Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 60 of 74
Found at i:11849158 original size:39 final size:39
Alignment explanation
Indices: 11849100--11849190 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 39
11849090 TTATACCTAC
*
11849100 TTAATTATTTATTCCTTTTCATTGT-TTATACTTGCTGAA
1 TTAATTATTTATTCCTTTTC-TTGTCTTATACATGCTGAA
* * *
11849139 -TAATTCATTTATTTCTTTTCTTTTCTTATACATGCTTAA
1 TTAATT-ATTTATTCCTTTTCTTGTCTTATACATGCTGAA
11849178 TTAATTATTTATT
1 TTAATTATTTATT
11849191 GTATTATATC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 8 0.18
39 32 0.71
40 5 0.11
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.59
Consensus pattern (39 bp):
TTAATTATTTATTCCTTTTCTTGTCTTATACATGCTGAA
Found at i:11859945 original size:23 final size:23
Alignment explanation
Indices: 11859903--11859993 Score: 68
Period size: 23 Copynumber: 4.0 Consensus size: 23
11859893 CATTTTACTA
11859903 TATATATACTATATTATTATTAT
1 TATATATACTATATTATTATTAT
11859926 TATATCATACT-T-TTA-T-TTAT
1 TATAT-ATACTATATTATTATTAT
* * *
11859946 TATATGTTA-TAGTGTTATTATTAA
1 TATAT-ATACTA-TATTATTATTAT
*
11859970 TCT-TATACTATAGTTATTATTAT
1 TATATATACTATA-TTATTATTAT
11859993 T
1 T
11859994 GTTATTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.02
20 11 0.21
21 2 0.04
22 9 0.17
23 20 0.38
24 10 0.19
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.57
Consensus pattern (23 bp):
TATATATACTATATTATTATTAT
Found at i:11859999 original size:12 final size:12
Alignment explanation
Indices: 11859958--11860005 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
11859948 TATGTTATAG
*
11859958 TGTTATTATTAA
1 TGTTATTATTAT
* *
11859970 TCTTA-TACTAT
1 TGTTATTATTAT
*
11859981 AGTTATTATTAT
1 TGTTATTATTAT
11859993 TGTTATTATTAT
1 TGTTATTATTAT
11860005 T
1 T
11860006 ATTTACATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.60
Consensus pattern (12 bp):
TGTTATTATTAT
Found at i:11860835 original size:22 final size:22
Alignment explanation
Indices: 11860791--11860843 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11860781 GTTCCTTTTC
* ** *
11860791 TATTTTCTATTTTTTTTTTATT
1 TATTTTATATTTTTAATTGATT
11860813 TATTTTATATTTTTAATTGATT
1 TATTTTATATTTTTAATTGATT
11860835 TCATTTTAT
1 T-ATTTTAT
11860844 TTTATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.74
Consensus pattern (22 bp):
TATTTTATATTTTTAATTGATT
Found at i:11861916 original size:47 final size:47
Alignment explanation
Indices: 11861859--11861959 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 47
11861849 TTCATATTTG
* * *
11861859 CAAGAATAAAGATTTACAA-AATTTAATTATCAAAATTTTAGTTTCA
1 CAAGATTAAAGATTTACAAGAATTTAATTAGCAAAATTTTAGATTCA
** * *
11861905 CAAAGATTAAAGATTTGTAAGAATTTGATTCGCAAAATTTTAGATTCA
1 C-AAGATTAAAGATTTACAAGAATTTAATTAGCAAAATTTTAGATTCA
11861953 CAAGATT
1 CAAGATT
11861960 TTTCAGCTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
46 1 0.02
47 21 0.46
48 24 0.52
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (47 bp):
CAAGATTAAAGATTTACAAGAATTTAATTAGCAAAATTTTAGATTCA
Found at i:11862486 original size:20 final size:20
Alignment explanation
Indices: 11862448--11862487 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11862438 TCACATCCAA
*
11862448 AAGTTCAAAACTTCTCATTC
1 AAGTTCAAAACTTCACATTC
11862468 AAGTTCAAAGA-TTCACATTC
1 AAGTTCAAA-ACTTCACATTC
11862488 GATATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (20 bp):
AAGTTCAAAACTTCACATTC
Found at i:11862519 original size:108 final size:108
Alignment explanation
Indices: 11862224--11862622 Score: 485
Period size: 108 Copynumber: 3.7 Consensus size: 108
11862214 TTCAGGATTT
* * * * * *
11862224 CATCCAAAATTTCAAAGTTTTTCATTCGAGTTTAAATATTCACATTTGATAAATTTTAGAGTTTC
1 CATCCAAAAGTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTTC
*
11862289 ACATATAAATTCAAAGGTTCTTATTCAAAAAATTTAAAGGTTCA
66 ACATCTAAATTCAAAGGTTCTTATTCAAAAAATTT-AAGGTTCA
* * * *
11862333 CGTCCAAAAGTTTAAAGCTTCTTATTCGAA-TTCAAATATTCACATTTGATAAATTTTAGAGTTT
1 CATCCAAAAGTTCAAAGCTTCTCATTC-AAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTT
* * * **
11862397 CGCATCTAAATTCAAAGGTTCTCATTCAAGAAATTTGGGGTTCA
65 CACATCTAAATTCAAAGGTTCTTATTCAAAAAATTTAAGGTTCA
* * * *
11862441 CATCCAAAAGTTCAAAACTTCTCATTCAAGTTCAAAGATTCACATTCGATATATTTTAAAGTTTC
1 CATCCAAAAGTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTTC
* * * **
11862506 ACATCCAATTTCAAAGGTTCTTATTCAAAAAATTTTACATTCA
66 ACATCTAAATTCAAAGGTTCTTATTCAAAAAATTTAAGGTTCA
* * * ** *
11862549 CATCCAAAAGTTCAAAGTTTCTCATTCGAGTTTAAAGATTCACATTAAAAAAATTTTAGAGTTTC
1 CATCCAAAAGTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTTC
*
11862614 ACCTCTAAA
66 ACATCTAAA
11862623 ATTTTAAAAA
Statistics
Matches: 245, Mismatches: 43, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
107 2 0.01
108 156 0.64
109 86 0.35
110 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (108 bp):
CATCCAAAAGTTCAAAGCTTCTCATTCAAGTTCAAAGATTCACATTTGATAAATTTTAGAGTTTC
ACATCTAAATTCAAAGGTTCTTATTCAAAAAATTTAAGGTTCA
Found at i:11862678 original size:21 final size:22
Alignment explanation
Indices: 11862626--11862734 Score: 105
Period size: 21 Copynumber: 4.9 Consensus size: 22
11862616 CTCTAAAATT
*
11862626 TTAAAAATTCTCATTCAAAACTTC
1 TTAAAAATTCTCATT-TAAAC-TC
11862650 TTAAAAATTCTCATTTAAA-TC
1 TTAAAAATTCTCATTTAAACTC
* *
11862671 TAAAAAATTTTCATTTAAAACTTC
1 TTAAAAATTCTCATTT-AAAC-TC
* *
11862695 TTAAAGATTCTCATTTAAA-AC
1 TTAAAAATTCTCATTTAAACTC
**
11862716 TTAAGGATTCTCATTTAAA
1 TTAAAAATTCTCATTTAAA
11862735 GATTCATAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.47
22 3 0.04
23 6 0.08
24 30 0.41
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAAAAATTCTCATTTAAACTC
Found at i:11862730 original size:45 final size:45
Alignment explanation
Indices: 11862628--11862734 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
11862618 CTAAAATTTT
* *
11862628 AAAAATTCTCATTCAAAACTTCTTAAAAATTCTCATTTAAATCTA
1 AAAAATTCTCATTTAAAACTTCTTAAAAATTCTCATTTAAAACTA
* * *
11862673 AAAAATTTTCATTTAAAACTTCTTAAAGATTCTCATTTAAAACTT
1 AAAAATTCTCATTTAAAACTTCTTAAAAATTCTCATTTAAAACTA
**
11862718 AAGGATTCTCATTTAAA
1 AAAAATTCTCATTTAAA
11862735 GATTCATAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (45 bp):
AAAAATTCTCATTTAAAACTTCTTAAAAATTCTCATTTAAAACTA
Found at i:11863878 original size:8 final size:8
Alignment explanation
Indices: 11863867--11863921 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
11863857 ATTTTTCACA
11863867 TTTTTCAT
1 TTTTTCAT
*
11863875 TTTTTCGCT
1 TTTTTC-AT
*
11863884 TTGTTCAT
1 TTTTTCAT
*
11863892 TTTTTTATT
1 TTTTTCA-T
11863901 TTTTTCAT
1 TTTTTCAT
11863909 TTTTTCAT
1 TTTTTCAT
11863917 TTTTT
1 TTTTT
11863922 TCTTCATCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 26 0.67
9 13 0.33
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:11863895 original size:25 final size:25
Alignment explanation
Indices: 11863849--11863921 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
11863839 TCTCTCTCTT
* *
11863849 TTTTTTTTATTT-TTCACATTTTTCA
1 TTTTTTTCATTTGTTCA-TTTTTTCA
* *
11863874 -TTTTTTCGCTTTGTTCATTTTTTTA
1 TTTTTTTC-ATTTGTTCATTTTTTCA
*
11863899 TTTTTTTCATTTTTTCATTTTTT
1 TTTTTTTCATTTGTTCATTTTTT
11863922 TCTTCATCCA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.15
25 22 0.56
26 11 0.28
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTTTTTCATTTGTTCATTTTTTCA
Found at i:11863921 original size:17 final size:17
Alignment explanation
Indices: 11863849--11863923 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 17
11863839 TCTCTCTCTT
*
11863849 TTTTTTTTA-TTTTTCA
1 TTTTTTTCATTTTTTCA
** *
11863865 CATTTTTCATTTTTTCG
1 TTTTTTTCATTTTTTCA
* * *
11863882 CTTTGTTCATTTTTTTA
1 TTTTTTTCATTTTTTCA
11863899 TTTTTTTCATTTTTTCA
1 TTTTTTTCATTTTTTCA
11863916 TTTTTTTC
1 TTTTTTTC
11863924 TTCATCCATT
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
