Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 106 of 129
Found at i:17580436 original size:17 final size:17
Alignment explanation
Indices: 17580414--17580451 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17580404 AAGGTTTTGA
*
17580414 AAGATTTTTA-AAAAAT
1 AAGATTTTAATAAAAAT
17580430 GAAGATTTTAATAAAAAT
1 -AAGATTTTAATAAAAAT
17580448 AAGA
1 AAGA
17580452 ATTTCTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (17 bp):
AAGATTTTAATAAAAAT
Found at i:17580602 original size:20 final size:19
Alignment explanation
Indices: 17580581--17580620 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 19
17580571 ACAATTTTAA
17580581 TTTTTTTATATATTTTAAAAT
1 TTTTTTTA-AT-TTTTAAAAT
17580602 TTTTTTTAATTTTTAAAAT
1 TTTTTTTAATTTTTAAAAT
17580621 GTTTCAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 2 0.11
21 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTTTAATTTTTAAAAT
Found at i:17580714 original size:20 final size:20
Alignment explanation
Indices: 17580684--17580735 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
17580674 ATTTTAAGGA
17580684 ATTTAAGTTTTATT-GATTTTT
1 ATTTAA-TTTT-TTGGATTTTT
17580705 -TTTAATTTTTTGGATTTTT
1 ATTTAATTTTTTGGATTTTT
*
17580724 ATTAAATTTTTT
1 ATTTAATTTTTT
17580736 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 11 0.39
20 15 0.54
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (20 bp):
ATTTAATTTTTTGGATTTTT
Found at i:17580733 original size:28 final size:28
Alignment explanation
Indices: 17580699--17580856 Score: 97
Period size: 30 Copynumber: 5.5 Consensus size: 28
17580689 AGTTTTATTG
* * *
17580699 ATTTTTTTTAATTTTTTGGATTTTTATTAA
1 ATTTTTTATAA-TTTTTAGAATTTT-TTAA
17580729 ATTTTTTATAATTTTTAGAATTTTTTAA
1 ATTTTTTATAATTTTTAGAATTTTTTAA
* * ** *
17580757 A-TTATCATAATTTTTATTATTTTTAAAA
1 ATTTTTTATAATTTTTAGAATTTTT-TAA
* *
17580785 ATATTTCTTAT-ATTTTTAAAATTTTCT-A
1 AT-TTT-TTATAATTTTTAGAATTTTTTAA
* * * *
17580813 ATTTTTAAGAATTTTTGAAAAATTTTTAAA
1 ATTTTTTATAATTTTT--AGAATTTTTTAA
*
17580843 ATTTTTTAAAATTT
1 ATTTTTTATAATTT
17580857 ATCAACATAT
Statistics
Matches: 100, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
26 2 0.02
27 28 0.28
28 11 0.11
29 19 0.19
30 37 0.37
31 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTTTTTATAATTTTTAGAATTTTTTAA
Found at i:17580735 original size:30 final size:29
Alignment explanation
Indices: 17580691--17580753 Score: 54
Period size: 29 Copynumber: 2.1 Consensus size: 29
17580681 GGAATTTAAG
* * * * * *
17580691 TTTTATTGATTTTTTTTAATTTTTTGGAT
1 TTTTATTAAATTTTTTAAAATTTTAGAAT
*
17580720 TTTTATTAAATTTTTTATAATTTTTAGAAT
1 TTTTATTAAATTTTTTA-AAATTTTAGAAT
17580750 TTTT
1 TTTT
17580754 TAAATTATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (29 bp):
TTTTATTAAATTTTTTAAAATTTTAGAAT
Found at i:17580750 original size:19 final size:19
Alignment explanation
Indices: 17580727--17580890 Score: 104
Period size: 20 Copynumber: 8.5 Consensus size: 19
17580717 GATTTTTATT
17580727 AAATTTTTTATAATTTTTA
1 AAATTTTTTATAATTTTTA
* * *
17580746 GAATTTTTTA-AATTATCA
1 AAATTTTTTATAATTTTTA
* *
17580764 TAA-TTTTTATTATTTTTAA
1 AAATTTTTTATAATTTTT-A
17580783 AAATATTTCTTAT-ATTTTTA
1 AAAT-TTT-TTATAATTTTTA
*
17580803 AAA--TTTTCTAATTTTTA
1 AAATTTTTTATAATTTTTA
* *
17580820 AGAATTTTTGAAAAATTTTTA
1 A-AATTTTT-TATAATTTTTA
* *
17580841 AAATTTTTTAAAATTTATCA
1 AAATTTTTTATAATTT-TTA
* * * *
17580861 ACATATTTTAGAATTGTTTC
1 AAATTTTTTATAATT-TTTA
17580881 AAATTTTTTA
1 AAATTTTTTA
17580891 GAAAATTTGA
Statistics
Matches: 112, Mismatches: 21, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
16 3 0.03
17 16 0.14
18 14 0.12
19 19 0.17
20 37 0.33
21 19 0.17
22 4 0.04
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (19 bp):
AAATTTTTTATAATTTTTA
Found at i:17580818 original size:38 final size:38
Alignment explanation
Indices: 17580775--17580847 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
17580765 AATTTTTATT
** *
17580775 ATTTTTAAAAATATTTCTTATATTTTTAAAATTTTCTA
1 ATTTTTAAAAATATTTCAAAAATTTTTAAAATTTTCTA
* * *
17580813 ATTTTTAAGAATTTTTGAAAAATTTTTAAAATTTT
1 ATTTTTAAAAATATTTCAAAAATTTTTAAAATTTT
17580848 TTAAAATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (38 bp):
ATTTTTAAAAATATTTCAAAAATTTTTAAAATTTTCTA
Found at i:17580827 original size:10 final size:9
Alignment explanation
Indices: 17580725--17580888 Score: 80
Period size: 9 Copynumber: 17.2 Consensus size: 9
17580715 TGGATTTTTA
*
17580725 TTAAATTTT
1 TTAAAATTT
*
17580734 TTATAATTT
1 TTAAAATTT
*
17580743 TTAGAATTT
1 TTAAAATTT
* *
17580752 TTTAAATTA
1 TTAAAATTT
* *
17580761 TCATAATTT
1 TTAAAATTT
**
17580770 TTATTATTT
1 TTAAAATTT
17580779 TTAAAAATATT
1 TT-AAAAT-TT
* *
17580790 TCTTATATTT
1 T-TAAAATTT
17580800 TTAAAATTT
1 TTAAAATTT
17580809 TCT--AATTT
1 T-TAAAATTT
17580817 TTAAGAATTT
1 TTAA-AATTT
17580827 TTGAAAAATTT
1 TT--AAAATTT
17580838 TTAAAATTTT
1 TTAAAA-TTT
17580848 TTAAAATTT
1 TTAAAATTT
* *
17580857 ATCAACATATT
1 -TTAAAAT-TT
*
17580868 TTAGAATTGT
1 TTAAAATT-T
*
17580878 TTCAAATTT
1 TTAAAATTT
17580887 TT
1 TT
17580889 TAGAAAATTT
Statistics
Matches: 117, Mismatches: 25, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
7 1 0.01
8 6 0.05
9 53 0.45
10 39 0.33
11 15 0.13
12 3 0.03
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.57
Consensus pattern (9 bp):
TTAAAATTT
Found at i:17580827 original size:48 final size:47
Alignment explanation
Indices: 17580738--17580875 Score: 129
Period size: 48 Copynumber: 2.9 Consensus size: 47
17580728 AATTTTTTAT
* * * **
17580738 AATTTTTAGAATTTTTTAAATTATCATAATTTTTATTATTTTT-AAA
1 AATTTTTAAAATTTTTAAAATTTTCATAATTTTTAGAATTTTTGAAA
* *
17580784 AATATTTCTTATATTTTTAAAATTTTC-TAATTTTTAAGAATTTTTGAAA
1 AAT-TTT-TAAAATTTTTAAAATTTTCATAATTTTT-AGAATTTTTGAAA
17580833 AATTTTTAAAATTTTTTAAAATTTATCA-ACATATTTTAGAATT
1 AATTTTTAAAA-TTTTTAAAATTT-TCATA-AT-TTTTAGAATT
17580876 GTTTCAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
46 3 0.04
47 14 0.19
48 36 0.49
49 9 0.12
50 8 0.11
51 4 0.05
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.55
Consensus pattern (47 bp):
AATTTTTAAAATTTTTAAAATTTTCATAATTTTTAGAATTTTTGAAA
Found at i:17580836 original size:11 final size:10
Alignment explanation
Indices: 17580812--17580910 Score: 60
Period size: 10 Copynumber: 9.8 Consensus size: 10
17580802 AAAATTTTCT
*
17580812 AATTTTTAAG
1 AATTTTTAAA
17580822 AATTTTTGAAA
1 AATTTTT-AAA
17580833 AATTTTT-AA
1 AATTTTTAAA
*
17580842 AATTTTTTAA
1 AATTTTTAAA
* *
17580852 AATTTATCAA
1 AATTTTTAAA
* *
17580862 CATATTTT-AG
1 AAT-TTTTAAA
*
17580872 AATTGTTTCAA
1 AATT-TTTAAA
*
17580883 ATTTTTTAGAA
1 AATTTTTA-AA
*
17580894 AA-TTTGAAA
1 AATTTTTAAA
17580903 AATTTTTA
1 AATTTTTA
17580911 GATTTCTTAA
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
9 14 0.20
10 36 0.52
11 19 0.28
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.49
Consensus pattern (10 bp):
AATTTTTAAA
Found at i:17580957 original size:19 final size:20
Alignment explanation
Indices: 17580933--17580975 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
17580923 AAAAATTTTT
17580933 TTTTAGAATTTTTTT-A-AAA
1 TTTTAG-ATTTTTTTGAGAAA
17580952 TTTTAGATTTTTTTGAGAAA
1 TTTTAGATTTTTTTGAGAAA
17580972 TTTT
1 TTTT
17580976 TTGAATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (20 bp):
TTTTAGATTTTTTTGAGAAA
Found at i:17581030 original size:10 final size:10
Alignment explanation
Indices: 17581017--17581056 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
17581007 TTAAAAATCA
*
17581017 TTTAGAATTT
1 TTTAAAATTT
*
17581027 TTTAAACTTT
1 TTTAAAATTT
*
17581037 TTAAAAATTT
1 TTTAAAATTT
17581047 TTTAAAATTT
1 TTTAAAATTT
17581057 GTAAAAAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:17581045 original size:20 final size:20
Alignment explanation
Indices: 17581022--17581063 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
17581012 AATCATTTAG
* *
17581022 AATTTTTTAAACTTTTTAAA
1 AATTTTTTAAAATTTGTAAA
17581042 AATTTTTTAAAATTTGTAAA
