 bp):
TATTTATTATTAATTATCTATTAACATTTTTTATTTATCTAAT
Found at i:32781355 original size:16 final size:18
Alignment explanation
Indices: 32781325--32781364 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
32781315 TCGTCTGTTT
*
32781325 AAAGAGAGGGGAGAGA-A
1 AAAGAGAGGGAAGAGAGA
32781342 AAAGA-AGGGAAGAGAGA
1 AAAGAGAGGGAAGAGAGA
32781359 AAAGAG
1 AAAGAG
32781365 GAGAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (18 bp):
AAAGAGAGGGAAGAGAGA
Found at i:32781666 original size:22 final size:22
Alignment explanation
Indices: 32781640--32781747 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
32781630 GTTTATTTAT
32781640 TTATTTATTATTATTATTATTA
1 TTATTTATTATTATTATTATTA
* * **
32781662 TTATTTGTTGATTA-GATTAAAA
1 TTATTTATT-ATTATTATTATTA
* *
32781684 TTATTTAGTA-T-TTCTTATT-
1 TTATTTATTATTATTATTATTA
*
32781703 TTATTTTATT-TTATTTTTATCT-
1 TTA-TTTATTATTATTATTAT-TA
* *
32781725 TTATTT-TTATTTTTATTTTTA
1 TTATTTATTATTATTATTATTA
32781746 TT
1 TT
32781748 GTTTTTTTAA
Statistics
Matches: 63, Mismatches: 15, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
19 3 0.05
20 13 0.21
21 19 0.30
22 24 0.38
23 4 0.06
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TTATTTATTATTATTATTATTA
Found at i:32781722 original size:6 final size:6
Alignment explanation
Indices: 32781692--32781756 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
32781682 AATTATTTAG
*
32781692 TATTTCT TA-TTT TA-TTT TA-TTT TATTTT TATCTT TATTTT TATTTT
1 TATTT-T TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
*
32781738 TATTTT TATTGT T-TTTT TA
1 TATTTT TATTTT TATTTT TA
32781757 AATAAAATTA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
5 17 0.33
6 33 0.63
7 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:32781849 original size:59 final size:61
Alignment explanation
Indices: 32781786--32781913 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 61
32781776 TATTTTTAAG
32781786 AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA-CCTTTCT-AAAAAAATATTTTTGGA
1 AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATCCTTTCTAAAAAAAATATTTTTGGA
* ** *
32781845 AAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAATTTTTTTTAAAAAAAATATTTTTGGA
1 AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATCCTTTCTAAAAAAAATATTTTTGGA
*
32781906 GAAAAGTT
1 AAAAAGTT
32781914 TTTTTAGGAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 34 0.55
60 4 0.06
61 24 0.39
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.38
Consensus pattern (61 bp):
AAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATCCTTTCTAAAAAAAATATTTTTGGA
Found at i:32781935 original size:77 final size:74
Alignment explanation
Indices: 32781837--32781984 Score: 219
Period size: 77 Copynumber: 2.0 Consensus size: 74
32781827 TAAAAAAATA
*
32781837 TTTTTGGAAAAAAGTTGAAGGTATCAATTTTCCTTGAAAAT-AATTTTTTTTAAAAAAAATATTT
1 TTTTTGGAAAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAATTTTTCTT---AAAAATATTT
32781901 TTGGAGAAAAGTT
63 TTGG-GAAAAGTT
*
32781914 TTTTTAGG-AAAAAGTTGAAGGTATCAATTTTTCTTGAAAATAAATTTTTCTTAAAAATATTTTT
1 TTTTT-GGAAAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAATTTTTCTTAAAAATATTTTT
32781978 GGGAAAA
65 GGGAAAA
32781985 AGTTGAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
74 5 0.07
75 14 0.21
77 37 0.55
78 11 0.16
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (74 bp):
TTTTTGGAAAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAATTTTTCTTAAAAATATTTTTG
GGAAAAGTT
Found at i:32781977 original size:16 final size:17
Alignment explanation