16 6 0.13
17 41 0.87
ACGTcount: A:0.11, C:0.12, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTTTTCATTTTTTCA
Found at i:11866048 original size:23 final size:21
Alignment explanation
Indices: 11865991--11866049 Score: 57
Period size: 23 Copynumber: 2.7 Consensus size: 21
11865981 TTTTTTATAT
*
11865991 TTTTTAAATTTATT-TATTTGA
1 TTTTTAAA-TTATTATATTTTA
*
11866012 TTTTTGAATATATTATATATTTA
1 TTTTTAAAT-TATTATAT-TTTA
11866035 TTTTGTAAATTATTA
1 TTTT-TAAATTATTA
11866050 ATAATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 3 0.10
23 12 0.39
24 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTTTAAATTATTATATTTTA
Found at i:11869368 original size:3 final size:3
Alignment explanation
Indices: 11869354--11869394 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
11869344 GCAACAAACC
* * *
11869354 CAG CAA CAG CAG CAG CAG CAA CAA CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
11869395 ACAGAGGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.41, C:0.34, G:0.24, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:11869372 original size:9 final size:9
Alignment explanation
Indices: 11869354--11869398 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
11869344 GCAACAAACC
11869354 CAGCAACAG
1 CAGCAACAG
*
11869363 CAGCAGCAG
1 CAGCAACAG
*
11869372 CAACAACAG
1 CAGCAACAG
*
11869381 CAGCAGCAG
1 CAGCAACAG
11869390 CAGCAACAG
1 CAGCAACAG
11869399 AGGCAAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.42, C:0.33, G:0.24, T:0.00
Consensus pattern (9 bp):
CAGCAACAG
Found at i:11869378 original size:18 final size:18
Alignment explanation
Indices: 11869357--11869398 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
11869347 ACAAACCCAG
11869357 CAACAGCAGCAGCAGCAA
1 CAACAGCAGCAGCAGCAA
*
11869375 CAACAGCAGCAGCAGCAG
1 CAACAGCAGCAGCAGCAA
11869393 CAACAG
1 CAACAG
11869399 AGGCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.33, G:0.24, T:0.00
Consensus pattern (18 bp):
CAACAGCAGCAGCAGCAA
Found at i:11880633 original size:7 final size:7
Alignment explanation
Indices: 11880621--11880664 Score: 79
Period size: 7 Copynumber: 6.1 Consensus size: 7
11880611 TTTTTTTTTC
11880621 TTAATTT
1 TTAATTT
11880628 TTAATTT
1 TTAATTT
11880635 TTAATTT
1 TTAATTT
11880642 TTAATTT
1 TTAATTT
11880649 TTAATTT
1 TTAATTT
11880656 GTTAATTT
1 -TTAATTT
11880664 T
1 T
11880665 CTTTTTTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 29 0.81
8 7 0.19
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:11881960 original size:14 final size:13
Alignment explanation
Indices: 11881933--11881989 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
11881923 TTATTGTTGT
**
11881933 AAAAATCATTAAA
1 AAAAATCAAAAAA
11881946 AAAAATCAAAGAAA
1 AAAAATCAAA-AAA
*
11881960 AAAAATCAAAACA
1 AAAAATCAAAAAA
11881973 AAAAATCAAAAATA
1 AAAAATCAAAAA-A
11881987 AAA
1 AAA
11881990 GAAAAGTTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 21 0.55
14 17 0.45
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAATCAAAAAA
Found at i:11883968 original size:6 final size:6
Alignment explanation
Indices: 11883947--11883984 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
11883937 CATTTTATTA
*
11883947 TTTTAT CTTTATT TTTTAT TTTTAT TTTT-T TTTTAT TT
1 TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT TT
11883985 AGTCAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 18 0.64
7 5 0.18
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:11885099 original size:17 final size:17
Alignment explanation
Indices: 11885073--11885105 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11885063 TTGATTGATA
11885073 TTTTTATGAT-TTTTTC
1 TTTTTATGATATTTTTC
11885089 TTTTCTATGATATTTTT
1 TTTT-TATGATATTTTT
11885106 TATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 6 0.40
18 5 0.33
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTATGATATTTTTC
Found at i:11887547 original size:22 final size:20
Alignment explanation
Indices: 11887516--11887578 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
11887506 CATTTTGGTG
11887516 TGAATCTTGAAAATTTTTATA
1 TGAATCTTGAAAATTTTTA-A
*
11887537 TGAATCTTTG-AAATTTTCAA
1 TGAATC-TTGAAAATTTTTAA
*
11887557 TGTAATCTTGAAAACTTTTAA
1 TG-AATCTTGAAAATTTTTAA
11887578 T
1 T
11887579 CGTGATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.17
21 27 0.75
22 3 0.08
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.46
Consensus pattern (20 bp):
TGAATCTTGAAAATTTTTAA
Found at i:11888183 original size:20 final size:20
Alignment explanation
Indices: 11888158--11888197 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11888148 GAACCACCTG
11888158 CTAAATCGCATGAATTGCAC
1 CTAAATCGCATGAATTGCAC
* *
11888178 CTAAATTGCTTGAATTGCAC
1 CTAAATCGCATGAATTGCAC
11888198 TTGAATCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.30
Consensus pattern (20 bp):
CTAAATCGCATGAATTGCAC
Found at i:11888526 original size:3 final size:3
Alignment explanation
Indices: 11888518--11888564 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
11888508 TTTCATTTGC
11888518 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11888565 TTAATTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11889681 original size:18 final size:17
Alignment explanation
Indices: 11889660--11889707 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
11889650 ATATTATTTT
11889660 TTAAATATAAATATAAAA
1 TTAAAT-TAAATATAAAA
*
11889678 TTAAATTAATATATAATA
1 TTAAATTAA-ATATAAAA
*
11889696 TAAAATTAAATA
1 TTAAATTAAATA
11889708 ATTAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATTAAATATAAAA
Found at i:11889686 original size:23 final size:23
Alignment explanation
Indices: 11889663--11889706 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
11889653 TTATTTTTTA
11889663 AATATA-AATATAAAATTAAATT
1 AATATATAATATAAAATTAAATT
11889685 AATATATAATATAAAATTAAAT
1 AATATATAATATAAAATTAAAT
11889707 AATTAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AATATATAATATAAAATTAAATT
Found at i:11889718 original size:18 final size:19
Alignment explanation
Indices: 11889660--11889720 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 19
11889650 ATATTATTTT
*
11889660 TTAAAT-ATAAATATAAAA
1 TTAAATAATTAATATAAAA
11889678 TTAAATTAATATATAATATAAAA
1 TTAAA-T-A-AT-TAATATAAAA
*
11889701 TTAAATAATTAATAAAAAA
1 TTAAATAATTAATATAAAA
11889720 T
1 T
11889721 AATTATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 2 0.06
21 1 0.03
22 3 0.08
23 14 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAATAATTAATATAAAA
Found at i:11890240 original size:21 final size:21
Alignment explanation
Indices: 11890201--11890240 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11890191 TATTCGATTC
* * *
11890201 TAATTCTTTTATTGTAAAAAA
1 TAATTATTTTAATGGAAAAAA
11890222 TAATTATTTTAATGGAAAA
1 TAATTATTTTAATGGAAAA
11890241 TTCATATGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (21 bp):
TAATTATTTTAATGGAAAAAA
Found at i:11891131 original size:24 final size:24
Alignment explanation
Indices: 11891099--11891146 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11891089 TTAGTAGTAT
11891099 TTAAGAAGCATTAAGATCAAGAAA
1 TTAAGAAGCATTAAGATCAAGAAA
11891123 TTAAGAAGCATTAAGATCAAGAAA
1 TTAAGAAGCATTAAGATCAAGAAA
11891147 GTTATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.21
Consensus pattern (24 bp):
TTAAGAAGCATTAAGATCAAGAAA
Found at i:11891749 original size:41 final size:41
Alignment explanation
Indices: 11891704--11891785 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
11891694 TTTTTCATCC
*
11891704 ACTCAACTGGGTTGAATGTGAAAATTTAAAAATTGTTTATA
1 ACTCAACTGGGTTGAATGTGAAAAGTTAAAAATTGTTTATA
* * *
11891745 ACTCATCTGGGTTGAATGTGAAAAGTTATAATTTGTTTATA
1 ACTCAACTGGGTTGAATGTGAAAAGTTAAAAATTGTTTATA
11891786 CTTAAATTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.39