1 AATTTTTTAAAATTTGTAAA
17581062 AA
1 AA
17581064 AAAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
AATTTTTTAAAATTTGTAAA
Found at i:17581637 original size:28 final size:29
Alignment explanation
Indices: 17581592--17581650 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
17581582 AAAAATCATT
* * *
17581592 TTATTATCTTTATATTTTT-AATATTTTA
1 TTATTATATATATATTTTTAAATATTATA
*
17581620 TTATTATATATATCTTTTTAAATATTATA
1 TTATTATATATATATTTTTAAATATTATA
17581649 TT
1 TT
17581651 CACAATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTATTATATATATATTTTTAAATATTATA
Found at i:17582994 original size:571 final size:568
Alignment explanation
Indices: 17581992--17583135 Score: 1712
Period size: 571 Copynumber: 2.0 Consensus size: 568
17581982 TTATGATAAT
* * *
17581992 AATTTTTATATTTTAATCAAATTTAAAATTTAAACTTTTTATTATAATTTATAAAATTGTAATTT
1 AATTTTTATATTTTAATCAAATTTAAAATTTAAAATTTTTATTATAATTTATAAAAATATAATTT
*
17582057 TGTATTATTTTAATTTAATAATCTTAATTCAATCATTAATTTATTAAATTTTTACCATTAAAATA
66 TGTATTATTTTAATTTAATAATCTTAATTCAATCATT-AGTTA-TAAATTTTTACCATTAAAATA
*
17582122 ACAATATAAATAAATAAAATCAGTTATTAAATTATACAAATAATCTATATACTTATACAAAATTT
129 ACAATATAAATAAATAAAATCAATTATTAAATTATACAAATAATCTATATACTTATACAAAATTT
* * ** * *
17582187 AAATTTTAATCCCTTTAATATTATTTATAAAAATCTCGTCATTGTACGAATTGAATTTGATAATA
194 AAAATTTAATCCCTTTAATATAATTTATAAAAATCTCGTCATCATACGAATTGAATATAATAATA
* *
17582252 TTAATATAATTACTAATGCAATTTATTACCCGTCATTAACTTTATTGATGCAATCATTATTTTTT
259 TTAATATAATTACTAATGCAATCTATTACCCGTCATTAACTTTATTGATACAATCATTATTTTTT
* **
17582317 TTAAATCGAATATTAAAAAGTTTTAAAAATTCTTTAAAAAAATCTTAAAAATTAAAAAATGATGA
324 TTAAATCAAATATTAAAAAGTTTTAAAAATTCTCAAAAAAAATCTTAAAAATTAAAAAATGATGA
*
17582382 AAAAGTAAACAAAAAATTATTTTTTAGGCTTTTCAGATTTTTTAAAAATATTAAGTCAAAATTTT
389 AAAAGTAAACAAAAAATTATTTTTTAGGCTTTTCAGATTTTTTAAAAATATTAAATCAAAATTTT
* *
17582447 ATAATATTTTAATCTTTTAAAAAATAATATTTCTTGAATTTTTATAGAAACGTAATGTTTTAATT
454 ATAATATTTTAATCTTTTAAAAAAAAATATTTCTTGAATTTTTATAGAAACATAATGTTTTAATT
* *
17582512 TTAAAAAATTCAAAATTTATGAATTATTTAAAATTTTTATTTATTTTTAAA
519 TT-AAAAATTCAAAATTTATGAATTATTTAAAAATTGTATTTATTTTTAAA
*
17582563 AATTTTTATATTTTAATCAAATTTAAAATTTAAAATTTTTATTATATTTTATAAAAATATAATTT
1 AATTTTTATATTTTAATCAAATTTAAAATTTAAAATTTTTATTATAATTTATAAAAATATAA-TT
* *
17582628 TTGTATTATTTTAATTTGATAATCTTAATTCAATCA-T-GTTA-AAA-TTTTACCATTAAAATGA
65 TTGTATTATTTTAATTTAATAATCTTAATTCAATCATTAGTTATAAATTTTTACCATTAAAATAA
* * * * *
17582689 CAATATAAATAAATAAAATCAATTATTAAATTGTACATATGAT-TATATATTTATACGAAATTTA
130 CAATATAAATAAATAAAATCAATTATTAAATTATACAAATAATCTATATACTTATACAAAATTTA
*
17582753 AAATTTAATCCAC-TTAATATAATTTATAAAAATCTCATTC-TCATAC-AAGTTGAATATAATAA
195 AAATTTAATCC-CTTTAATATAATTTATAAAAATCTC-GTCATCATACGAA-TTGAATATAATAA
* ** ** *
17582815 TATTGATATAATTACTAATGTGATCTATTACCTTTCGTTAACTTTATTGATACAATCATTATTTC
257 TATTAATATAATTACTAATGCAATCTATTACCCGTCATTAACTTTATTGATACAATCATTA-TT-
* *
17582880 TTTTTTAGAAAATTAAATATTAAAAAAGTTTTAAAAAATT-TCAAAAAAAATCTTAAATATTAAA
320 TTTTTT---AAATCAAATATT-AAAAAGTTTT-AAAAATTCTCAAAAAAAATCTTAAAAATTAAA
**
17582944 AAATGATGAAAAAGTAAACAAAAAATTATTTTTTAGGCTTTTTTGATTTTTTAAAAATATTAAAT
380 AAATGATGAAAAAGTAAACAAAAAATTATTTTTTAGGCTTTTCAGATTTTTTAAAAATATTAAAT
*
17583009 CAAAATTTTCTAATATTTTAATCTTTTAAAAAAAAATATTTCTTGAATTTTTATAGAAACATAAT
445 CAAAATTTTATAATATTTTAATCTTTTAAAAAAAAATATTTCTTGAATTTTTATAGAAACATAAT
* *
17583074 GTTTTGATTTTAAAAATTCAACATTTATGAATTATTTAAAAATTGTATTTATTTTTAAA
510 GTTTTAATTTTAAAAATTCAAAATTTATGAATTATTTAAAAATTGTATTTATTTTTAAA
17583133 AAT
1 AAT
17583136 ACTAAATTTA
Statistics
Matches: 519, Mismatches: 43, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
564 2 0.00
565 119 0.23
566 60 0.12
567 9 0.02
569 3 0.01
570 58 0.11
571 224 0.43
572 44 0.08
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.45
Consensus pattern (568 bp):
AATTTTTATATTTTAATCAAATTTAAAATTTAAAATTTTTATTATAATTTATAAAAATATAATTT
TGTATTATTTTAATTTAATAATCTTAATTCAATCATTAGTTATAAATTTTTACCATTAAAATAAC
AATATAAATAAATAAAATCAATTATTAAATTATACAAATAATCTATATACTTATACAAAATTTAA
AATTTAATCCCTTTAATATAATTTATAAAAATCTCGTCATCATACGAATTGAATATAATAATATT
AATATAATTACTAATGCAATCTATTACCCGTCATTAACTTTATTGATACAATCATTATTTTTTTT
AAATCAAATATTAAAAAGTTTTAAAAATTCTCAAAAAAAATCTTAAAAATTAAAAAATGATGAAA
AAGTAAACAAAAAATTATTTTTTAGGCTTTTCAGATTTTTTAAAAATATTAAATCAAAATTTTAT
AATATTTTAATCTTTTAAAAAAAAATATTTCTTGAATTTTTATAGAAACATAATGTTTTAATTTT
AAAAATTCAAAATTTATGAATTATTTAAAAATTGTATTTATTTTTAAA
Found at i:17583457 original size:23 final size:23
Alignment explanation
Indices: 17583407--17583457 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
17583397 TATAAACGTT
* *
17583407 TAAAAATTCAAAATTATTTTTTA
1 TAAAAATTCAAAATGATTTTTCA
*
17583430 AAAAAATT-AAATATGATTTTTCA
1 TAAAAATTCAAA-ATGATTTTTCA
17583453 TAAAA
1 TAAAA
17583458 TTTATAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (23 bp):
TAAAAATTCAAAATGATTTTTCA
Found at i:17588243 original size:24 final size:24
Alignment explanation
Indices: 17588211--17588258 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17588201 GGCTACAGTG
17588211 ACAAGTGAAATTGCTCGTAAAATT
1 ACAAGTGAAATTGCTCGTAAAATT
17588235 ACAAGTGAAATTGCTCGTAAAATT
1 ACAAGTGAAATTGCTCGTAAAATT
17588259 CTAGGGCAAC
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:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (24 bp):
ACAAGTGAAATTGCTCGTAAAATT
Found at i:17598991 original size:2 final size:2
Alignment explanation
Indices: 17598984--17599020 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
17598974 CATCATATAC
17598984 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
17599021 TCCTTCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:17601221 original size:21 final size:21
Alignment explanation
Indices: 17601195--17601234 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
17601185 AAGAAAAATT
17601195 TTAATTCA-TATAATATTAAAC
1 TTAATTCATTATAAT-TTAAAC
*
17601216 TTAATTTATTATAATTTAA
1 TTAATTCATTATAATTTAA
17601235 CGTTTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAATTCATTATAATTTAAAC
Found at i:17601274 original size:15 final size:15
Alignment explanation
Indices: 17601250--17601303 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
17601240 TATAGCTTTT
17601250 AATATAAAAAAAATTA
1 AATAT-AAAAAAATTA
*
17601266 AATATAAAAAATTTA
1 AATATAAAAAAATTA
*
17601281 AGTATTAAAAAAA-TA
1 AATA-TAAAAAAATTA
*
17601296 AAAATAAA
1 AATATAAA
17601304 CATAATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 4 0.12
15 16 0.50
16 12 0.38
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
AATATAAAAAAATTA
Found at i:17601301 original size:32 final size:31
Alignment explanation
Indices: 17601247--17601327 Score: 85
Period size: 32 Copynumber: 2.6 Consensus size: 31
17601237 TTTTATAGCT
*
17601247 TTTAA-TATAAAAAAAATTAAATATAA-AAAA
1 TTTAAGTATAAAAAAAATAAAATA-AACAAAA
* *
17601277 TTTAAGTATTAAAAAAATAAAAATAAACATAA
1 TTTAAGTATAAAAAAAAT-AAAATAAACAAAA
*
17601309 TTTAAGACATAAAAAAAAT
1 TTTAAG-TATAAAAAAAAT
17601328 GAAACAGTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
30 5 0.12
31 13 0.31
32 14 0.33
33 10 0.24
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (31 bp):
TTTAAGTATAAAAAAAATAAAATAAACAAAA
Found at i:17601478 original size:18 final size:17
Alignment explanation
Indices: 17601430--17601482 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
17601420 AAATTTTAAA
17601430 AATTAAATTAAATAATT
1 AATTAAATTAAATAATT
*
17601447 --TT-ATTTAAAATAATT
1 AATTAAATT-AAATAATT
17601462 AATTAAATTAAAGTAATT
1 AATTAAATTAAA-TAATT
17601480 AAT
1 AAT
17601483 CAAAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
17 5 0.17
18 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AATTAAATTAAATAATT
Found at i:17601592 original size:12 final size:13
Alignment explanation
Indices: 17601575--17601603 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17601565 CACATAAAAT
17601575 TATTTATATT-TA
1 TATTTATATTATA
17601587 TATTTATATTATA
1 TATTTATATTATA