Indices: 32781939--32781972 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32781929 TGAAGGTATC
*
32781939 AATTTTTCTTGAAAATA
1 AATTTTTCTTAAAAATA
32781956 AATTTTTCTTAAAAATA
1 AATTTTTCTTAAAAATA
32781973 TTTTTGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTTTCTTAAAAATA
Found at i:32781984 original size:59 final size:56
Alignment explanation
Indices: 32781914--32782120 Score: 238
Period size: 59 Copynumber: 3.6 Consensus size: 56
32781904 GAGAAAAGTT
* *
32781914 TTTTTAGGAAAAAGTTGAAGGTATCAATTTTTCTTGAAAATAAATTTTTCTTAAAAATA
1 TTTTTGGGAAAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAA-TTTTC-TAAAAATA
* * *
32781973 TTTTTGGGAAAAAGTTGAAAATATCAATTTTTTCTAAAAATAAGTTTTC-AAAAATGA
1 TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTT-TGAAAATAAATTTTCTAAAAAT-A
* * *
32782030 TTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTCGAAATTAAAGTTTCTAAAAA-A
1 --TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTT-GAAAATAAATTTTCTAAAAATA
*
32782088 TATTTTGGGAAAAAGTTGAAAGTATTAATTTTT
1 T-TTTTGGGAAAAAGTTGAAAGTATCAATTTTT
32782121 CTTGTATAAA
Statistics
Matches: 128, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
56 7 0.05
57 30 0.23
58 8 0.06
59 78 0.61
60 5 0.04
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (56 bp):
TTTTTGGGAAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAATTTTCTAAAAATA
Found at i:32788660 original size:98 final size:98
Alignment explanation
Indices: 32788491--32788688 Score: 369
Period size: 98 Copynumber: 2.0 Consensus size: 98
32788481 CATTCAAATA
*
32788491 TATACACCCATAAGACGTAAATCTCCAGTACTTTTATGCGGTGTCTATCCCACAAAATTTTATAA
1 TATACACCCATAAGACGTAAATCTCCAGTACTCTTATGCGGTGTCTATCCCACAAAATTTTATAA
32788556 CTCTGTTACATCTTTTTATCATACCTAATCATG
66 CTCTGTTACATCTTTTTATCATACCTAATCATG
*
32788589 TATACACCCATAAGACGTAAATCTCCAGTACTCTTATGCGGTGTCTATTCCACAAAATTTTATAA
1 TATACACCCATAAGACGTAAATCTCCAGTACTCTTATGCGGTGTCTATCCCACAAAATTTTATAA
*
32788654 CTCTGTTACATCTTTTTATCATATCTAATCATG
66 CTCTGTTACATCTTTTTATCATACCTAATCATG
32788687 TA
1 TA
32788689 GAGACTTTAC
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (98 bp):
TATACACCCATAAGACGTAAATCTCCAGTACTCTTATGCGGTGTCTATCCCACAAAATTTTATAA
CTCTGTTACATCTTTTTATCATACCTAATCATG
Found at i:32788798 original size:52 final size:52
Alignment explanation
Indices: 32788715--32788818 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
32788705 ATAACCATAT
* *
32788715 AAATTTACCTATTAAGAATCTTTTGCCTTTTAGAATTCTTCTTCTGCAAGTC
1 AAATTTACCTATTAAGAATCTTTTGCCTTTTAAAATTCTTCTTCTACAAGTC
* * * *
32788767 AAATTTATCTATTAAGAATTTTTTTCTTTTTAAAATTCTTCTTCTACAAGTC
1 AAATTTACCTATTAAGAATCTTTTGCCTTTTAAAATTCTTCTTCTACAAGTC
32788819 TTCTTATCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.29, C:0.16, G:0.07, T:0.48
Consensus pattern (52 bp):
AAATTTACCTATTAAGAATCTTTTGCCTTTTAAAATTCTTCTTCTACAAGTC
Found at i:32789633 original size:52 final size:52
Alignment explanation
Indices: 32789570--32789672 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
32789560 ACAACCATAT
* *
32789570 AAACTTGCCTATTAAAAATTTTTTACCATTTAAAATTTTTATTCTGTAAGTC
1 AAACTTACCTATTAAAAATTTTTTACCATTTAAAATTCTTATTCTGTAAGTC
* * ** *
32789622 AAACTTACCTATTAAGAATTTTTTTCTTTTTATAATTCTTATTCTGTAAGT
1 AAACTTACCTATTAAAAATTTTTTACCATTTAAAATTCTTATTCTGTAAGT
32789673 TTTTTTGTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.50
Consensus pattern (52 bp):
AAACTTACCTATTAAAAATTTTTTACCATTTAAAATTCTTATTCTGTAAGTC
Found at i:32795639 original size:3 final size:3
Alignment explanation
Indices: 32795631--32795655 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