Consensus pattern (41 bp):
ACTCAACTGGGTTGAATGTGAAAAGTTAAAAATTGTTTATA
Found at i:11891979 original size:81 final size:80
Alignment explanation
Indices: 11891850--11892004 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 80
11891840 GGAAACATAC
** *
11891850 TTTTTTGGGTGGGGGGAAGGGGGGTTTGGAAGAGGAAATAAACTCTTATATATGTGAATGCAGAC
1 TTTTTTGGGTGGGGGGAAGGGGGGTCAGAAAGAGGAAATAAACTCTTATATATGTGAATGCAGAC
*
11891915 ATTTGCATGTATACTT
66 -GTTGCATGTATACTT
*
11891931 TTTTTTGGTTGGGGGG-AGGGGGGCTCAGAAAGAGGAAATAAACTCTTATATATGTGAATGCAGA
1 TTTTTTGGGTGGGGGGAAGGGGGG-TCAGAAAGAGGAAATAAACTCTTATATATGTGAATGCAGA
11891995 CGTTGCATGT
65 CGTTGCATGT
11892005 CCATATAGGT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 15 0.22
81 53 0.78
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.32
Consensus pattern (80 bp):
TTTTTTGGGTGGGGGGAAGGGGGGTCAGAAAGAGGAAATAAACTCTTATATATGTGAATGCAGAC
GTTGCATGTATACTT
Found at i:11896222 original size:31 final size:31
Alignment explanation
Indices: 11896187--11896255 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
11896177 TGGTTTATTT
11896187 TGAGCCAAACCTGAAACTGAACTATAAATTC
1 TGAGCCAAACCTGAAACTGAACTATAAATTC
*
11896218 TGAGCCAATCCTGAAACTGAACTATAAATTC
1 TGAGCCAAACCTGAAACTGAACTATAAATTC
11896249 TGAGCCA
1 TGAGCCA
11896256 TTAAAGTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.23
Consensus pattern (31 bp):
TGAGCCAAACCTGAAACTGAACTATAAATTC
Found at i:11903166 original size:2 final size:2
Alignment explanation
Indices: 11903153--11903190 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
11903143 TTTCTTTGTA
*
11903153 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11903191 CTTTAATATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11906124 original size:14 final size:14
Alignment explanation
Indices: 11906105--11906135 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11906095 TTTACCTACT
11906105 AAAATAAGTGAATA
1 AAAATAAGTGAATA
*
11906119 AAAATAATTGAATA
1 AAAATAAGTGAATA
11906133 AAA
1 AAA
11906136 TGTTAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (14 bp):
AAAATAAGTGAATA
Found at i:11908287 original size:61 final size:61
Alignment explanation
Indices: 11908188--11908307 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
11908178 AGACAGTCTG
*
11908188 CATTTGAATTTCAAAGTATCAATTTAAAGACCTTAGAAGAGTTAAAAGCAATAAAATTATA
1 CATTTGAATTTCAAAGTATCAATTTAAAGACCTCAGAAGAGTTAAAAGCAATAAAATTATA
*
11908249 CATTTGAATTTCAAAGTATCAATTTAAAGACGTCAGAAGAGTTAAAAGCAATAAAATTA
1 CATTTGAATTTCAAAGTATCAATTTAAAGACCTCAGAAGAGTTAAAAGCAATAAAATTA
11908308 AGTGATCTAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (61 bp):
CATTTGAATTTCAAAGTATCAATTTAAAGACCTCAGAAGAGTTAAAAGCAATAAAATTATA
Found at i:11911335 original size:12 final size:12
Alignment explanation
Indices: 11911320--11911345 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11911310 AATAAATAAA
11911320 TTATTTATTTGT
1 TTATTTATTTGT
11911332 TTATTTATTTGT
1 TTATTTATTTGT
11911344 TT
1 TT
11911346 TCATCAGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTATTTATTTGT
Found at i:11912576 original size:155 final size:155
Alignment explanation
Indices: 11912294--11912607 Score: 592
Period size: 155 Copynumber: 2.0 Consensus size: 155
11912284 TTGCCTATAA
11912294 ATACCTCAAACCATGTTTTCATTTAGTCACTTTTCCATCCATTCTTCAAATATGCCCTTCATTTT
1 ATACCTCAAACCATGTTTTCATTTAGTCACTTTTCCATCCATTCTTCAAATATGCCCTTCATTTT
* *
11912359 TGTTCTCGATCCAAGTAATTTCATTTATTGTCCATTCGAGTTACTTCGTTGATCTTACTTAACTT
66 TGTTCTCAATCCAAGTAATTTCATTTATTGTCCATTCGAGCTACTTCGTTGATCTTACTTAACTT
11912424 CTTTCTTCAACCTTTTTGATATGTT
131 CTTTCTTCAACCTTTTTGATATGTT
*
11912449 ATACCTCAAACCATGTTTTCATTTAGTCACTTTTCCATCCATTCTTCAAATATTCCCTTCATTTT
1 ATACCTCAAACCATGTTTTCATTTAGTCACTTTTCCATCCATTCTTCAAATATGCCCTTCATTTT
*
11912514 TGTTCTTAATCCAAGTAATTTCATTTATTGTCCATTCGAGCTACTTCGTTGATCTTACTTAACTT
66 TGTTCTCAATCCAAGTAATTTCATTTATTGTCCATTCGAGCTACTTCGTTGATCTTACTTAACTT
11912579 CTTTCTTCAACCTTTTTGATATGTT
131 CTTTCTTCAACCTTTTTGATATGTT
11912604 ATAC
1 ATAC
11912608 TTGTCCATTT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (155 bp):
ATACCTCAAACCATGTTTTCATTTAGTCACTTTTCCATCCATTCTTCAAATATGCCCTTCATTTT
TGTTCTCAATCCAAGTAATTTCATTTATTGTCCATTCGAGCTACTTCGTTGATCTTACTTAACTT
CTTTCTTCAACCTTTTTGATATGTT
Found at i:11917120 original size:52 final size:52
Alignment explanation
Indices: 11917034--11917149 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 52
11917024 TATAACCATA
* * **
11917034 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCTTACAAGT
* * * *
11917086 CAAACTTGCCTATTAAGAATCTATTTTCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCTTACAAGT
*
11917138 CAAACTTACCTA
1 CAAACTTGCCTA
11917150 ATCATCTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCATCTCCTCTTAGAATTCTTCTCTTACAAGT
Found at i:11917225 original size:11 final size:11
Alignment explanation
Indices: 11917209--11917250 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
11917199 GCAATATCTG
11917209 ACAAATCTCAA
1 ACAAATCTCAA
*
11917220 ACAAATCTCTA
1 ACAAATCTCAA
11917231 ACAAATCTCAA
1 ACAAATCTCAA
11917242 ACAAATCTC
1 ACAAATCTC
11917251 TTAAGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:11917234 original size:22 final size:22
Alignment explanation
Indices: 11917209--11917251 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11917199 GCAATATCTG
11917209 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
11917231 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
11917252 TAAGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:11917542 original size:49 final size:50
Alignment explanation
Indices: 11917488--11917592 Score: 115
Period size: 49 Copynumber: 2.1 Consensus size: 50
11917478 TCTCAAACCA
*
11917488 AGCTCTTCCCATATCTCGAA-CTGTCAACTCTTC-CACGTCTCGAACCTTC
1 AGCTCTTCCCACATCTCGAATCT-TCAACTCTTCTCACGTCTCGAACCTTC
* ** * * * *
11917537 GGCTCTTTTCACATCTTGAATCTTCAACTCTTCTTACGTTTTGAACCTTC
1 AGCTCTTCCCACATCTCGAATCTTCAACTCTTCTCACGTCTCGAACCTTC
11917587 AGCTCT
1 AGCTCT
11917593 GATACCACTT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
49 25 0.56
50 20 0.44
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.37
Consensus pattern (50 bp):
AGCTCTTCCCACATCTCGAATCTTCAACTCTTCTCACGTCTCGAACCTTC
Found at i:11917624 original size:31 final size:31
Alignment explanation
Indices: 11917586--11917670 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
11917576 TTTGAACCTT
* * *
11917586 CAGCTCTGATACCACTTGTTGGGGATCACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
11917617 CAGCTCTGATACCATTTGTTGGGAAACACCA
1 CAGCTCTGATACCATTTGTTGGGAAACACCA
11917648 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
11917671 CTAAAAGCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGAAACACCA
Found at i:11918242 original size:52 final size:51
Alignment explanation
Indices: 11918156--11918312 Score: 215
Period size: 52 Copynumber: 3.0 Consensus size: 51
11918146 TATAACCATA
* * *
11918156 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCTTGTAAGT
1 CAAACTTGCCTATTAAGAAT-CCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
* *
11918208 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCC-TTTCCTCTTAGAATTCTTCTCTTGCAAGT
* * *
11918260 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCT-TTCCTCTTAGAATTCTTCTCTTGCAAGT
11918312 C
1 C
11918313 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 3 0.03
52 90 0.97
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:11918353 original size:11 final size:11
Alignment explanation
Indices: 11918337--11918378 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
11918327 GCAATATCTG
11918337 ACAAATCTCAA
1 ACAAATCTCAA
*
11918348 ACAAATCTCTA
1 ACAAATCTCAA
11918359 ACAAATCTCAA
1 ACAAATCTCAA
11918370 ACAAATCTC
1 ACAAATCTC