17601600 TATT
1 TATT
17601604 ATCTTCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTATATTATA
Found at i:17601681 original size:25 final size:25
Alignment explanation
Indices: 17601636--17601684 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
17601626 AAGAAATGAT
**
17601636 ATATTATATAATGCATAATTTAAAA
1 ATATTATATAATAAATAATTTAAAA
17601661 ATATTATATAA-AAATATATTTAAA
1 ATATTATATAATAAATA-ATTTAAA
17601685 CATAAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
ATATTATATAATAAATAATTTAAAA
Found at i:17612502 original size:21 final size:21
Alignment explanation
Indices: 17612476--17612515 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17612466 TATAATATAA
* *
17612476 TTGTTTTCATGTTTGCTTTGG
1 TTGTTTTCATATTTACTTTGG
17612497 TTGTTTTCATATTTACTTT
1 TTGTTTTCATATTTACTTT
17612516 CAAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.15, T:0.65
Consensus pattern (21 bp):
TTGTTTTCATATTTACTTTGG
Found at i:17632192 original size:28 final size:28
Alignment explanation
Indices: 17632135--17632195 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
17632125 GTATTGATAT
*
17632135 TTTTATTTCATTGAATTAAATTATAAAA
1 TTTTATTTCATTGAATTAAATGATAAAA
* **
17632163 TTTTATTT-ATTGTAATTATATGATTTAA
1 TTTTATTTCATTG-AATTAAATGATAAAA
17632191 TTTTA
1 TTTTA
17632196 AAAAATGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (28 bp):
TTTTATTTCATTGAATTAAATGATAAAA
Found at i:17632243 original size:21 final size:21
Alignment explanation
Indices: 17632217--17632258 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17632207 AATATTATCC
17632217 AATACAAAAATTACTAAAATA
1 AATACAAAAATTACTAAAATA
17632238 AATACAAAAATTACTAAAATA
1 AATACAAAAATTACTAAAATA
17632259 TCATTACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AATACAAAAATTACTAAAATA
Found at i:17635415 original size:19 final size:18
Alignment explanation
Indices: 17635391--17635444 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
17635381 AAAATAAAAG
* *
17635391 ATAAAAGAAGTAAAATGAA
1 ATAAAAGAAAT-AAATAAA
17635410 ATAAAAGAAATAAATAAA
1 ATAAAAGAAATAAATAAA
*
17635428 AT-AAATAAATAAATAAA
1 ATAAAAGAAATAAATAAA
17635445 CATTATAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 14 0.44
18 8 0.25
19 10 0.31
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (18 bp):
ATAAAAGAAATAAATAAA
Found at i:17635419 original size:9 final size:9
Alignment explanation
Indices: 17635382--17635432 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
17635372 TAAGATATAA
17635382 AAATAAAAG
1 AAATAAAAG
17635391 --ATAAAAG
1 AAATAAAAG
*
17635398 AAGTAAAATG
1 AAATAAAA-G
17635408 AAATAAAAG
1 AAATAAAAG
17635417 AAATAAATA-
1 AAATAAA-AG
17635426 AAATAAA
1 AAATAAA
17635433 TAAATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 7 0.19
9 20 0.56
10 9 0.25
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.16
Consensus pattern (9 bp):
AAATAAAAG
Found at i:17635426 original size:13 final size:13
Alignment explanation
Indices: 17635403--17635440 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
17635393 AAAAGAAGTA
17635403 AAATGAAATAAAAG
1 AAAT-AAATAAAAG
*
17635417 AAATAAATAAAAT
1 AAATAAATAAAAG
17635430 AAATAAATAAA
1 AAATAAATAAA
17635441 TAAACATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (13 bp):
AAATAAATAAAAG
Found at i:17635433 original size:9 final size:9
Alignment explanation
Indices: 17635403--17635444 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
17635393 AAAAGAAGTA
*
17635403 AAATGAAAT
1 AAATAAAAT
17635412 AAA-AGAAAT
1 AAATA-AAAT
17635421 AAATAAAAT
1 AAATAAAAT
17635430 AAAT-AAAT
1 AAATAAAAT
17635438 AAATAAA
1 AAATAAA
17635445 CATTATAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 8 0.28
9 20 0.69
10 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:17635556 original size:16 final size:16
Alignment explanation
Indices: 17635535--17635568 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
17635525 TTTGAATGGG
17635535 TTCGGA-TTGAATTGTT
1 TTCGGATTTGAATT-TT
17635551 TTCGGATTTGAATTTT
1 TTCGGATTTGAATTTT
17635567 TT
1 TT
17635569 GGGTTAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.18, C:0.06, G:0.21, T:0.56
Consensus pattern (16 bp):
TTCGGATTTGAATTTT
Found at i:17635648 original size:16 final size:15
Alignment explanation
Indices: 17635610--17635648 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
17635600 TCGGATATAA
17635610 ATTTTTTTGAATTTG
1 ATTTTTTTGAATTTG
17635625 ATTATTTTTGAATTTGG
1 ATT-TTTTTGAATTT-G
17635642 ATTTTTT
1 ATTTTTT
17635649 CATATTCGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.68
17 4 0.18
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.67
Consensus pattern (15 bp):
ATTTTTTTGAATTTG
Found at i:17636169 original size:18 final size:18
Alignment explanation
Indices: 17636148--17636188 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17636138 CCCAAAAGTG
*
17636148 TTATTTTTTTCTTTGTT-T
1 TTATTTTTTCCTTT-TTCT
17636166 TTATTTTTTCCTTTTTCT
1 TTATTTTTTCCTTTTTCT
17636184 TTATT
1 TTATT
17636189 ATCAATTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.07, C:0.10, G:0.02, T:0.80
Consensus pattern (18 bp):
TTATTTTTTCCTTTTTCT
Found at i:17637552 original size:3 final size:3
Alignment explanation
Indices: 17637544--17637573 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
17637534 ATTTACTATC
17637544 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
17637574 TAGTTTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17637637 original size:19 final size:19
Alignment explanation
Indices: 17637613--17637667 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 19
17637603 AGTTTACTAA
17637613 TTACTATCAATACTTTAAT
1 TTACTATCAATACTTTAAT
*
17637632 TTACTAGTTAAGTTATACTTTAAT
1 TTACTA--TCA---ATACTTTAAT
17637656 TTACTATCAATA
1 TTACTATCAATA
17637668 ATAATTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
19 9 0.31
21 2 0.07
22 2 0.07
24 16 0.55
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (19 bp):
TTACTATCAATACTTTAAT
Found at i:17638935 original size:22 final size:23
Alignment explanation
Indices: 17638910--17638955 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
17638900 TAGAGTAACA
*
17638910 TGTTTGCATG-TTACTGATGGCT
1 TGTTTGCAGGTTTACTGATGGCT
* *
17638932 TGTTTGGAGGTTTTCTGATGGCT
1 TGTTTGCAGGTTTACTGATGGCT
17638955 T
1 T
17638956 TTCTTTCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.11, C:0.11, G:0.30, T:0.48
Consensus pattern (23 bp):
TGTTTGCAGGTTTACTGATGGCT
Found at i:17642166 original size:20 final size:21
Alignment explanation
Indices: 17642141--17642181 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
17642131 CTCATTTTTA
17642141 TATTTTAATTT-TAAAATAAT
1 TATTTTAATTTATAAAATAAT
17642161 TATTTTAATTTATAAAATAAT
1 TATTTTAATTTATAAAATAAT
17642182 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTAATTTATAAAATAAT
Found at i:17647180 original size:22 final size:24
Alignment explanation
Indices: 17647155--17647198 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
17647145 TGAAATAATT
17647155 TTATTTGA-TTAAAAAT-TAAATA
1 TTATTTGATTTAAAAATATAAATA
*
17647177 TTATTTTATTTAAAAATATAAA
1 TTATTTGATTTAAAAATATAAA
17647199 AATAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 8 0.42
24 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TTATTTGATTTAAAAATATAAATA
Found at i:17647341 original size:21 final size:20
Alignment explanation
Indices: 17647316--17647362 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
17647306 TATTTAATTA
17647316 AAAATATATTTATTGATAG-AT
1 AAAATATATTT-TT-ATAGTAT
*
17647337 AAAAT-TGTTTTTATAGTAT
1 AAAATATATTTTTATAGTAT
17647356 AAAATAT
1 AAAATAT
17647363 GTAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 5 0.22
21 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (20 bp):
AAAATATATTTTTATAGTAT
Found at i:17647420 original size:23 final size:22
Alignment explanation
Indices: 17647390--17647435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17647380 AGAAAATAAA