32795621 CACAGTCCAC
32795631 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
32795656 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:32807996 original size:2 final size:2
Alignment explanation
Indices: 32807989--32808018 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32807979 CTGTTACAAT
32807989 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
32808019 CACACATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32808123 original size:21 final size:21
Alignment explanation
Indices: 32808081--32808130 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
32808071 TTTATTATCT
32808081 AATATATA-TTATAATAGTAA
1 AATATATATTTATAATAGTAA
*
32808101 AATATATATTTTTAA-ATGTAA
1 AATATATATTTATAATA-GTAA
*
32808122 AATAAATAT
1 AATATATAT
32808131 GAATATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
AATATATATTTATAATAGTAA
Found at i:32819706 original size:2 final size:2
Alignment explanation
Indices: 32819699--32819724 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
32819689 TGGATAAGGG
32819699 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
32819725 ATATCCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:32822319 original size:16 final size:17
Alignment explanation
Indices: 32822300--32822338 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
32822290 AATTGAAGTC
*
32822300 GGCTTTTATTGT-GAAA
1 GGCTTTTATTCTGGAAA
32822316 GGC-TTTATTCTGGAAA
1 GGCTTTTATTCTGGAAA
32822332 GGCTTTT
1 GGCTTTT
32822339 GACACGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 7 0.35
16 10 0.50
17 3 0.15
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (17 bp):
GGCTTTTATTCTGGAAA
Found at i:32829260 original size:20 final size:21
Alignment explanation
Indices: 32829221--32829261 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32829211 TGTCAATTGA
* *
32829221 ATAACTATTTTTTCACTATTT
1 ATAACTATTTTGTCAATATTT
32829242 ATAAC-ATTTTGTCAATATTT
1 ATAACTATTTTGTCAATATTT
32829262 TTTTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAACTATTTTGTCAATATTT
Found at i:32829727 original size:52 final size:52
Alignment explanation
Indices: 32829668--32829798 Score: 160
Period size: 52 Copynumber: 2.5 Consensus size: 52
32829658 GCAAAAAAAA
*
32829668 AATTCTAAGAGAAAGATGATTCTTAATAAGTAAGTTTGACTTACAAGAGAAG
1 AATTCTAAGAGAAAGATGATTCTTAATAAGTAAGTTTAACTTACAAGAGAAG
* * * *
32829720 AGTTCTAAAAGAAAAGAT-ATTTTTAATATGTAAGTTTAACTTACAAGAGAAG
1 AATTCTAAGAG-AAAGATGATTCTTAATAAGTAAGTTTAACTTACAAGAGAAG
*
32829772 AATTTTAAGAAGAGAA-A-GATTCTTAAT
1 AATTCTAAG-AGA-AAGATGATTCTTAAT
32829799 GGGCAAGTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
52 56 0.85
53 10 0.15
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (52 bp):
AATTCTAAGAGAAAGATGATTCTTAATAAGTAAGTTTAACTTACAAGAGAAG
Found at i:32830425 original size:24 final size:24
Alignment explanation
Indices: 32830398--32830446 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
32830388 AGAACCGAAG
32830398 GTTCGAGA-CATGAAAGAGCTGAAA
1 GTTCGAGATCATGAAAGAGCT-AAA
**
32830422 GTTCGAGATGTTGAAAGAGCTAAA
1 GTTCGAGATCATGAAAGAGCTAAA
32830446 G
1 G
32830447 GTTTAAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.39, C:0.10, G:0.31, T:0.20
Consensus pattern (24 bp):
GTTCGAGATCATGAAAGAGCTAAA
Found at i:32830455 original size:25 final size:25
Alignment explanation
Indices: 32830408--32830457 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32830398 GTTCGAGACA
*
32830408 TGAAAGAGCTGAAAGTTCGAGATGT
1 TGAAAGAGCTGAAAGTTCAAGATGT
*
32830433 TGAAAGAGCT-AAAGGTTTAAGATGT
1 TGAAAGAGCTGAAA-GTTCAAGATGT