11918379 TTAAGGGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:11918362 original size:22 final size:22
Alignment explanation
Indices: 11918337--11918379 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
11918327 GCAATATCTG
11918337 ACAAATCTCAAACAAATCTCTA
1 ACAAATCTCAAACAAATCTCTA
11918359 ACAAATCTCAAACAAATCTCT
1 ACAAATCTCAAACAAATCTCT
11918380 TAAGGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCTCAAACAAATCTCTA
Found at i:11918568 original size:56 final size:57
Alignment explanation
Indices: 11918500--11918614 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 57
11918490 ATTTAAATAG
* * *
11918500 TTACTTTGAT-ACATCATTTTGGGGGAAAATAAAGAATCGGAGCCTT-TGACCTATAT
1 TTACTTTAATAACATCATTTTAGGGGAAAATAAAAAATCGGA-CCTTGTGACCTATAT
* *
11918556 TTACTTTAATACAACATCATTTTAGGGGAAAATAAAAAATTGGATCTTGTGACCTATAT
1 TTACTTTAAT--AACATCATTTTAGGGGAAAATAAAAAATCGGACCTTGTGACCTATAT
11918615 AGTTGACCTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
56 9 0.18
58 3 0.06
59 38 0.76
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (57 bp):
TTACTTTAATAACATCATTTTAGGGGAAAATAAAAAATCGGACCTTGTGACCTATAT
Found at i:11924914 original size:6 final size:6
Alignment explanation
Indices: 11924892--11924928 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
11924882 AAAAATAGAT
11924892 TTTTTA TTTAATTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA TTTTT
11924929 TTTATAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 23 0.79
8 6 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:11924933 original size:21 final size:20
Alignment explanation
Indices: 11924892--11924928 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11924882 AAAAATAGAT
11924892 TTTTTATTTAATTATTTTTA
1 TTTTTATTTAATTATTTTTA
11924912 TTTTTATTT--TTATTTTT
1 TTTTTATTTAATTATTTTT
11924929 TTTATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
20 9 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTATTTAATTATTTTTA
Found at i:11924948 original size:14 final size:14
Alignment explanation
Indices: 11924931--11924957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11924921 TTATTTTTTT
11924931 TATAAAATAAATTC
1 TATAAAATAAATTC
11924945 TATAAAATAAATT
1 TATAAAATAAATT
11924958 TGAAAAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
TATAAAATAAATTC
Found at i:11925028 original size:19 final size:18
Alignment explanation
Indices: 11924987--11925031 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11924977 AATATTTAAT
* *
11924987 ATTTTTAATAGAAAATAT
1 ATTTTTTATAGAAAATAC
*
11925005 TTTTTTTATAGAAAATAAC
1 ATTTTTTATAGAAAAT-AC
11925024 ATTTTTTA
1 ATTTTTTA
11925032 CTATAATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (18 bp):
ATTTTTTATAGAAAATAC
Found at i:11935450 original size:21 final size:21
Alignment explanation
Indices: 11935424--11935471 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
11935414 ATCCGACCCG
11935424 ATATTA-CTTTTTAAATATAAA
1 ATATTATCTTTTTAAATAT-AA
*
11935445 ATATTATTTTTTTTAAATATAA
1 ATATTA-TCTTTTTAAATATAA
11935467 ATATT
1 ATATT
11935472 TAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTATCTTTTTAAATATAA
Found at i:11935475 original size:14 final size:16
Alignment explanation
Indices: 11935456--11935497 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
11935446 TATTATTTTT
11935456 TTTAAATATA-AA-TA
1 TTTAAATATATAATTA
11935470 TTTAAATATATAATTA
1 TTTAAATATATAATTA
*
11935486 TATAAATATATA
1 TTTAAATATATA
11935498 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 13 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATATATAATTA
Found at i:11935477 original size:8 final size:8
Alignment explanation
Indices: 11935461--11935497 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
11935451 TTTTTTTTAA
11935461 ATATAAAT
1 ATATAAAT
*
11935469 ATTTAAAT
1 ATATAAAT
*
11935477 ATATAATT
1 ATATAAAT
11935485 ATATAAAT
1 ATATAAAT
11935493 ATATA
1 ATATA
11935498 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:11935504 original size:14 final size:14
Alignment explanation
Indices: 11935458--11935505 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
11935448 TTATTTTTTT
* *
11935458 TAAATATAAATATT
1 TAAATATATATATA
11935472 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
11935488 TAAATATATATAAA
1 TAAATATATATATA
11935502 TAAA
1 TAAA
11935506 AAATTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:11935510 original size:26 final size:24
Alignment explanation
Indices: 11935461--11935511 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
11935451 TTTTTTTTAA
* *
11935461 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
11935485 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
11935511 A
1 A
11935512 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:11938316 original size:21 final size:21
Alignment explanation
Indices: 11938292--11938332 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11938282 TATTAAATAA
*
11938292 TAAAATTAATTTTTTATTTTT
1 TAAAAATAATTTTTTATTTTT
*
11938313 TAAAAATATTTTTTTATTTT
1 TAAAAATAATTTTTTATTTT
11938333 AATATTATTA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TAAAAATAATTTTTTATTTTT
Found at i:11944800 original size:16 final size:15
Alignment explanation
Indices: 11944779--11944812 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11944769 ATCAAAAAAA
*
11944779 AAATTTTTAAATCTTT
1 AAATTTGTAAAT-TTT
11944795 AAATTTGTAAATTTT
1 AAATTTGTAAATTTT
11944810 AAA
1 AAA
11944813 ACTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (15 bp):
AAATTTGTAAATTTT
Found at i:11946960 original size:72 final size:73
Alignment explanation
Indices: 11946836--11946972 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 73
11946826 ATTGGATTTT
* * * * *
11946836 TTTTTAATTCTTTTGTATGTTTGTCATATACGAGAAGTTATACAGATGAGAGGTTACATGTATAT
1 TTTTAAATTCTTTTGTATATTTGTCACATACGAGAAGTTACACAGATAAGAGGTTACATGTATAT
11946901 ATGAATTC
66 ATGAATTC
* *
11946909 TTTTAAATT-TTTTGTATATTTGTCACATACGAGAAGTTACATAGATAAGAGGTTACGTGTATAT
1 TTTTAAATTCTTTTGTATATTTGTCACATACGAGAAGTTACACAGATAAGAGGTTACATGTATAT
11946973 GTTATATGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
72 49 0.86
73 8 0.14
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (73 bp):
TTTTAAATTCTTTTGTATATTTGTCACATACGAGAAGTTACACAGATAAGAGGTTACATGTATAT
ATGAATTC
Found at i:11950186 original size:31 final size:27
Alignment explanation
Indices: 11950132--11950195 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 27
11950122 TTAATTTTTT
11950132 AATTAGTATTATACTTATTTTTAAACA
1 AATTAGTATTATACTTATTTTTAAACA
*
11950159 CAATTAGTATTATACTTTCAATTTTTAAAGA
1 -AATTAGTATTATAC-TT--ATTTTTAAACA
11950190 AATTAG
1 AATTAG
11950196 ATCAAGATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 14 0.44
29 2 0.06
30 6 0.19
31 10 0.31
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (27 bp):
AATTAGTATTATACTTATTTTTAAACA
Found at i:11950515 original size:20 final size:20
Alignment explanation
Indices: 11950492--11950538 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11950482 TTTAATAAAA
* *
11950492 TATTTTATGTTTTATTCAA-T
1 TATTTTAT-TTTGATTAAATT
*
11950512 TATTATATTTTGATTAAATT
1 TATTTTATTTTGATTAAATT
11950532 TATTTTA
1 TATTTTA
11950539 GAATTAGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (20 bp):
TATTTTATTTTGATTAAATT
Found at i:11951631 original size:16 final size:17
Alignment explanation
Indices: 11951610--11951651 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
11951600 TCCTTACCTT
*
11951610 ATATATTATAA-GGTTA
1 ATATATTATAATGGTCA
*
11951626 ATATA-TAAAATGGTCA
1 ATATATTATAATGGTCA
11951642 ATATATTATA
1 ATATATTATA
11951652 TATCTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.19
16 14 0.67
17 3 0.14
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (17 bp):
ATATATTATAATGGTCA
Found at i:11956605 original size:13 final size:13
Alignment explanation