17647390 ATTAATTTATTAAAATCAAAAG
1 ATTAATTTATTAAAATCAAAAG
* *
17647412 ATTATATTTATTTAAATTAAAAG
1 ATTA-ATTTATTAAAATCAAAAG
17647435 A
1 A
17647436 AAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTAATTTATTAAAATCAAAAG
Found at i:17647441 original size:23 final size:23
Alignment explanation
Indices: 17647394--17647441 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
17647384 AATAAAATTA
**
17647394 ATTTATTAAAATCAAAAGATTAT
1 ATTTATTAAAATCAAAAGAAAAT
* *
17647417 ATTTATTTAAATTAAAAGAAAAT
1 ATTTATTAAAATCAAAAGAAAAT
17647440 AT
1 AT
17647442 ATAAATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTATTAAAATCAAAAGAAAAT
Found at i:17650302 original size:98 final size:98
Alignment explanation
Indices: 17650183--17650375 Score: 350
Period size: 98 Copynumber: 2.0 Consensus size: 98
17650173 AATCAATAAG
*
17650183 CTAAACAAATGTTAATATAAAACTCTAATCTATATAAATTACAAAATATATTTTATAATTATAAA
1 CTAAACAAATGTTAATATAAAACTCTAATCTATATAAATTACAAAATATACTTTATAATTATAAA
*
17650248 TCCTCTTTGTTAAACATGTTTAATTTTAAAAAA
66 TCATCTTTGTTAAACATGTTTAATTTTAAAAAA
* *
17650281 CTAAACAAATGTTAATGTAAAACTCTAATCTATATAAATTACAAAATATGCTTTATAATTATAAA
1 CTAAACAAATGTTAATATAAAACTCTAATCTATATAAATTACAAAATATACTTTATAATTATAAA
17650346 TCATCTTTGTTAAACATGTTTAATTTTAAA
66 TCATCTTTGTTAAACATGTTTAATTTTAAA
17650376 GTATTATACC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (98 bp):
CTAAACAAATGTTAATATAAAACTCTAATCTATATAAATTACAAAATATACTTTATAATTATAAA
TCATCTTTGTTAAACATGTTTAATTTTAAAAAA
Found at i:17654474 original size:16 final size:16
Alignment explanation
Indices: 17654453--17654493 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
17654443 TATTTTAAAA
*
17654453 TTTATCTTATGATACT
1 TTTATCTTAGGATACT
*
17654469 TTTATCCTTCGGATACT
1 TTTAT-CTTAGGATACT
17654486 TTTATCTT
1 TTTATCTT
17654494 TGGTTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.56
Consensus pattern (16 bp):
TTTATCTTAGGATACT
Found at i:17656197 original size:15 final size:15
Alignment explanation
Indices: 17656168--17656212 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
17656158 TATATGTTAT
17656168 TAATTATTTATAAAA
1 TAATTATTTATAAAA
17656183 TAATT-TTTATAAAA
1 TAATTATTTATAAAA
17656197 -AATTAATTT-TAAAA
1 TAATT-ATTTATAAAA
17656211 TA
1 TA
17656213 TTAAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.15
14 14 0.52
15 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTATTTATAAAA
Found at i:17664041 original size:26 final size:26
Alignment explanation
Indices: 17664002--17664052 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17663992 AACACAGTAA
*
17664002 AAAAATTAAAATAAGTAAAAATTCATT
1 AAAAATTAAAATAACT-AAAATTCATT
*
17664029 AAAAA-TAATATAACTAAAATTCAT
1 AAAAATTAAAATAACTAAAATTCAT
17664053 GTAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 8 0.36
27 5 0.23
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAATTAAAATAACTAAAATTCATT
Found at i:17669324 original size:52 final size:52
Alignment explanation
Indices: 17669259--17669363 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
17669249 ATAGACAAGA
* * * *
17669259 GACTTGCAAAAGAAGAATTTTAAAAGAAAAAAAATTTTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTT
* * * * *
17669311 GACTTGTAGAAGAAGAATTCTAAAAGGAAATAGATTCTTAATAAGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTT
17669363 G
1 G
17669364 TATGGTTATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.30
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAAAGAAAAAAAATTCTTAATAAGCAAGTTT
Found at i:17682062 original size:19 final size:20
Alignment explanation
Indices: 17682026--17682067 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
17682016 ATATATAAAA
17682026 ATAATATGATTTAAAATT-T
1 ATAATATGATTTAAAATTAT
*
17682045 ATAATAT-ATATTATAATTAT
1 ATAATATGAT-TTAAAATTAT
17682065 ATA
1 ATA
17682068 GAAATACTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 14 0.70
20 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATAATATGATTTAAAATTAT
Found at i:17682572 original size:17 final size:17
Alignment explanation
Indices: 17682538--17682580 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
17682528 TTTTTTATCA
*
17682538 TTTTATTTTTATTTTAT
1 TTTTATTTTTATTATAT
17682555 TTTTACTTTTTA-TATAT
1 TTTTA-TTTTTATTATAT
17682572 TTATTATTT
1 TT-TTATTT
17682581 CAAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTATTATAT
Found at i:17684388 original size:14 final size:14
Alignment explanation
Indices: 17684369--17684410 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
17684359 CATACAACCT
*
17684369 TTTTTTTTAATTTC
1 TTTTTTTTAATTTA
*
17684383 TTTTTTTAAATTTA
1 TTTTTTTTAATTTA
*
17684397 TGTTTTTT-ATTTA
1 TTTTTTTTAATTTA
17684410 T
1 T
17684411 ATAAATTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTTTTTAATTTA
Found at i:17685078 original size:9 final size:9
Alignment explanation
Indices: 17685064--17685118 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
17685054 TAAACTCTTT
17685064 TTTTTTTAA
1 TTTTTTTAA
17685073 -TTTTTTAA
1 TTTTTTTAA
17685081 TTTTTTTCAA
1 TTTTTTT-AA
17685091 TTTTTTTTCCAA
1 -TTTTTTT--AA
*
17685103 TTTTTTCAA
1 TTTTTTTAA
17685112 TTTTTTT
1 TTTTTTT
17685119 TGTTCTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 8 0.20
9 14 0.35
10 2 0.05
11 13 0.32
12 3 0.08
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:17685078 original size:10 final size:10
Alignment explanation
Indices: 17685063--17685119 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
17685053 ATAAACTCTT
17685063 TTTTTTTTAA
1 TTTTTTTTAA
17685073 --TTTTTTAA
1 TTTTTTTTAA
*
17685081 TTTTTTTCAA
1 TTTTTTTTAA
17685091 TTTTTTTTCCAA
1 TTTTTTTT--AA
*
17685103 -TTTTTTCAA
1 TTTTTTTTAA
17685112 TTTTTTTT
1 TTTTTTTT
17685120 GTTCTTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
8 8 0.21
9 2 0.05
10 20 0.53
11 6 0.16
12 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:17689521 original size:20 final size:21
Alignment explanation
Indices: 17689484--17689524 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
17689474 AATTTATTTC
*
17689484 TTTAAAGAGAAGTTATAAAAT
1 TTTAAAGAGAAATTATAAAAT
17689505 TTTAAAGA-AAATTATAAAAT
1 TTTAAAGAGAAATTATAAAAT
17689525 AAGATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (21 bp):
TTTAAAGAGAAATTATAAAAT
Found at i:17690098 original size:12 final size:12
Alignment explanation
Indices: 17690075--17690115 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
17690065 ATTATACTAA
17690075 TTAATAAAATTTT
1 TTAAT-AAATTTT
17690088 TTAATAAATTTT
1 TTAATAAATTTT
* *
17690100 TTTATAATTTTT
1 TTAATAAATTTT
17690112 TTAA
1 TTAA
17690116 AATTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTAATAAATTTT
Found at i:17690108 original size:11 final size:11
Alignment explanation
Indices: 17690082--17690121 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17690072 TAATTAATAA
*
17690082 AATTTTTTAAT
1 AATTTTTTTAT
17690093 AAATTTTTTTAT
1 -AATTTTTTTAT
*
17690105 AATTTTTTTAA
1 AATTTTTTTAT
17690116 AATTTT
1 AATTTT
17690122 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:17690149 original size:25 final size:26
Alignment explanation
Indices: 17690099--17690151 Score: 65
Period size: 24 Copynumber: 2.1 Consensus size: 26
17690089 TAATAAATTT
* *
17690099 TTTTATAATTTTTTTAAAATTTTAAA
1 TTTTATAATTTTTTGAAAATTATAAA
17690125 TTTTA-AA-TTTTTGAAAATTCATAAA
1 TTTTATAATTTTTTGAAAATT-ATAAA
17690150 TT
1 TT
17690152 CATTTCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTTATAATTTTTTGAAAATTATAAA
Found at i:17696567 original size:21 final size:21
Alignment explanation
Indices: 17696554--17696596 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
17696544 CTCCATCCGC
17696554 TGGCGCATGGCCTCCATGCCA
1 TGGCGCATGGCCTCCATGCCA
17696575 TGGCGCATGGCCTCCATGCCA
1 TGGCGCATGGCCTCCATGCCA
17696596 T
1 T
17696597 CTCGCAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.37, G:0.28, T:0.21
Consensus pattern (21 bp):
TGGCGCATGGCCTCCATGCCA