32830458 GGGAAGTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 19 0.86
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (25 bp):
TGAAAGAGCTGAAAGTTCAAGATGT
Found at i:32830726 original size:22 final size:22
Alignment explanation
Indices: 32830701--32830743 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
32830691 AAATCCCATA
*
32830701 AGAGATTTGTTTTG-GATTTGTT
1 AGAGATTT-ATTTGAGATTTGTT
32830723 AGAGATTTATTTGAGATTTGT
1 AGAGATTTATTTGAGATTTGT
32830744 CAAATATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
AGAGATTTATTTGAGATTTGTT
Found at i:32830848 original size:52 final size:51
Alignment explanation
Indices: 32830768--32830893 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 51
32830758 TGGATAAGAA
* * *
32830768 GACTTGCAA-AAGAAAAATTTTAAGAG-AAAGATGATTCTTAATAGGTAAATTT
1 GACTTGCAAGAA-AAGAATTCTAAAAGAAAAGA-GATT-TTAATAGGTAAATTT
* *
32830820 GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTTTAATATGTAAGTTT
1 GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTTTAATAGGTAAATTT
* * * *
32830871 AACTTACAGGAGAAGAATTCTAA
1 GACTTGCAAGAAAAGAATTCTAA
32830894 TAGGAGAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 32 0.51
52 24 0.38
53 7 0.11
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (51 bp):
GACTTGCAAGAAAAGAATTCTAAAAGAAAAGAGATTTTAATAGGTAAATTT
Found at i:32830887 original size:51 final size:54
Alignment explanation
Indices: 32830789--32830893 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 54
32830779 GAAAAATTTT
* *
32830789 AAGAGAAAGATGATTCTTAATAGGTAAATTTGACTTGCAAGAAAAGAATTCTAA
1 AAGAGAAAGATGATTCTTAATAGGTAAATTTAACTTACAAGAAAAGAATTCTAA
* * * *
32830843 AAGA-AAAGA-GATT-TTAATATGTAAGTTTAACTTACAGGAGAAGAATTCTAA
1 AAGAGAAAGATGATTCTTAATAGGTAAATTTAACTTACAAGAAAAGAATTCTAA
32830894 TAGGAGAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
51 32 0.71
52 4 0.09
53 5 0.11
54 4 0.09
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (54 bp):
AAGAGAAAGATGATTCTTAATAGGTAAATTTAACTTACAAGAAAAGAATTCTAA
Found at i:32832470 original size:2 final size:2
Alignment explanation
Indices: 32832463--32832493 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32832453 TCAAACGTTA
32832463 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 A
32832494 AATTGCTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32833572 original size:37 final size:37
Alignment explanation
Indices: 32833531--32833602 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
32833521 TTTTTGGGCT
*
32833531 TATGGTAATAGTTTGATTAAACAACAACTTTTGTTTG
1 TATGGTAATAGTATGATTAAACAACAACTTTTGTTTG
* *
32833568 TATGGTAATAGTATGCTTAAACAACATCTTTTGTT
1 TATGGTAATAGTATGATTAAACAACAACTTTTGTT
32833603 CTTTGAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (37 bp):
TATGGTAATAGTATGATTAAACAACAACTTTTGTTTG
Found at i:32843125 original size:2 final size:2
Alignment explanation
Indices: 32843118--32843151 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
32843108 TTATATCTTA
* *
32843118 AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32843152 TAAAATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:32844371 original size:24 final size:24
Alignment explanation
Indices: 32844352--32844398 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32844342 CTTAAAATCT
* *
32844352 TAAAATATAT-AATAAATAAAAATA
1 TAAAATACATAAAAAAAT-AAAATA
32844376 TAAAATACATAAAAAAATAAAAT
1 TAAAATACATAAAAAAATAAAAT
32844399 TATTTCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
TAAAATACATAAAAAAATAAAATA
Found at i:32844375 original size:17 final size:17
Alignment explanation