Indices: 11956587--11956618 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11956577 AATTATATAG
*
11956587 AAAATTAGAGACA
1 AAAATTAGAGAAA
11956600 AAAATTAGAGAAA
1 AAAATTAGAGAAA
11956613 AAAATT
1 AAAATT
11956619 GTTCAAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (13 bp):
AAAATTAGAGAAA
Found at i:11959373 original size:22 final size:20
Alignment explanation
Indices: 11959323--11959366 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11959313 ATTTTTATTT
* *
11959323 TATAAAAATT-TTAAATATA
1 TATAAAAATTAATAAAAATA
11959342 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
11959362 TATAA
1 TATAA
11959367 TTAAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:11959614 original size:14 final size:15
Alignment explanation
Indices: 11959590--11959623 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11959580 TCAATTTCGC
11959590 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
*
11959605 AAAAAA-AAAAGAAT
1 AAAAAATAAAAAAAT
11959619 AAAAA
1 AAAAA
11959624 TGATATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:11966715 original size:5 final size:5
Alignment explanation
Indices: 11966707--11966748 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
11966697 AATAACAAAA
*
11966707 ATAAT ATAA- AT-AT AAAAT ATTAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATA
11966749 CATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 3 0.09
5 24 0.75
6 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:11967178 original size:19 final size:17
Alignment explanation
Indices: 11967147--11967224 Score: 57
Period size: 19 Copynumber: 4.2 Consensus size: 17
11967137 TTATAATTTT
11967147 ATATTAATATTTATTATA
1 ATATTAATATTTA-TATA
*
11967165 ATATGTAATTTTTATATA
1 ATAT-TAATATTTATATA
* **
11967183 AAATATAATTAAATATATAA
1 ATAT-TAA-TATTTATAT-A
*
11967203 ATTTTAATATTTTATATA
1 ATATTAATA-TTTATATA
11967221 ATAT
1 ATAT
11967225 AAGTATATGA
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
18 20 0.44
19 22 0.49
20 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (17 bp):
ATATTAATATTTATATA
Found at i:11968292 original size:24 final size:25
Alignment explanation
Indices: 11968247--11968293 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
11968237 GTTCATGTAT
**
11968247 TTTAATAAAATTTAATTTTTTTATA
1 TTTAATAAAATTTAATCCTTTTATA
11968272 TTTAA-AAAATTTAATCCTTTTA
1 TTTAATAAAATTTAATCCTTTTA
11968294 AAATAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAATAAAATTTAATCCTTTTATA
Found at i:11970022 original size:19 final size:18
Alignment explanation
Indices: 11969998--11970039 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11969988 TTTAACTGAA
* *
11969998 TTATATATTTTCTTAATTT
1 TTATATATATT-TTAAATT
11970017 TTATATATATTTTAAATT
1 TTATATATATTTTAAATT
11970035 TTATA
1 TTATA
11970040 AAATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATATATATTTTAAATT
Found at i:11970119 original size:23 final size:23
Alignment explanation
Indices: 11970074--11970119 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11970064 AAATCTACTT
* ** *
11970074 AAATATATTAAAATTTTATATTA
1 AAATATATAAAAATTAAAAATTA
11970097 AAATATATAAAAATTAAAAATTA
1 AAATATATAAAAATTAAAAATTA
11970120 GTAAACTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATATATAAAAATTAAAAATTA
Found at i:11971266 original size:19 final size:19
Alignment explanation
Indices: 11971242--11971278 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11971232 ATTTTTTTTA
11971242 TTTAATATTTT-TAAAATTT
1 TTTAAT-TTTTATAAAATTT
11971261 TTTAATTTTTATAAAATT
1 TTTAATTTTTATAAAATT
11971279 AATATTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTTTATAAAATTT
Found at i:11972516 original size:15 final size:13
Alignment explanation
Indices: 11972485--11972509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11972475 GTTCTCTCTA
11972485 TTAAATATATAAT
1 TTAAATATATAAT
11972498 TTAAATATATAA
1 TTAAATATATAA
11972510 ATTTTAACAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAATATATAAT
Found at i:11972834 original size:24 final size:24
Alignment explanation
Indices: 11972789--11972835 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11972779 TTAATTTTAG
*
11972789 AAAATTATTAAATATATTAATAAT
1 AAAATTATTAAATATATAAATAAT
* * *
11972813 AAAATTATTTATTTTATAAATAA
1 AAAATTATTAAATATATAAATAA
11972836 AATTAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AAAATTATTAAATATATAAATAAT
Found at i:11975232 original size:19 final size:19
Alignment explanation
Indices: 11975208--11975246 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11975198 TTTAATTGAA
* *
11975208 TTATATATTTTTTTAATTT
1 TTATATATATTTTAAATTT
11975227 TTATATATATTTTAAATTT
1 TTATATATATTTTAAATTT
11975246 T
1 T
11975247 ATAAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATATATTTTAAATTT
Found at i:11975241 original size:18 final size:19
Alignment explanation
Indices: 11975208--11975249 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
11975198 TTTAATTGAA
* *
11975208 TTATATATTTTTTTAATTT
1 TTATATATTATTTTAAATT
11975227 TTATATA-TATTTTAAATT
1 TTATATATTATTTTAAATT
11975245 TTATA
1 TTATA
11975250 AAATAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATTATTTTAAATT
Found at i:11976492 original size:19 final size:19
Alignment explanation
Indices: 11976468--11976504 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
11976458 AATTTTTTTA
11976468 TTTAATATTTT-TAAAATTT
1 TTTAAT-TTTTATAAAATTT
11976487 TTTAATTTTTATAAAATT
1 TTTAATTTTTATAAAATT
11976505 AATATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTTTATAAAATTT
Found at i:11979972 original size:130 final size:130
Alignment explanation
Indices: 11979739--11979999 Score: 378
Period size: 130 Copynumber: 2.0 Consensus size: 130
11979729 TGAATAAGGT
* *
11979739 AATAATGATGACAATACAACACACTGTTCTAAGATCTCCTAAACGACTTGATATCCAAAACTTAG
1 AATAATGATGACAACACAACACACTGTTCTAAGATCTCCAAAACGACTTGATATCCAAAACTTAG
* * * *
11979804 CAAATCAAGAATTTATTACACCTTAGAACCAAAACAAATGGCACACACATCCAGTCGTATAATAC
66 CAAAGCAAGAATTTATTACACCTTAGAACCAAAACAAATGGCACACAAATCCAATCCTATAATAC
* * * * * *
11979869 AATAATGATGACAACACAACACGCTGTTCTAAGATTTCCAAAAGGTCTTGATGTCCAAAACTTTG
1 AATAATGATGACAACACAACACACTGTTCTAAGATCTCCAAAACGACTTGATATCCAAAACTTAG
* * * *
11979934 CAAGGCAAGACTTTATTACGCCTTAGAACCAAAACAAATGGCACACAAATCGAATCCTATAATAC
66 CAAAGCAAGAATTTATTACACCTTAGAACCAAAACAAATGGCACACAAATCCAATCCTATAATAC
11979999 A
1 A
11980000 CGAATTAACT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
130 115 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (130 bp):
AATAATGATGACAACACAACACACTGTTCTAAGATCTCCAAAACGACTTGATATCCAAAACTTAG
CAAAGCAAGAATTTATTACACCTTAGAACCAAAACAAATGGCACACAAATCCAATCCTATAATAC
Found at i:11982246 original size:22 final size:22
Alignment explanation
Indices: 11982186--11982249 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
11982176 AAATCTAGAA
11982186 TTTAAATTTAAATTTAATTAATT
1 TTTAAATTTAAATTTAA-TAATT
* * **
11982209 TTTACAGTTATTTTTAATAA-T
1 TTTAAATTTAAATTTAATAATT
11982230 TTTAAATTTTAAATTTAATA
1 TTTAAA-TTTAAATTTAATA
11982250 CTCGTAATTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 6 0.19
22 13 0.41
23 13 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTAAATTTAAATTTAATAATT
Found at i:11983847 original size:2 final size:2
Alignment explanation
Indices: 11983840--11983905 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
11983830 AAAAACGTGC
11983840 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11983882 CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
11983906 ATATATATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11984338 original size:22 final size:23
Alignment explanation
Indices: 11984313--11984360 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11984303 TTTCAAAACT
11984313 TTATTTTAAATA-AAAATAATTA
1 TTATTTTAAATATAAAATAATTA