Found at i:17696602 original size:21 final size:21
Alignment explanation
Indices: 17696556--17696602 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
17696546 CCATCCGCTG
*
17696556 GCGCATGGCCTCCATGCCATG
1 GCGCATGGCCTCCATGCCATC
17696577 GCGCATGGCCTCCATGCCATC
1 GCGCATGGCCTCCATGCCATC
*
17696598 TCGCA
1 GCGCA
17696603 AATTCAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.19
Consensus pattern (21 bp):
GCGCATGGCCTCCATGCCATC
Found at i:17702118 original size:12 final size:13
Alignment explanation
Indices: 17702093--17702122 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
17702083 GGGATCGCAG
17702093 CTGCAGCTTAATA
1 CTGCAGCTTAATA
17702106 CTGCAGC-TAATA
1 CTGCAGCTTAATA
17702118 CTGCA
1 CTGCA
17702123 CCTGTGTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (13 bp):
CTGCAGCTTAATA
Found at i:17712498 original size:106 final size:103
Alignment explanation
Indices: 17712148--17712687 Score: 378
Period size: 104 Copynumber: 5.2 Consensus size: 103
17712138 ACTTTATGGC
* * * * * ** * *
17712148 TTTTGATTTAATAAGTCTTTATTATGGATATGACAATTAT-TGTATTTTTTTTTATAGAACATAG
1 TTTTGATTTAATAAGTATTTATTATAGATATGTCAATTATACG--TTTCTTTGAACAAAACATAG
* * *
17712212 TATTTGGTGTTTAATTTCTTTTATCTGTTTGACTTAAT-AGT
64 TATTTGGTATTTAATTT-TTTTTTCTGTTTGACTTGATGA-T
* * * * * * * **
17712253 TTTTTA-TTAATAAGCATTTATCATGGATATGAT-AATTATTGCATTTCTTTGAAAAAAATGTAG
1 TTTTGATTTAATAAGTATTTATTATAGATATG-TCAATTA-TACGTTTCTTTGAACAAAACATAG
* * * * * *
17712316 TATTTAGCATTTAA--TTTTTTTGTGTTT-AATTCGA-AAGC
64 TATTTGGTATTTAATTTTTTTTTCTGTTTGACTT-GATGA-T
* * * *
17712354 TTTTGATTTAATGAGCATTTATTATAGGTATGAT-AATTACTACATTTCTTT-AACAGAAACATA
1 TTTTGATTTAATAAGTATTTATTATAGATATG-TCAATTA-TACGTTTCTTTGAACA-AAACATA
17712417 GTATTTGGTATTTAATTTTTTTTTCTACGTTTGACTTGATGAT
63 GTATTTGGTATTTAATTTTTTTTTCT--GTTTGACTTGATGAT
* * *
17712460 TTTTGATTTAATGAA-TATTTATTATAGATATGTCAATTATTATGTTTCTTTGAACAAAACACAA
1 TTTTGATTTAAT-AAGTATTTATTATAGATATGTCAATTA-TACGTTTCTTTGAACAAAACATAG
* * * *
17712524 AATTTGG----CAATTTTTTTTTCTGTGTGATTTGAT-AT
64 TATTTGGTATTTAATTTTTTTTTCTGTTTGACTTGATGAT
* * * *
17712559 CTTTTAATTTAATAAGTATTTATTATGGATATGACAATTAT-CGTTTCTTTGAACAAAAATATAG
1 -TTTTGATTTAATAAGTATTTATTATAGATATGTCAATTATACGTTTCTTTGAAC-AAAACATAG
* * **
17712623 TATTTGGTATTTTATTTTTTTTATCTGTTTGACTTGGTGGC
64 TATTTGGTATTTAATTTTTTTT-TCTGTTTGACTTGATGAT
17712664 TTTTGA-TTAATAAGTATTTATTAT
1 TTTTGATTTAATAAGTATTTATTAT
17712688 GGGTTTGTTA
Statistics
Matches: 344, Mismatches: 66, Indels: 52
0.74 0.14 0.11
Matches are distributed among these distances:
98 12 0.03
99 17 0.05
100 46 0.13
101 21 0.06
102 70 0.20
103 27 0.08
104 76 0.22
105 7 0.02
106 59 0.17
107 9 0.03
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.51
Consensus pattern (103 bp):
TTTTGATTTAATAAGTATTTATTATAGATATGTCAATTATACGTTTCTTTGAACAAAACATAGTA
TTTGGTATTTAATTTTTTTTTCTGTTTGACTTGATGAT
Found at i:17712542 original size:206 final size:203
Alignment explanation
Indices: 17712146--17712716 Score: 514
Period size: 206 Copynumber: 2.8 Consensus size: 203
17712136 TAACTTTATG
* * * ** * *
17712146 GCTTTTGATTTAATAAGTC-TTTATTATGGATATGACAATTATTGTATTTTTTTTTA-TAGAACA
1 GCTTTTAATTTAATAAG-CATTTATTATGGATATGACAATTA-T-CATTTCTTTGAACAAAAACA
* * * * * *
17712209 TAGTATTTGGTGTTTAATTTCTTTTATCTGTTTGACTTAAT-AGTTTTTTATTAATAAGCATTTA
63 TAGTATTTGGTATTTAATTTTTTTTATCTGTTTGACTTGATGA-CTTTTGATTAATAAGTATTTA
* * * *** ** * *
17712273 TCATGGATATGAT-AATTA-T-TGCATTTCTTTGAAAAAAATGTAGTATTTAGCATTTAATTTTT
127 TTATAGATATG-TCAATTACTATG--TTTCTTTGAACAAAACACAAAATTTGGCAATT--TTTTT
* *
17712335 TTGTGTTTAATTCGAAA
187 TTCTGTGTAATTCGAAA
* * * *
17712352 GCTTTTGATTTAATGAGCATTTATTATAGG-TATGATAATTACTACATTTCTTT-AACAGAAACA
1 GCTTTTAATTTAATAAGCATTTATTAT-GGATATGACAATTA-T-CATTTCTTTGAACAAAAACA
*
17712415 TAGTATTTGGTATTTAATTTTTTTT-TCTACGTTTGACTTGATGATTTTTGATTTAATGAA-TAT
63 TAGTATTTGGTATTTAATTTTTTTTATCT--GTTTGACTTGATGACTTTTGA-TTAAT-AAGTAT
*
17712478 TTATTATAGATATGTCAATTATTATGTTTCTTTGAACAAAACACAAAATTTGGCAATTTTTTTTT
124 TTATTATAGATATGTCAATTACTATGTTTCTTTGAACAAAACACAAAATTTGGCAATTTTTTTTT
* * *
17712543 CTGTGTGATTTGATA
189 CTGTGTAATTCGAAA
* * * *
17712558 TCTTTTAATTTAATAAGTATTTATTATGGATATGACAATTATCGTTTCTTTGAACAAAAATATAG
1 GCTTTTAATTTAATAAGCATTTATTATGGATATGACAATTATCATTTCTTTGAACAAAAACATAG
* * *
17712623 TATTTGGTATTTTATTTTTTTTATCTGTTTGACTTGGTGGCTTTTGATTAATAAGTATTTATTAT
66 TATTTGGTATTTAATTTTTTTTATCTGTTTGACTTGATGACTTTTGATTAATAAGTATTTATTAT
* * * * *
17712688 GGGTTTGTTAATTACTGTGTTTCTTTGAA
131 AGATATGTCAATTACTATGTTTCTTTGAA
17712717 GCTAAATACA
Statistics
Matches: 302, Mismatches: 48, Indels: 33
0.79 0.13 0.09
Matches are distributed among these distances:
202 2 0.01
203 38 0.13
204 26 0.09
205 40 0.13
206 122 0.40
207 20 0.07
208 49 0.16
209 3 0.01
210 2 0.01
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (203 bp):
GCTTTTAATTTAATAAGCATTTATTATGGATATGACAATTATCATTTCTTTGAACAAAAACATAG
TATTTGGTATTTAATTTTTTTTATCTGTTTGACTTGATGACTTTTGATTAATAAGTATTTATTAT
AGATATGTCAATTACTATGTTTCTTTGAACAAAACACAAAATTTGGCAATTTTTTTTTCTGTGTA
ATTCGAAA
Found at i:17712597 original size:100 final size:99
Alignment explanation
Indices: 17712430--17712616 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 99
17712420 TTTGGTATTT
* * *
17712430 AATTTTTTTTTCTACGTTTGACTTGATGATTTTTGATTTAATGAATATTTATTATAGATATGTCA
1 AATTTTTTTTTCTA-GTGTGACTTGATGATTTTTAATTTAATGAATATTTATTATAGATATGACA
*
17712495 ATTATTATGTTTCTTTGAACAAAACACAAAATTTGGC
65 ATTA-T-CGTTTCTTTGAACAAAACACAAAATTTGGC
* *
17712532 AATTTTTTTTTCT-GTGTGATTTGAT-ATCTTTTAATTTAAT-AAGTATTTATTATGGATATGAC
1 AATTTTTTTTTCTAGTGTGACTTGATGAT-TTTTAATTTAATGAA-TATTTATTATAGATATGAC
17712594 AATTATCGTTTCTTTGAACAAAA
64 AATTATCGTTTCTTTGAACAAAA
17712617 ATATAGTATT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
98 16 0.21
99 5 0.06
100 43 0.56
102 13 0.17
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (99 bp):
AATTTTTTTTTCTAGTGTGACTTGATGATTTTTAATTTAATGAATATTTATTATAGATATGACAA
TTATCGTTTCTTTGAACAAAACACAAAATTTGGC
Found at i:17732985 original size:24 final size:24
Alignment explanation
Indices: 17732958--17733010 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
17732948 TGCTTTTAAT
17732958 AATATCAGTCTCATTATATATATA
1 AATATCAGTCTCATTATATATATA
17732982 AATATCAGTCTCATTATATATATA
1 AATATCAGTCTCATTATATATATA
*
17733006 TATAT
1 AATAT
17733011 ATATATCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (24 bp):
AATATCAGTCTCATTATATATATA
Found at i:17733181 original size:16 final size:16
Alignment explanation
Indices: 17733160--17733208 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
17733150 TTATTTTAAT
17733160 ATAAAAATAATAAAAA
1 ATAAAAATAATAAAAA
17733176 AT-AAAATAAATAAAAA
1 ATAAAAAT-AATAAAAA
*
17733192 ATTATAAAATATTAAAA
1 A-TA-AAAATAATAAAA
17733209 TTAAAAATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 5 0.18
16 11 0.39
17 1 0.04
18 6 0.21
19 5 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
ATAAAAATAATAAAAA
Found at i:17733188 original size:19 final size:19
Alignment explanation
Indices: 17733164--17733202 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17733154 TTTAATATAA
17733164 AAATAATAAAA-AATAAAAT
1 AAATAA-AAAATAATAAAAT
*
17733183 AAATAAAAAATTATAAAAT
1 AAATAAAAAATAATAAAAT
17733202 A
1 A
17733203 TTAAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATAAAAAATAATAAAAT
Found at i:17733460 original size:16 final size:18
Alignment explanation
Indices: 17733418--17733466 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
17733408 TAATATCTTT
*
17733418 TTAGATTTATATTTATCA
1 TTAGTTTTATATTTATCA
*
17733436 TTAGTTTTATATTT-TGA
1 TTAGTTTTATATTTATCA
17733453 TT-GTTTTAT-TTTAT
1 TTAGTTTTATATTTAT
17733467 TTGATTGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.11
16 8 0.29
17 4 0.14
18 13 0.46
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.65
Consensus pattern (18 bp):
TTAGTTTTATATTTATCA
Found at i:17735215 original size:9 final size:9
Alignment explanation