Indices: 32844353--32844398 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
32844343 TTAAAATCTT
*
32844353 AAAATATATAATAAATA
1 AAAATATAAAATAAATA
*
32844370 AAAATATAAAATACATA
1 AAAATATAAAATAAATA
*
32844387 AAAAAATAAAAT
1 AAAATATAAAAT
32844399 TATTTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATATAAAATAAATA
Found at i:32862632 original size:149 final size:149
Alignment explanation
Indices: 32862337--32862629 Score: 450
Period size: 149 Copynumber: 2.0 Consensus size: 149
32862327 CAATCAATAA
* * * *
32862337 AATCTTTCAATCGTTTGGTAAGATTTTATATAAATGCATATCTCCTAATTATTTGACGAGATTTT
1 AATCCTTCAATCGTTTGGTAAGATTTTATATAAATGCATATCTCCCAATCATTGGACGAGATTTT
* * *
32862402 TGTTGAAAATCTTTTTATGAAATTTTTTAAAAACATATTGTCATTAAATCCTCTAATAGTTTGGT
66 TGTTAAAAATCTTTTTATGAAATTTTTTAAAAACACATTGTCATTAAATCCTCTAATAGTTTAGT
32862467 AAGATTTAACGAAAATTTG
131 AAGATTTAACGAAAATTTG
*
32862486 AATCCTTCAATCGTTTGGTAAGATTTTATATCAATGCATATC-CCACAATCATTCGGTA-G-GAT
1 AATCCTTCAATCGTTTGGTAAGATTTTATATAAATGCATATCTCC-CAATCATT-GG-ACGAGAT
32862548 TTTTGTTAAAAATCTTTTTATGAAA-TTTTTAAAAACACATTGTCATTAAATCCTCTAATAGTTT
63 TTTTGTTAAAAATCTTTTTATGAAATTTTTTAAAAACACATTGTCATTAAATCCTCTAATAGTTT
*
32862612 AGTAAGATTTAATGAAAA
128 AGTAAGATTTAACGAAAA
32862630 ATTAAATCTT
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
148 56 0.42
149 73 0.55
150 2 0.02
151 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (149 bp):
AATCCTTCAATCGTTTGGTAAGATTTTATATAAATGCATATCTCCCAATCATTGGACGAGATTTT
TGTTAAAAATCTTTTTATGAAATTTTTTAAAAACACATTGTCATTAAATCCTCTAATAGTTTAGT
AAGATTTAACGAAAATTTG
Found at i:32862835 original size:19 final size:18
Alignment explanation
Indices: 32862813--32862855 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
32862803 AATAAATAAA
*
32862813 TAAAAACAAATAATAAAAT
1 TAAAAACAAACAA-AAAAT
* *
32862832 TAAAAATATACAAAAAAT
1 TAAAAACAAACAAAAAAT
32862850 TAAAAA
1 TAAAAA
32862856 TAATTGAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (18 bp):
TAAAAACAAACAAAAAAT
Found at i:32868319 original size:19 final size:19
Alignment explanation
Indices: 32868282--32868318 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32868272 AAAATTTGAC
32868282 CTAAAATAATAAAATAAAA
1 CTAAAATAATAAAATAAAA
*
32868301 CTAAAATAA-AATATAAAA
1 CTAAAATAATAAAATAAAA
32868319 AAAAATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (19 bp):
CTAAAATAATAAAATAAAA
Found at i:32870732 original size:60 final size:58
Alignment explanation
Indices: 32870547--32870771 Score: 285
Period size: 60 Copynumber: 3.8 Consensus size: 58
32870537 TGCTTTTATA
* *
32870547 CAAGAAAAATTGATACTTTCAACTTTTCCT-GAAAATACCTTTTATTGAAA-TTTTATCTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTT-TTGAAATTTTTATTTT
* * *
32870606 CAAGAAAAATTGATACTTTCAACTTCTCCTCGAAAAT-GTTTTTGAAATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTTATTTT
* * *
32870663 CAAGGAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTGATATATTTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGA-A-ATTTTTATTTT
* *
32870723 TAAGAAAAATTGATACTTTCAAATTTTCCTCAAAAATATTTTTTTGAAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAA
32870772 CATTTTTCTT
Statistics
Matches: 146, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
56 6 0.04
57 43 0.29
58 7 0.05
59 31 0.21
60 51 0.35
61 8 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTTATTTT
Found at i:32870759 original size:117 final size:115
Alignment explanation
Indices: 32870547--32870765 Score: 289
Period size: 117 Copynumber: 1.9 Consensus size: 115
32870537 TGCTTTTATA
*