*
11984335 TTA-TTTCAATATAAAATAATTA
1 TTATTTTAAATATAAAATAATTA
11984357 TTAT
1 TTAT
11984361 CTTTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTATTTTAAATATAAAATAATTA
Found at i:11984553 original size:17 final size:18
Alignment explanation
Indices: 11984523--11984564 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
11984513 AAATATATAA
* *
11984523 TAATTTAAATTTTATATT
1 TAATATAAATTTTAAATT
*
11984541 TGATATAAA-TTTAAATT
1 TAATATAAATTTTAAATT
11984558 TAATATA
1 TAATATA
11984565 CTTAATGATC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAATATAAATTTTAAATT
Found at i:11992154 original size:18 final size:17
Alignment explanation
Indices: 11992123--11992187 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 17
11992113 GTATTAGAAG
11992123 AAAAATTCAAAAATTTAA
1 AAAAATT-AAAAATTTAA
11992141 AAGAAATTAAAAATTTAGA
1 AA-AAATTAAAAATTTA-A
11992160 AAAAATCTAAAAGATATT-A
1 AAAAAT-TAAAA-AT-TTAA
11992179 AAAAATTAA
1 AAAAATTAA
11992188 GAAAGAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
18 18 0.43
19 20 0.48
20 2 0.05
21 2 0.05
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (17 bp):
AAAAATTAAAAATTTAA
Found at i:11992170 original size:29 final size:30
Alignment explanation
Indices: 11992131--11992201 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
11992121 AGAAAAATTC
*
11992131 AAAAATTTAAAAGAAATT-AAAAATTTAGA
1 AAAAATTTAAAAGAAATTAAAAAATTAAGA
* *
11992160 AAAAATCTAAAAGATATTAAAAAATTAAGA
1 AAAAATTTAAAAGAAATTAAAAAATTAAGA
*
11992190 AAGAATTTAAAA
1 AAAAATTTAAAA
11992202 AACTTTTAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 16 0.44
30 20 0.56
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.25
Consensus pattern (30 bp):
AAAAATTTAAAAGAAATTAAAAAATTAAGA
Found at i:11992313 original size:36 final size:35
Alignment explanation
Indices: 11992241--11992325 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 35
11992231 TAGTTTTATG
11992241 AAAAATTACAAAAATTAAAAAAATTCTAACAAGTT
1 AAAAATTACAAAAATTAAAAAAATTCTAACAAGTT
*
11992276 AAAAA-TACTAAAAACTTACAAAAATT-TGAA-AATGTT
1 AAAAATTAC-AAAAA-TTAAAAAAATTCT-AACAA-GTT
11992312 AAAAAATT-CAAAAA
1 -AAAAATTACAAAAA
11992326 ATTATTTAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
34 3 0.07
35 13 0.30
36 20 0.47
37 6 0.14
38 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.25
Consensus pattern (35 bp):
AAAAATTACAAAAATTAAAAAAATTCTAACAAGTT
Found at i:11992325 original size:18 final size:17
Alignment explanation
Indices: 11992241--11992325 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 17
11992231 TAGTTTTATG
11992241 AAAAATTACAAAAA-TTAA
1 AAAAATT-CAAAAAGTT-A
*
11992259 AAAAATTCTAACAAGTT-
1 AAAAATTC-AAAAAGTTA
* *
11992276 AAAAATACTAAAAACTTA
1 AAAAATTC-AAAAAGTTA
* *
11992294 CAAAAATTTGAAAATGTTA
1 -AAAAA-TTCAAAAAGTTA
11992313 AAAAATTCAAAAA
1 AAAAATTCAAAAA
11992326 ATTATTTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
17 21 0.40
18 16 0.31
19 14 0.27
20 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAATTCAAAAAGTTA
Found at i:11992411 original size:18 final size:19
Alignment explanation
Indices: 11992390--11992429 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
11992380 ATAAAAAATA
11992390 AAATTTCTTTGAAAAT-CT
1 AAATTTCTTTGAAAATACT
* *
11992408 AAATTTTTTTTAAAATACT
1 AAATTTCTTTGAAAATACT
11992427 AAA
1 AAA
11992430 AATTGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (19 bp):
AAATTTCTTTGAAAATACT
Found at i:11992441 original size:17 final size:18
Alignment explanation
Indices: 11992419--11992457 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
11992409 AATTTTTTTT
11992419 AAAATACTAAAAATTG-A
1 AAAATACTAAAAATTGCA
*
11992436 AAAATAGTAAAAATTGCA
1 AAAATACTAAAAATTGCA
11992454 AAAA
1 AAAA
11992458 ATTACTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAATACTAAAAATTGCA
Found at i:11992700 original size:18 final size:20
Alignment explanation
Indices: 11992664--11992727 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
11992654 CAACATATTT
11992664 TGAAAATTTGAAGAAAATATC
1 TGAAAATTTGAA-AAAATATC
11992685 TGAAAA-TTG-AAAAATATAC
1 TGAAAATTTGAAAAAATAT-C
11992704 --AAAATTTTGAAAAAATATC
1 TGAAAA-TTTGAAAAAATATC
11992723 TGAAA
1 TGAAA
11992728 GAAAATCCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.11
18 7 0.19
19 6 0.16
20 11 0.30
21 9 0.24
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (20 bp):
TGAAAATTTGAAAAAATATC
Found at i:11993481 original size:19 final size:19
Alignment explanation
Indices: 11993432--11993481 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
11993422 ATTTGAATTG
*
11993432 TTAAATTTTTTTTAGATTTT
1 TTAAA-TTTTTTAAGATTTT
*
11993452 TTAAATGTTTTAAGATTTT
1 TTAAATTTTTTAAGATTTT
*
11993471 TTGAATTTTTT
1 TTAAATTTTTT
11993482 CTAAACATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (19 bp):
TTAAATTTTTTAAGATTTT
Found at i:12000786 original size:101 final size:101
Alignment explanation
Indices: 12000664--12000848 Score: 298
Period size: 101 Copynumber: 1.8 Consensus size: 101
12000654 TTGCCAGTGT
* * ** *
12000664 ATAATAAAATTATTTTTTCAAAAATCTGTCAAAATTTGCTTAGTAACCTGAATGTGAAATTCTTG
1 ATAATAAAATAATATTTTCAAAAATCTGTCAAAATTTGCTTAGTAACCCAAATGGGAAATTCTTG
*
12000729 AGTGAATGATTATTCAATTACATGCTGTGTGACTCC
66 AATGAATGATTATTCAATTACATGCTGTGTGACTCC
* *
12000765 ATAATAAAATAATATTTTCAAAAATTTGTCAAAATTTGCTTAGTAACCCAAATGGGAAATTTTTG
1 ATAATAAAATAATATTTTCAAAAATCTGTCAAAATTTGCTTAGTAACCCAAATGGGAAATTCTTG
12000830 AATGAATGATTATTCAATT
66 AATGAATGATTATTCAATT
12000849 GCATTATGTG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (101 bp):
ATAATAAAATAATATTTTCAAAAATCTGTCAAAATTTGCTTAGTAACCCAAATGGGAAATTCTTG
AATGAATGATTATTCAATTACATGCTGTGTGACTCC
Found at i:12001195 original size:104 final size:106
Alignment explanation
Indices: 12001019--12001219 Score: 302
Period size: 104 Copynumber: 1.9 Consensus size: 106
12001009 GTGCCCCTTA
* *
12001019 TTTGAAAAATAAAGTGTGAGAACTTTTGGCTGCTCATATATTGTATCTGAGGAGTTTTCATTAGG
1 TTTGAAAAATAAAG-GT-AGAACTTGTGGCTGCTCATATATGGTATCTGAGGAGTTTTCATTAGG
12001084 AAAGATAATGCCAATCAGCTTGTCTTAATATTGGTGCCACTGG
64 AAAGATAATGCCAATCAGCTTGTCTTAATATTGGTGCCACTGG
*
12001127 TTTGAAAAATAAA-GT-GAACTTGTGGCTGCTCATATAGTGGT-TCTGAGG-TTTTGTCATTAGG
1 TTTGAAAAATAAAGGTAGAACTTGTGGCTGCTCATATA-TGGTATCTGAGGAGTTT-TCATTAGG
*
12001188 AAGGATAATGCCAATCAGCTTGTCTTAATATT
64 AAAGATAATGCCAATCAGCTTGTCTTAATATT
12001220 TCTCTAATCA
Statistics
Matches: 87, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
103 3 0.03
104 66 0.76
105 3 0.03
106 2 0.02
108 13 0.15
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.36
Consensus pattern (106 bp):
TTTGAAAAATAAAGGTAGAACTTGTGGCTGCTCATATATGGTATCTGAGGAGTTTTCATTAGGAA
AGATAATGCCAATCAGCTTGTCTTAATATTGGTGCCACTGG
Found at i:12001917 original size:7 final size:7
Alignment explanation
Indices: 12001904--12001935 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
12001894 GCTGCTCTGC
12001904 CTTTTTT
1 CTTTTTT
12001911 -TTTTTT
1 CTTTTTT
12001917 -TTTTTT
1 CTTTTTT
12001923 CTTTTTT
1 CTTTTTT
12001930 CTTTTT
1 CTTTTT
12001936 ACCAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
CTTTTTT
Found at i:12002783 original size:13 final size:13
Alignment explanation
Indices: 12002765--12002811 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
12002755 TTATATATAT
12002765 AAAATTAAAAATA
1 AAAATTAAAAATA
* *
12002778 AAAATTATATATA
1 AAAATTAAAAATA
*
12002791 AAAATTAAAAATG
1 AAAATTAAAAATA
12002804 AAAATTAA
1 AAAATTAA
12002812 GTTTAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (13 bp):
AAAATTAAAAATA
Found at i:12002801 original size:26 final size:27
Alignment explanation
Indices: 12002753--12002810 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 27
12002743 GATTATATTC
12002753 AATTATATATATAAAATTAAAAATAAA
1 AATTATATATATAAAATTAAAAATAAA
*
12002780 AATTATATATA-AAAATTAAAAATGAA