Indices: 17735193--17735239 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
17735183 ATTTTCTTGC
*
17735193 ATTTTTACTA
1 ATTTTTA-TT
17735203 ATTTTTATT
1 ATTTTTATT
*
17735212 ATTTTTACT
1 ATTTTTATT
17735221 ATTTTTATT
1 ATTTTTATT
*
17735230 AATTTTATT
1 ATTTTTATT
17735239 A
1 A
17735240 AATTTTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
9 26 0.79
10 7 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATT
Found at i:17735224 original size:18 final size:19
Alignment explanation
Indices: 17735193--17735246 Score: 74
Period size: 18 Copynumber: 2.8 Consensus size: 19
17735183 ATTTTCTTGC
17735193 ATTTTTACTAATTTTTATT
1 ATTTTTACTAATTTTTATT
17735212 ATTTTTACT-ATTTTTATT
1 ATTTTTACTAATTTTTATT
* *
17735230 AATTTTATTAAATTTTT
1 ATTTTTACT-AATTTTT
17735247 TTGGTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 16 0.52
19 9 0.29
20 6 0.19
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTACTAATTTTTATT
Found at i:17736681 original size:104 final size:104
Alignment explanation
Indices: 17736504--17736763 Score: 299
Period size: 104 Copynumber: 2.5 Consensus size: 104
17736494 TCATAAATTC
* * * * *
17736504 TTAATACTTCTCATCTTAGAGGCATTAAAACTTTGAAAACTTAAAATGTTTTACCCAAAGGTCTT
1 TTAATACTCCTCATATTAGAGGCATTGAAACTTTGAAAACTTAAAATATTTTACCCAAAAGTCTT
* * * * *
17736569 ATAGATTATGCTCGA-AGGTCTTACAAATCTCAACATTTT
66 AGAAATTATG-TCCATAAGTCTTACAAATCTCAACATCTT
* *
17736608 TTAATACTCCTTATATTAGAGGCATTGAAACTTTGAAAATTTAAAATATTTTACCCAAAAGTCTT
1 TTAATACTCCTCATATTAGAGGCATTGAAACTTTGAAAACTTAAAATATTTTACCCAAAAGTCTT
* * * *
17736673 GGAAATTATGTCCATAAGTTTTATAAATCTTAACATCTT
66 AGAAATTATGTCCATAAGTCTTACAAATCTCAACATCTT
* * * * *
17736712 TGAATACTCATCGTATCAGAGGC-GTGAAAACTTTGAAAACTTAAAATATTTT
1 TTAATACTCCTCATATTAGAGGCATTG-AAACTTTGAAAACTTAAAATATTTT
17736764 GCTCGGAGGT
Statistics
Matches: 131, Mismatches: 23, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
103 5 0.04
104 126 0.96
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (104 bp):
TTAATACTCCTCATATTAGAGGCATTGAAACTTTGAAAACTTAAAATATTTTACCCAAAAGTCTT
AGAAATTATGTCCATAAGTCTTACAAATCTCAACATCTT
Found at i:17737099 original size:18 final size:19
Alignment explanation
Indices: 17737076--17737111 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
17737066 TTTGTTGCTA
17737076 TTTTTTT-C-TTTTTCTTT
1 TTTTTTTCCTTTTTTCTTT
17737093 TTTTTTTCCTTTTTTCTTT
1 TTTTTTTCCTTTTTTCTTT
17737112 CTAATATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTCCTTTTTTCTTT
Found at i:17737320 original size:26 final size:26
Alignment explanation
Indices: 17737291--17737386 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
17737281 TGCACAATCC
* *
17737291 ATGATACAAATGTAAATGTCTTTTTT
1 ATGATGCAAATGTAAATGTCTTTGTT
* * *
17737317 ATGATGCAAATGCAAATGCCTTAGTT
1 ATGATGCAAATGTAAATGTCTTTGTT
* * *
17737343 ATGATGCAAATGTAAATATCTTTCTC
1 ATGATGCAAATGTAAATGTCTTTGTT
* *
17737369 ATGATGCACATGCAAATG
1 ATGATGCAAATGTAAATG
17737387 AAGCTAATGG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (26 bp):
ATGATGCAAATGTAAATGTCTTTGTT
Found at i:17738129 original size:14 final size:14
Alignment explanation
Indices: 17738110--17738136 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17738100 AAATACATCT
17738110 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
17738124 TTTTTTTATTTTT
1 TTTTTTTATTTTT
17738137 TTGTGTAAGT
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:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:17744697 original size:3 final size:3
Alignment explanation
Indices: 17744691--17744731 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
17744681 TAATAATTTA
*
17744691 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17744732 AATATTTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17747656 original size:307 final size:307
Alignment explanation
Indices: 17747145--17747707 Score: 729
Period size: 307 Copynumber: 1.8 Consensus size: 307
17747135 CTCCACTGGC
*
17747145 TAAAAGAAACAAATAGCCAAATATAAATTTTCTAGTATCCACACACCTAGCAAAATCTAAATATG
1 TAAAAGAAACAAATAGCCAAATATAAATTTTATAGTATCCACACACCTAGCAAAATCTAAATATG
* * * * * * * **
17747210 AATATCTTATCACTTTAAGATAATCGAACTTTTTATAAGTGAGCCTGTGATTTTTTGTTCCTTGC
66 AATATCCTATCACTTCAAGATAATCAAACTTTCTATAAGTGAGCATATGATCTTTCATTCCTTGC
* ** * *
17747275 AAGAATCTTAATACTTTTTTTGCAACCTTCCAATGATCTAATCCTAGATTACTTTGATACTTGTC
131 AAGAATCTTAATACTTTCTTCACAACCTTCCAATGATCTAATCCTAGATTACTTTGATACCTATC
*
17747340 CAACATTCTGACACTT-AAA-TGAATGTCTAGTTTAGTACAAGTTTAGACATACATCAAGCTTTA
196 CAACATTCTGACA-TTAAAACT-AATGTCTAGTTTAGTACAACTTTAGACATACATCAAGCTTTA
17747403 AAGCAATGACAAACTACTTCACACTTTTTCATGAGAACTCTCCATCAGT
259 AAGCAATGACAAACTACTTCACACTTTTTCATGAGAACTCTCCATCAGT
* * * * *
17747452 TAAAAGAAACAAATAGCCGAATGTAGATTTTAT-GATATCCACACACCTAGCAAAATCTGAATTT
1 TAAAAGAAACAAATAGCCAAATATAAATTTTATAG-TATCCACACACCTAGCAAAATCTAAATAT
* * *
17747516 GAATATCCTATCACTTCAAGATGATTAAACTTTCTATAAGTGAGTATATGATCTTTCATTCCTTG
65 GAATATCCTATCACTTCAAGATAATCAAACTTTCTATAAGTGAGCATATGATCTTTCATTCCTTG
* * * * * * *
17747581 CAAGTATTTTGATACTTTCTTCACAGGCCTT-TAATGATCTAATCTTGGATTACTTTGATACCTA
130 CAAGAATCTTAATACTTTCTTCACA-ACCTTCCAATGATCTAATCCTAGATTACTTTGATACCTA
* * * * * *
17747645 TCCAGCATTCTGACATTAAAACTAATGTCTAGTTTGGTATAACTTTGGGCATATATCAAGCTT
194 TCCAACATTCTGACATTAAAACTAATGTCTAGTTTAGTACAACTTTAGACATACATCAAGCTT
17747708 CCAATAATGA
Statistics
Matches: 215, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
306 3 0.01
307 207 0.96
308 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (307 bp):
TAAAAGAAACAAATAGCCAAATATAAATTTTATAGTATCCACACACCTAGCAAAATCTAAATATG
AATATCCTATCACTTCAAGATAATCAAACTTTCTATAAGTGAGCATATGATCTTTCATTCCTTGC
AAGAATCTTAATACTTTCTTCACAACCTTCCAATGATCTAATCCTAGATTACTTTGATACCTATC
CAACATTCTGACATTAAAACTAATGTCTAGTTTAGTACAACTTTAGACATACATCAAGCTTTAAA
GCAATGACAAACTACTTCACACTTTTTCATGAGAACTCTCCATCAGT
Found at i:17752904 original size:30 final size:31
Alignment explanation
Indices: 17752855--17752923 Score: 122
Period size: 30 Copynumber: 2.2 Consensus size: 31
17752845 TAAAATACTA
17752855 AAAATTTTTAGGTTTTTTTCTAATATTTTGAT
1 AAAA-TTTTAGGTTTTTTTCTAATATTTTGAT
17752887 AAAATTTTAGG-TTTTTTCTAATATTTTGAT
1 AAAATTTTAGGTTTTTTTCTAATATTTTGAT
17752917 AAAATTT
1 AAAATTT
17752924 CAAGAAAAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 26 0.70
31 7 0.19
32 4 0.11
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.57
Consensus pattern (31 bp):
AAAATTTTAGGTTTTTTTCTAATATTTTGAT
Found at i:17754141 original size:160 final size:162
Alignment explanation
Indices: 17753962--17754277 Score: 402
Period size: 161 Copynumber: 2.0 Consensus size: 162
17753952 TAAATACCCC
* * * * *
17753962 ATTTAGAGTTAGTTGAAAAGTTCAAATCAACCCT-AAACTATGATTAAATGTCCCAATTAACCCA
1 ATTTAAAGTTAGTTGAAAAGTCCAAACCAACCCTAAAACTATGACTAAATATCCCAATTAACCCA
* * * ** **
17754026 AATTCTCAAGTTAAGAGTCAAATTCATCCA-TCGCATCGTTATTTATGACTCAACTTGGACGGCT
66 AATTCTCAAGTTAAAAGTCAAATTCATCCATTCACATCGTTATTTATGACACAACTTAAACAACT
*
17754090 AAAAATTAAGCTTCAATTTTTTATAGAGATTA
131 AAAAATTAAGCTTCAATTTTTCATAGAGATTA
* * **
17754122 ATTTAAAGTTAGTTGAAAAGTCCAAACCAACCTTAAAACTATTACTAAATATTTCAATTAACCCA
1 ATTTAAAGTTAGTTGAAAAGTCCAAACCAACCCTAAAACTATGACTAAATATCCCAATTAACCCA
* ** * * * *
17754187 AATTCTTAAGTTAAAAGTGTAATTCATCCATTTATATCTTTATTTATGACACAACTTAAATAACT
66 AATTCTCAAGTTAAAAGTCAAATTCATCCATTCACATCGTTATTTATGACACAACTTAAACAACT
17754252 AAAAATTAAGCTTCAATTTTTCATAG
131 AAAAATTAAGCTTCAATTTTTCATAG
17754278 GGATAACTTT
Statistics
Matches: 130, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
160 30 0.23
161 51 0.39
162 49 0.38
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (162 bp):
ATTTAAAGTTAGTTGAAAAGTCCAAACCAACCCTAAAACTATGACTAAATATCCCAATTAACCCA
AATTCTCAAGTTAAAAGTCAAATTCATCCATTCACATCGTTATTTATGACACAACTTAAACAACT
AAAAATTAAGCTTCAATTTTTCATAGAGATTA
Found at i:17756296 original size:17 final size:18
Alignment explanation
Indices: 17756274--17756307 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17756264 CCACGCCACC