32870547 CAAGAAAAATTGATACTTTCAACTTTTCCTGAAAATACCTTTTATTGAAATTTTATCTTCAAGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATA-CTTTTATTGAAATTTTATCTTCAAGAA
* * *
32870612 AAATTGATACTTTCAACTTCTCCTCGAAAATGTTTTTGAAATTTTTATTTT
65 AAATTGATACTTTCAAATTCTCCTCAAAAATATTTTTGAAATTTTTATTTT
* * * * *
32870663 CAAGGAAAATTGATACTTTTAACTTTTTCTCAAAAATA-TTTT-TTGATATATTTTTATTTTTAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATACTTTTATTGA-A-A-TTTTATCTTCAA
*
32870726 GAAAAATTGATACTTTCAAATTTTCCTCAAAAATATTTTT
62 GAAAAATTGATACTTTCAAATTCTCCTCAAAAATATTTTT
32870766 TTGAAACATT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
114 4 0.04
115 5 0.06
116 28 0.31
117 52 0.58
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (115 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTAAAAATACTTTTATTGAAATTTTATCTTCAAGAAA
AATTGATACTTTCAAATTCTCCTCAAAAATATTTTTGAAATTTTTATTTT
Found at i:32872381 original size:119 final size:116
Alignment explanation
Indices: 32872242--32872595 Score: 390
Period size: 119 Copynumber: 3.0 Consensus size: 116
32872232 TTTATACGAA
* * * * *
32872242 AAAAATTGATACATTCAACTTTTCCTCAAAAATGCTTTTTCTTTAACATTTTATTTTTAAGAAAA
1 AAAAATTGATACTTTCAACTTTTTCTTAAAAAT-ATTTTT-TTTAAAATTTTATTTTTAAGAAAA
* *
32872307 ATTGATACTTTCAACCTTTCCTTAAAAATGT-TTTCTGAAAATTTTATTTTCAA-
64 ATTGATACTTTCAACTTTTCCTTAAAAATATATTT-T-AAAATTTTATTTTCAAG
**** * *
32872360 AGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTAAAAAAAAAATTTT-TTCTCAAGAAA
1 A-AAAATTGATACTTTCAACTTTTTCTTAAAAATATTTT--TTTTAAAATTTTATTTTTAAGAAA
**
32872424 AATTGATACTTTCAACTTTTCCTTATAAATATATATTTTTTAATTTTATTTTCAAG
63 AATTGATACTTTCAACTTTTCCTTA-AAA-ATATATTTTAAAATTTTATTTTCAAG
* * * * *
32872480 AAAAATTGATGCTTTCAATTTTTTTCTTAAAAATATATTTTTTAAAATTGTATTTTTCAGAAAAA
1 AAAAATTGATACTTTCAA-CTTTTTCTTAAAAATATTTTTTTTAAAATTTTATTTTTAAGAAAAA
32872545 TTGATACTTTCAACTTTTCCTTAAAAATATATTGTTTAAAAATTTTATTTT
65 TTGATACTTTCAACTTTTCCTTAAAAATATA-T-TTT-AAAATTTTATTTT
32872596 ATATTTGTTC
Statistics
Matches: 196, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
117 5 0.03
118 49 0.25
119 105 0.54
120 34 0.17
121 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTTAAAATTTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCCTTAAAAATATATTTTAAAATTTTATTTTCAAG
Found at i:32872481 original size:59 final size:57
Alignment explanation
Indices: 32872242--32872583 Score: 316
Period size: 60 Copynumber: 5.8 Consensus size: 57
32872232 TTTATACGAA
* * * * *
32872242 AAAAATTGATACATTCAACTTTTCCTCAAAAATGCTTTTTCTTTAACATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAAT-ATATTT-TTT-A-ATTTTATTTTCAAG
* * **
32872303 AAAAATTGATACTTTCAACCTTTCCTTAAAAATGT-TTTCTGAAAATTTTATTTTCAA-
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTT-T-TTAATTTTATTTTCAAG
* *** *
32872360 AGAAAATTGATACTTTCAACTTTTTCTTAAAAATAT-TTTAAAAAAAAAATTTT-TTCTCAAG
1 A-AAAATTGATACTTTCAACTTTTCCTTAAAAATATATTT-----TTTAATTTTATTTTCAAG
32872421 AAAAATTGATACTTTCAACTTTTCCTTATAAATATATATTTTTTAATTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTTA-AAA-ATATATTTTTTAATTTTATTTTCAAG
* * * *
32872480 AAAAATTGATGCTTTCAATTTTTTTCTTAAAAATATATTTTTTAAAATTGTATTTTTC-AG
1 AAAAATTGATACTTTCAA-CTTTTCCTTAAAAATATATTTTTT--AATTTTA-TTTTCAAG
*
32872540 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTGTTTAA
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTAA
32872584 AAATTTTATT
Statistics
Matches: 240, Mismatches: 26, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
57 3 0.01
58 63 0.26
59 54 0.22
60 66 0.28
61 47 0.20
62 4 0.02
63 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTTTAATTTTATTTTCAAG
Done.