1 AATTATATATATAAAATTAAAAATAAA
12002806 AATTA
1 AATTA
12002811 AGTTTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
AATTATATATATAAAATTAAAAATAAA
Found at i:12002899 original size:2 final size:2
Alignment explanation
Indices: 12002894--12002922 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12002884 ACACACTCTC
12002894 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 A
12002923 AGGATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12008559 original size:21 final size:21
Alignment explanation
Indices: 12008535--12008581 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
12008525 TTATATATAA
12008535 TTATATTTTAAAAAATAATAT
1 TTATATTTTAAAAAATAATAT
*
12008556 TTATA-TTTATAAAATAATAT
1 TTATATTTTAAAAAATAATAT
12008576 TT-TATT
1 TTATATT
12008582 AATTATAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 17 0.71
21 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATATTTTAAAAAATAATAT
Found at i:12008587 original size:22 final size:20
Alignment explanation
Indices: 12008546--12008589 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
12008536 TATATTTTAA
*
12008546 AAAATAATATTTATATTTAT
1 AAAATAATATTTATAATTAT
12008566 AAAATAATATTTTATTAATTAT
1 AAAATAATA-TTTA-TAATTAT
12008588 AA
1 AA
12008590 GTCGAGTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATAATATTTATAATTAT
Found at i:12009178 original size:21 final size:19
Alignment explanation
Indices: 12009137--12009174 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12009127 TACTATATTA
*
12009137 AATAATATATTTATAATTT
1 AATAATATATTAATAATTT
*
12009156 AATATTATATTAATAATTT
1 AATAATATATTAATAATTT
12009175 TTAAAGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAATATATTAATAATTT
Found at i:12011852 original size:8 final size:8
Alignment explanation
Indices: 12011839--12011900 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
12011829 CATTTATCAT
12011839 TTTTTTCA
1 TTTTTTCA
12011847 TTTTTTCA
1 TTTTTTCA
12011855 TTTTTTTTCA
1 --TTTTTTCA
*
12011865 TATTTTC-
1 TTTTTTCA
*
12011872 -TCTTTCA
1 TTTTTTCA
12011879 TTTTTTCA
1 TTTTTTCA
*
12011887 TTTTGT-A
1 TTTTTTCA
12011894 TTTTTTC
1 TTTTTTC
12011901 TCATTGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
6 4 0.09
7 6 0.14
8 25 0.58
10 8 0.19
ACGTcount: A:0.11, C:0.13, G:0.02, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:12012624 original size:18 final size:18
Alignment explanation
Indices: 12012601--12012641 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12012591 AACTTGGAGT
12012601 TCGATACTT-GGCTCGAGC
1 TCGATA-TTCGGCTCGAGC
12012619 TCGATATTCGGCTCGAGC
1 TCGATATTCGGCTCGAGC
12012637 TCGAT
1 TCGAT
12012642 CGAGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (18 bp):
TCGATATTCGGCTCGAGC
Found at i:12017307 original size:20 final size:21
Alignment explanation
Indices: 12017282--12017327 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
12017272 ACTTATATAA
12017282 TTATATTTTA-AAAATAATAT
1 TTATATTTTATAAAATAATAT
12017302 TTATA-TTTATAAAATAATAT
1 TTATATTTTATAAAATAATAT
12017322 TT-TATT
1 TTATATT
12017328 AATTAAGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATATTTTATAAAATAATAT
Found at i:12020581 original size:9 final size:9
Alignment explanation
Indices: 12020567--12020601 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
12020557 CTATCATTTA
12020567 TCATTTTTT
1 TCATTTTTT
12020576 TCA-TTTTT
1 TCATTTTTT
12020584 TCATTTTTT
1 TCATTTTTT
12020593 TCATATTTT
1 TCAT-TTTT
12020602 CTCTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 12 0.50
10 4 0.17
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (9 bp):
TCATTTTTT
Found at i:12020584 original size:8 final size:8
Alignment explanation
Indices: 12020571--12020620 Score: 59
Period size: 8 Copynumber: 6.4 Consensus size: 8
12020561 CATTTATCAT
12020571 TTTTTTCA
1 TTTTTTCA
12020579 TTTTTTCA
1 TTTTTTCA
12020587 TTTTTTTCA
1 -TTTTTTCA
*
12020596 TATTTTC-
1 TTTTTTCA
*
12020603 -TCTTTCA
1 TTTTTTCA
12020610 TTTTTTCA
1 TTTTTTCA
12020618 TTT
1 TTT
12020621 GTATTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
6 4 0.11
8 23 0.66
9 8 0.23
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTTTCA
Found at i:12021355 original size:18 final size:18
Alignment explanation
Indices: 12021332--12021372 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12021322 AACTTGGAGT
12021332 TCGATACTT-GGCTCGAGC
1 TCGATA-TTCGGCTCGAGC
12021350 TCGATATTCGGCTCGAGC
1 TCGATATTCGGCTCGAGC
12021368 TCGAT
1 TCGAT
12021373 CGAGTTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (18 bp):
TCGATATTCGGCTCGAGC
Found at i:12026017 original size:21 final size:22
Alignment explanation
Indices: 12025982--12026028 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12025972 TTATGTATAA
12025982 TTATATTTTAAAAAATAATATT
1 TTATATTTTAAAAAATAATATT
*
12026004 TTATA-TTTATAAAATAATATT
1 TTATATTTTAAAAAATAATATT
12026025 TTAT
1 TTAT
12026029 TAATTACAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTATATTTTAAAAAATAATATT
Found at i:12026625 original size:21 final size:19
Alignment explanation
Indices: 12026584--12026621 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12026574 TACTATATTA
*
12026584 AATAATATATTTATAATTT
1 AATAATATATTAATAATTT
*
12026603 AATATTATATTAATAATTT
1 AATAATATATTAATAATTT
12026622 TTAAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATAATATATTAATAATTT
Found at i:12026643 original size:48 final size:49
Alignment explanation
Indices: 12026589--12026688 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 49
12026579 TATTAAATAA
*
12026589 TATATTT-ATAATTTAATATTAT-ATTAATAATTTTTAAA-ATTCA-GATAT
1 TATATTTAAT-ATTTAATATT-TCATT-ATAATTTATAAACATTCATGATAT
12026637 TATATTTAATATTTAATATTTCATTATAATTTATAAACCATTCATGATAT
1 TATATTTAATATTTAATATTTCATTATAATTTATAAA-CATTCATGATAT
12026687 TA
1 TA
12026689 ACCCAACAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
47 12 0.26
48 20 0.43
49 7 0.15
50 7 0.15
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (49 bp):
TATATTTAATATTTAATATTTCATTATAATTTATAAACATTCATGATAT
Found at i:12032978 original size:10 final size:10
Alignment explanation
Indices: 12032963--12032988 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
12032953 GCCATATAAG
12032963 AAAATTTAAT
1 AAAATTTAAT
12032973 AAAATTTAAT
1 AAAATTTAAT
12032983 AAAATT
1 AAAATT
12032989 CAGAGACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTTAAT
Found at i:12039072 original size:2 final size:2
Alignment explanation
Indices: 12039065--12039108 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
12039055 AAGAAATTAA
*
12039065 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA 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
12039107 AG
1 AG
12039109 CAACTCAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12039825 original size:26 final size:28
Alignment explanation
Indices: 12039790--12039841 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
12039780 ATCTATCAAT
*
12039790 AAATATTTTTTGTTAATTT-AATAAATA
1 AAATATTTTTTGCTAATTTAAATAAATA
12039817 AAATA-TTTTTGCTAATTTAAATAAA
1 AAATATTTTTTGCTAATTTAAATAAA
12039842 CTATTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
AAATATTTTTTGCTAATTTAAATAAATA
Found at i:12041918 original size:13 final size:13
Alignment explanation
Indices: 12041900--12041924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12041890 ACTGAGCCAG
12041900 TAAGTCCAGTATA
1 TAAGTCCAGTATA
12041913 TAAGTCCAGTAT
1 TAAGTCCAGTAT
12041925 CCATATTAAA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TAAGTCCAGTATA
Found at i:12043287 original size:102 final size:102
Alignment explanation
Indices: 12043156--12043415 Score: 484
Period size: 102 Copynumber: 2.5 Consensus size: 102
12043146 CATTGCTGGT
12043156 AATATCTCAGCTTACTGAAAGTATATAGGTAAAATATAAATAATATAAAGCATTATACCAATGCC