*
17756274 ACTG-CCTCCATCACCCA
1 ACTGCCCTCCACCACCCA
17756291 ACTGCCCTCCACCACCC
1 ACTGCCCTCCACCACCC
17756308 CCAGTCACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.59, G:0.06, T:0.15
Consensus pattern (18 bp):
ACTGCCCTCCACCACCCA
Found at i:17757748 original size:2 final size:2
Alignment explanation
Indices: 17757741--17757768 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17757731 GGAAAGCAAT
17757741 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
17757769 AAAGGAGAGG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17760836 original size:6 final size:6
Alignment explanation
Indices: 17760815--17760848 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
17760805 CATATTTCCA
17760815 AATTA- AATTGAT AATTAT AATTAT AATTAT AATT
1 AATTAT AATT-AT AATTAT AATTAT AATTAT AATT
17760849 GCTAACTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
AATTAT
Found at i:17761766 original size:50 final size:48
Alignment explanation
Indices: 17761698--17761792 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 48
17761688 AGAATGAAAC
*
17761698 TGTAATAATAATAAAATATATCTTTGAAAAAAGTTATAAACAAAAAAAAT
1 TGTAATAATAATAAAATATATC-TTGAAAAAAATTATAAA-AAAAAAAAT
* * *
17761748 TGTAATAGTAATATAATATATCTTGAAAAAAATTATTAAAAAAAA
1 TGTAATAATAATAAAATATATCTTGAAAAAAATTATAAAAAAAAA
17761793 TTTATGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 6 0.15
49 15 0.37
50 20 0.49
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (48 bp):
TGTAATAATAATAAAATATATCTTGAAAAAAATTATAAAAAAAAAAAT
Found at i:17762260 original size:27 final size:25
Alignment explanation
Indices: 17762229--17762289 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 25
17762219 GGTAAACAAC
*
17762229 TAAATTATTTATTAAAAAAATAATTTT
1 TAAATTATTT-TTAAAAAAA-AATCTT
*
17762256 TAAA-T-TTTTTAAAAATAAATCTT
1 TAAATTATTTTTAAAAAAAAATCTT
17762279 TAAATTGATTT
1 TAAATT-ATTT
17762290 GATTTTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
23 9 0.31
24 9 0.31
25 3 0.10
26 4 0.14
27 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TAAATTATTTTTAAAAAAAAATCTT
Found at i:17762262 original size:24 final size:23
Alignment explanation
Indices: 17762235--17762284 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
17762225 CAACTAAATT
*
17762235 ATTTATTAAAAAAATAATTTTTAA
1 ATTTATTAAAAAAA-AATCTTTAA
* *
17762259 ATTTTTTAAAAATAAATCTTTAA
1 ATTTATTAAAAAAAAATCTTTAA
17762282 ATT
1 ATT
17762285 GATTTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTATTAAAAAAAAATCTTTAA
Found at i:17762374 original size:25 final size:24
Alignment explanation
Indices: 17762346--17762409 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 24
17762336 AAATTACCTA
*
17762346 ATTTATAATTAAAAGAAACTATCTT
1 ATTT-TAATTAAAAGAAACTATCAT
*
17762371 ATTTT--TTAAAA-AAATTATCAT
1 ATTTTAATTAAAAGAAACTATCAT
17762392 ATTTGTAATTTAAAAGAA
1 ATTT-TAA-TTAAAAGAA
17762410 TTATTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 12 0.38
22 7 0.22
24 1 0.03
25 10 0.31
26 2 0.06
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (24 bp):
ATTTTAATTAAAAGAAACTATCAT
Found at i:17762516 original size:23 final size:22
Alignment explanation
Indices: 17762490--17762542 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
17762480 TGATTTTTTT
17762490 ATAAAGAATATTATA-ATACAAAA
1 ATAAAGAATATT-TAGATAC-AAA
*
17762513 ATAAA-AAAATTTAGATACAAA
1 ATAAAGAATATTTAGATACAAA
*
17762534 ATTAAGAAT
1 ATAAAGAAT
17762543 TATTGTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (22 bp):
ATAAAGAATATTTAGATACAAA
Found at i:17762798 original size:2 final size:2
Alignment explanation
Indices: 17762791--17762821 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17762781 GACGGGATAG
17762791 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
17762822 ATTCAAGTAC
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:17762918 original size:2 final size:2
Alignment explanation
Indices: 17762905--17762936 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17762895 TACTTGAAAC
*
17762905 AT AT AC 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
17762937 TCTTTCTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17768542 original size:21 final size:21
Alignment explanation
Indices: 17768513--17768552 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17768503 ATTAAACTTT
17768513 TTATCATATATGCATATATGA
1 TTATCATATATGCATATATGA
* *
17768534 TTATTATATATTCATATAT
1 TTATCATATATGCATATAT
17768553 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (21 bp):
TTATCATATATGCATATATGA
Found at i:17768715 original size:2 final size:2
Alignment explanation
Indices: 17768708--17768735 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17768698 TTTTAAATAA
17768708 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
17768736 TATGGAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17770085 original size:128 final size:124
Alignment explanation
Indices: 17769857--17770105 Score: 367
Period size: 128 Copynumber: 2.0 Consensus size: 124
17769847 TAACTGGAAC
* **
17769857 ACTACCCTGCTTTATCGAAGGATTTTTTCTAAAATTTTTATAAAAAATAATTTTTTAATTTTTAT
1 ACTACCCTGCTTTATCGAAGGATTTTTTCTAAAATTCTTATAAAAAATAATTTTAAAATTTTTAT
*
17769922 CTTTTTTATTTCTTAGATTTTTGAGATTTAAAAAAAAAAAAAAAAGAGTTTAGATCTTAGAAA
66 CTTTTTTATTTCTTAAATTTTTGAGATTT----AAAAAAAAAAAAGAGTTTAGATCTTAGAAA
*
17769985 ACTACCCTGCTTTATC-ATTGGATTTTTTCTAAAATTCTTATAAAAAAATAATTTTAAAATTTTT
1 ACTACCCTGCTTTATCGA-AGGATTTTTTCTAAAATTCTTAT-AAAAAATAATTTTAAAA-TTTT
*
17770049 TATCTTTTTTATTTCTTAAATTTTTTAGATTT-AAAAAAAAAAAGAGTTTAGATCTTA
63 TATCTTTTTTATTTCTTAAATTTTTGAGATTTAAAAAAAAAAAAGAGTTTAGATCTTA
17770106 TATGTGTTTG
Statistics
Matches: 112, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
125 25 0.22
127 1 0.01
128 37 0.33
129 15 0.13
130 34 0.30
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.46
Consensus pattern (124 bp):
ACTACCCTGCTTTATCGAAGGATTTTTTCTAAAATTCTTATAAAAAATAATTTTAAAATTTTTAT
CTTTTTTATTTCTTAAATTTTTGAGATTTAAAAAAAAAAAAGAGTTTAGATCTTAGAAA
Found at i:17770164 original size:18 final size:16
Alignment explanation
Indices: 17770141--17770191 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
17770131 GAGATAAAAT
17770141 AATTTATTTATTAGTTAA
1 AATTTATTTATT--TTAA
17770159 AATTTATCTT-TTTTAA
1 AATTTAT-TTATTTTAA
*
17770175 AATTTATATATTTTAA
1 AATTTATTTATTTTAA
17770191 A
1 A
17770192 TTATTAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.03
16 18 0.60
18 9 0.30
19 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
AATTTATTTATTTTAA
Found at i:17772228 original size:29 final size:29
Alignment explanation
Indices: 17772186--17772242 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
17772176 ATAAAGAAAG
*
17772186 TTACAAAGAGATGATGTCTCCTTAGCTTA
1 TTACAAAGAGATGATGTCTCCTCAGCTTA
*
17772215 TTACTAAGAGATGATGTCTCCTCAGCTT
1 TTACAAAGAGATGATGTCTCCTCAGCTT
17772243 CGATACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (29 bp):
TTACAAAGAGATGATGTCTCCTCAGCTTA
Found at i:17775030 original size:6 final size:6
Alignment explanation
Indices: 17775013--17775042 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
17775003 ATTGCATAAA
17775013 ATTTAT -TTTAT ATTTAT ATTTAT ATTTAT A
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT A
17775043 AATGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:17777043 original size:20 final size:20
Alignment explanation
Indices: 17777018--17777057 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
17777008 CGGGCTTTTT
17777018 TTTAGTTTATGGTATAAAGA
1 TTTAGTTTATGGTATAAAGA
17777038 TTTAGTTTATGGTATAAAGA
1 TTTAGTTTATGGTATAAAGA
17777058 AAAGGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
TTTAGTTTATGGTATAAAGA
Found at i:17777606 original size:12 final size:12
Alignment explanation
Indices: 17777589--17777640 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
17777579 TTTTATCTTG
17777589 ATTATATATTAA
1 ATTATATATTAA