1 AATATCTCAGCTTACTGAAAGTATATAGGTAAAATATAAATAATATAAAGCATTATACCAATGCC
12043221 ACTGCAGATTGAAATTGGGCAAAATGGGTAATAATTA
66 ACTGCAGATTGAAATTGGGCAAAATGGGTAATAATTA
* *
12043258 AATATCTCAGCTTACTGAAAGTATGTAGGTTAAATATAAATAATATAAAGCATTATACCAATGCC
1 AATATCTCAGCTTACTGAAAGTATATAGGTAAAATATAAATAATATAAAGCATTATACCAATGCC
12043323 ACTGCAGATTGAAATTGGGCAAAATGGGTAATAATTA
66 ACTGCAGATTGAAATTGGGCAAAATGGGTAATAATTA
* *
12043360 AATATCTCAGCTTACTGAAAGTATATAGGTAAAACACAAATAATATAAAGCATTAT
1 AATATCTCAGCTTACTGAAAGTATATAGGTAAAATATAAATAATATAAAGCATTAT
12043416 TCAATTATTC
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 152 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (102 bp):
AATATCTCAGCTTACTGAAAGTATATAGGTAAAATATAAATAATATAAAGCATTATACCAATGCC
ACTGCAGATTGAAATTGGGCAAAATGGGTAATAATTA
Found at i:12047140 original size:154 final size:155
Alignment explanation
Indices: 12046887--12047175 Score: 390
Period size: 154 Copynumber: 1.9 Consensus size: 155
12046877 AACATAAGTG
* * * *
12046887 GTGATTTTTTAGAGAATTCATAGATAAAGAACTTTTCTTCATTTTTACTAAGAGAGTTGGAAAGA
1 GTGATTTTTTAGAGAATTCATAGATAAAGAAATTTTCTTCAATCTTACCAAGAGAGTTGGAAAGA
* * * * *
12046952 TTTTGTATACATTTTCTAATAAAAATATTCTTATTTATTTCTTTAAAAATGACTTTAATAAATTT
66 TTTTGGAGAAATTTTCTAATAAAAACATTCTTATTTATTTCTCTAAAAATGACTTTAATAAATTT
12047017 ATATATTAAAATGAAAACACAAATA
131 ATATATTAAAATGAAAACACAAATA
* * * *
12047042 GTGATTTTCTTA-A-AATTCTTAGATAAGGAAATTTTTTTCAATCTTACCAATAGAGTTAGG-AA
1 GTGATTTT-TTAGAGAATTCATAGATAAAGAAATTTTCTTCAATCTTACCAAGAGAGTT-GGAAA
12047104 GATTTTGGAGAAATTTT-TCAATAAAAACATAT-TTATTTATTTCTCTAAAAATGACTTTAATAA
64 GATTTTGGAGAAATTTTCT-AATAAAAACAT-TCTTATTTATTTCTCTAAAAATGACTTTAATAA
12047167 ATTTATATA
127 ATTTATATA
12047176 GTGAGTAAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
153 1 0.01
154 101 0.86
155 12 0.10
156 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (155 bp):
GTGATTTTTTAGAGAATTCATAGATAAAGAAATTTTCTTCAATCTTACCAAGAGAGTTGGAAAGA
TTTTGGAGAAATTTTCTAATAAAAACATTCTTATTTATTTCTCTAAAAATGACTTTAATAAATTT
ATATATTAAAATGAAAACACAAATA
Found at i:12053193 original size:102 final size:98
Alignment explanation
Indices: 12053062--12053280 Score: 248
Period size: 102 Copynumber: 2.2 Consensus size: 98
12053052 AAATTTTATT
* * *
12053062 TTAATCTTACCAAATTATTGGAGGATTTAAATCTTA-AAATTAAATTTTA-TCAAACTATTGAAA
1 TTAATCTTACCAAACTATTGGAGGATTTAAATC-TACAAATTAAATCTTACT-AAACTAGTG-AA
* *
12053125 G-ATTTAGTGATCTTTTATAAAGAAAATAAAATTTTTGAGA
63 GTATTTAATGATC-TTT-T-AA-AAAATAAAAATTTTGA-A
* * * * *
12053165 TTAATCCTATCAAACTATT-GAGGTTTTAAATCTACAAATTAAATCTTACTAAACTAGTGGAGTG
1 TTAATCTTACCAAACTATTGGAGGATTTAAATCTACAAATTAAATCTTACTAAACTAGTGAAGTA
12053229 TTTAATGATCTTTTAAAAAATAAAAATTTTGAA
66 TTTAATGATCTTTTAAAAAATAAAAATTTTGAA
12053262 TTAATCTTACCAAACTATT
1 TTAATCTTACCAAACTATT
12053281 AAAAGATATA
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
97 18 0.18
98 15 0.15
99 2 0.02
100 1 0.01
101 7 0.07
102 41 0.41
103 17 0.17
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (98 bp):
TTAATCTTACCAAACTATTGGAGGATTTAAATCTACAAATTAAATCTTACTAAACTAGTGAAGTA
TTTAATGATCTTTTAAAAAATAAAAATTTTGAA
Found at i:12056958 original size:20 final size:20
Alignment explanation
Indices: 12056935--12057017 Score: 125
Period size: 20 Copynumber: 4.2 Consensus size: 20
12056925 TAATTTTATA
*
12056935 TTTATATTAAAAAATAATAT
1 TTTATATTTAAAAATAATAT
*
12056955 TTTATATTTAAAAATAATAC
1 TTTATATTTAAAAATAATAT
12056975 TTTATA-TTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
*
12056994 TTTATATTTTAAAA-AATAT
1 TTTATATTTAAAAATAATAT
12057013 TTTAT
1 TTTAT
12057018 TAATTTTGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
19 28 0.48
20 30 0.52
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:12056995 original size:39 final size:37
Alignment explanation
Indices: 12056932--12057020 Score: 135
Period size: 39 Copynumber: 2.4 Consensus size: 37
12056922 ATATAATTTT
12056932 ATATTTATATTAAAAAATAATATTTTATATTTAAAAATA
1 ATATTTATATT-AAAAATAATATTTTATATTTAAAAA-A
*
12056971 ATACTTTATATTAAAAATAATATTTTATATTTTAAAAA
1 ATA-TTTATATTAAAAATAATATTTTATATTTAAAAAA
12057009 ATATTT-TATTAA
1 ATATTTATATTAA
12057021 TTTTGAGTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
36 6 0.12
37 3 0.06
38 4 0.08
39 27 0.56
40 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (37 bp):
ATATTTATATTAAAAATAATATTTTATATTTAAAAAA
Found at i:12057352 original size:19 final size:19
Alignment explanation
Indices: 12057308--12057370 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 19
12057298 ATAATTTTTT
12057308 ATTTAT-AATAAAATAAAA
1 ATTTATAAATAAAATAAAA
** * *
12057326 ATAAATAAATATAATATAA
1 ATTTATAAATAAAATAAAA
*
12057345 ATTTATAAAAAAAAAATAAAA
1 ATTTAT--AAATAAAATAAAA
12057366 ATTTA
1 ATTTA
12057371 GTTACTTTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 4 0.12
19 14 0.42
21 15 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTTATAAATAAAATAAAA
Found at i:12061454 original size:61 final size:62
Alignment explanation
Indices: 12061315--12061454 Score: 155
Period size: 60 Copynumber: 2.3 Consensus size: 62
12061305 TTAGCATCAT
* * * * *
12061315 AAGGGCATTTTCGTAGTTATGGTAGAAGTGTTAATATAGTAATTTTGATCAATTATGAGAGA
1 AAGGGTATTTTCGTAATTATGGTAGAAGTGATAATATAGTAATTTTGATCAATTATAAAAGA
* *
12061377 AA-GGTA-TTTCAATAATTATGGTA-AGAG-GATATTATAGTAATTTTGATCAA-TATTAAAAGA
1 AAGGGTATTTTC-GTAATTATGGTAGA-AGTGATAATATAGTAATTTTGATCAATTA-TAAAAGA
12061437 AAGGGTATTTTCGTAATT
1 AAGGGTATTTTCGTAATT
12061455 CAATAATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
59 2 0.03
60 33 0.51
61 24 0.37
62 6 0.09
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (62 bp):
AAGGGTATTTTCGTAATTATGGTAGAAGTGATAATATAGTAATTTTGATCAATTATAAAAGA
Found at i:12061458 original size:31 final size:31
Alignment explanation
Indices: 12061423--12061485 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
12061413 GTAATTTTGA
* *
12061423 TCAATATTAAAAGAAAGGGTATTTTCGTAAT
1 TCAATAATAAAAGAAAGGGTATTTTCATAAT
* *
12061454 TCAATAATAAATGAATGGGTATTTTCATAAT
1 TCAATAATAAAAGAAAGGGTATTTTCATAAT
12061485 T
1 T
12061486 ATGATATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (31 bp):
TCAATAATAAAAGAAAGGGTATTTTCATAAT
Found at i:12063216 original size:21 final size:22
Alignment explanation
Indices: 12063182--12063223 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12063172 AAATTTTGGT
*
12063182 TTTTTTATTATTA-TCTTTTTA
1 TTTTTTATGATTATTCTTTTTA
*
12063203 TTTTTTATGGTTATTCTTTTT
1 TTTTTTATGATTATTCTTTTT
12063224 TATTCGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTTTATGATTATTCTTTTTA
Found at i:12065383 original size:43 final size:43
Alignment explanation
Indices: 12065328--12065417 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
12065318 GATCAAATTG
*
12065328 AAATGCTCCTTTT-ACTAGAGGCTCGACAACTTTCAAAAATATA
1 AAATGCTCCTTTTAAC-AGAGGCTCAACAACTTTCAAAAATATA
* * *
12065371 AAATGGCT-CTTTTGAACAGAGGCTCAATAACTTTTAAAAATTTA
1 AAAT-GCTCCTTTT-AACAGAGGCTCAACAACTTTCAAAAATATA
12065415 AAA
1 AAA
12065418 GGTTCCTCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 9 0.22
44 29 0.73
45 2 0.05
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (43 bp):
AAATGCTCCTTTTAACAGAGGCTCAACAACTTTCAAAAATATA
Found at i:12065455 original size:43 final size:43
Alignment explanation
Indices: 12065402--12065499 Score: 124
Period size: 43 Copynumber: 2.3 Consensus size: 43
12065392 GCTCAATAAC
* * * **
12065402 TTTTAAAAATTTAAAAGGTTCCTCTAAGCAAATGCTTGACAAA
1 TTTTAAAAATTTAAAAGGCTACTCTAAACAAAAACTTGACAAA
* *
12065445 TTTTAAAAATTTAAAAGGCTACTTTAAACAAAAACTTGACAAT
1 TTTTAAAAATTTAAAAGGCTACTCTAAACAAAAACTTGACAAA
12065488 TTTTGAAAAATT
1 TTTT-AAAAATT
12065500 GAAATATTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 40 0.85
44 7 0.15
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (43 bp):
TTTTAAAAATTTAAAAGGCTACTCTAAACAAAAACTTGACAAA
Done.