* *
17777601 ATTATATTTTTA
1 ATTATATATTAA
*
17777613 ATTATTTA-TATA
1 ATTATATATTA-A
*
17777625 ATTATATATTAT
1 ATTATATATTAA
17777637 ATTA
1 ATTA
17777641 ATTAAGTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
11 1 0.03
12 28 0.90
13 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATATATTAA
Found at i:17778337 original size:17 final size:17
Alignment explanation
Indices: 17778303--17778343 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
17778293 TTGCTCATCC
**
17778303 TTCTTTTTTTTTTTTTT
1 TTCTTTTTTTTTAGTTT
17778320 TTCTTTTTTTTTAGTTT
1 TTCTTTTTTTTTAGTTT
17778337 TT-TTTTT
1 TTCTTTTT
17778344 AGTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.02, C:0.05, G:0.02, T:0.90
Consensus pattern (17 bp):
TTCTTTTTTTTTAGTTT
Found at i:17778338 original size:12 final size:12
Alignment explanation
Indices: 17778309--17778351 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
17778299 ATCCTTCTTT
**
17778309 TTTTTTTTTTTT
1 TTTTTTTTTTAG
17778321 TCTTTTTTTTTAG
1 T-TTTTTTTTTAG
17778334 TTTTTTTTTTAG
1 TTTTTTTTTTAG
17778346 TTTTTT
1 TTTTTT
17778352 AATATTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.64
13 10 0.36
ACGTcount: A:0.05, C:0.02, G:0.05, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTAG
Found at i:17778349 original size:11 final size:11
Alignment explanation
Indices: 17778312--17778351 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
17778302 CTTCTTTTTT
**
17778312 TTTTTTTTTTC
1 TTTTTTTTTAG
17778323 TTTTTTTTTAG
1 TTTTTTTTTAG
17778334 TTTTTTTTTTAG
1 -TTTTTTTTTAG
17778346 TTTTTT
1 TTTTTT
17778352 AATATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.88
Consensus pattern (11 bp):
TTTTTTTTTAG
Found at i:17778439 original size:10 final size:11
Alignment explanation
Indices: 17778419--17778457 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17778409 GCTTTTATCA
17778419 TTTTTATTTTT
1 TTTTTATTTTT
17778430 TTTTTATTTTT
1 TTTTTATTTTT
**
17778441 TTTCCATTTTCT
1 TTTTTATTTT-T
17778453 TTTTT
1 TTTTT
17778458 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTATTTTT
Found at i:17778611 original size:14 final size:14
Alignment explanation
Indices: 17778592--17778618 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17778582 TTATATTATG
17778592 CTTTTTCTTTTTTA
1 CTTTTTCTTTTTTA
17778606 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
17778619 TTTCTCAGTT
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:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
CTTTTTCTTTTTTA
Found at i:17779376 original size:7 final size:7
Alignment explanation
Indices: 17779364--17779390 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17779354 TATACTAATA
17779364 TTTTTTC
1 TTTTTTC
17779371 TTTTTTC
1 TTTTTTC
17779378 TTTTTTC
1 TTTTTTC
17779385 TTTTTT
1 TTTTTT
17779391 TTTGACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:17779517 original size:15 final size:14
Alignment explanation
Indices: 17779474--17779517 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
17779464 ATACCATGTG
*
17779474 TTTGCTTTTTATACT
1 TTTGCTTTTTTTA-T
*
17779489 TTTTCTTTTTTTAT
1 TTTGCTTTTTTTAT
17779503 TTTGCTTTTTCTTAT
1 TTTGCTTTTT-TTAT
17779518 ATATTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.09, C:0.11, G:0.05, T:0.75
Consensus pattern (14 bp):
TTTGCTTTTTTTAT
Found at i:17780552 original size:10 final size:10
Alignment explanation
Indices: 17780539--17780582 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
17780529 TTGAATTGAA
17780539 TTATATATTT
1 TTATATATTT
17780549 TTAT-TAGTTT
1 TTATATA-TTT
17780559 TTATATATTT
1 TTATATATTT
*
17780569 TT-TAAATTT
1 TTATATATTT
17780578 TTATA
1 TTATA
17780583 AAATAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 10 0.33
10 18 0.60
11 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTATATATTT
Found at i:17780634 original size:21 final size:24
Alignment explanation
Indices: 17780601--17780655 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
17780591 ATAATTATTT
* *
17780601 TATATATAAATC-TATTTAAAT-A
1 TATATAAAAATCTTATTAAAATAA
17780623 TAT-TAAAAATCTTATTAAAATAA
1 TATATAAAAATCTTATTAAAATAA
17780646 TATATAAAAA
1 TATATAAAAA
17780656 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 11 0.39
23 4 0.14
24 6 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TATATAAAAATCTTATTAAAATAA
Found at i:17780879 original size:13 final size:12
Alignment explanation
Indices: 17780847--17780885 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
17780837 GATATATAAA
17780847 TATATATTTTAT
1 TATATATTTTAT
*
17780859 TATTTATTTTAAT
1 TATATATTTT-AT
*
17780872 TATATATTATAT
1 TATATATTTTAT
17780884 TA
1 TA
17780886 ATAAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATATTTTAT
Found at i:17782618 original size:22 final size:22
Alignment explanation
Indices: 17782590--17782641 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
17782580 CTATTACACT
* *
17782590 AAAAAATTAAAAAAAAAAAGTC
1 AAAAAATGAAAAAAAAAAAGGC
* *
17782612 AAAAAATGATAAAAAAAAAGGG
1 AAAAAATGAAAAAAAAAAAGGC
17782634 AAAAAATG
1 AAAAAATG
17782642 GATGTGGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (22 bp):
AAAAAATGAAAAAAAAAAAGGC
Found at i:17783387 original size:15 final size:14
Alignment explanation
Indices: 17783360--17783393 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
17783350 TATGAAAAAC
17783360 ATAA-AAAATATAA
1 ATAATAAAATATAA
17783373 ATAATAAAATAATAA
1 ATAATAAAAT-ATAA
17783388 ATAATA
1 ATAATA
17783394 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 5 0.26
15 10 0.53
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAATAAAATATAA
Found at i:17783412 original size:24 final size:23
Alignment explanation
Indices: 17783363--17783426 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
17783353 GAAAAACATA
* *
17783363 AAAAATATAAATAATAAAATAAT
1 AAAAATATAAAAAATATAATAAT
**
17783386 AAATAATATAAAAAATATAATTCT
1 AAA-AATATAAAAAATATAATAAT
17783410 AAAAATA-AATAAAATAT
1 AAAAATATAA-AAAATAT
17783427 CCAAGGATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 2 0.06
23 14 0.40
24 19 0.54
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAATATAAAAAATATAATAAT
Found at i:17788105 original size:22 final size:22
Alignment explanation
Indices: 17788080--17788123 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17788070 GAGATTATAG
17788080 GCCACACTTATGTTGATAAGTT
1 GCCACACTTATGTTGATAAGTT
17788102 GCCACACTTATGTTGATAAGTT
1 GCCACACTTATGTTGATAAGTT
17788124 ATTGATCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (22 bp):
GCCACACTTATGTTGATAAGTT
Found at i:17792484 original size:22 final size:21
Alignment explanation
Indices: 17792459--17792508 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
17792449 AAGATAAGAT
17792459 TTTTGAAACAAAAAGTGAAAA
1 TTTTGAAACAAAAAGTGAAAA
* **
17792480 CTTTTAAAACGGAAAGTGAAAA
1 -TTTTGAAACAAAAAGTGAAAA
17792502 TTTTGAA
1 TTTTGAA
17792509 GTGAAAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (21 bp):
TTTTGAAACAAAAAGTGAAAA
Found at i:17792870 original size:22 final size:21
Alignment explanation
Indices: 17792840--17792894 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
17792830 AGATGTCGAG
*
17792840 ATTTGTAAGATCTTT-GAGCATA
1 ATTT-TAAGA-CTTTCGACCATA
17792862 ATTTCTAAGACTTTCGACCATA
1 ATTT-TAAGACTTTCGACCATA
17792884 ATCTTTAAGAC
1 AT-TTTAAGAC
17792895 CTCATGACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.14
22 23 0.79
23 2 0.07
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
ATTTTAAGACTTTCGACCATA
Found at i:17793060 original size:104 final size:103
Alignment explanation
Indices: 17792880--17793153 Score: 284
Period size: 104 Copynumber: 2.6 Consensus size: 103
17792870 GACTTTCGAC
* * * * *
17792880 CATAATCTTTAAGACC-TCATGACAAAACATTTTAAATTTTTAAAGTTTCAATGTCTCTGATTAG
1 CATAATCTCTAAGACCTTTA-GGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAG
* * * * *
17792944 AAGAACTTTCATATAT-TTGAAGATTTGTAATATCTTCGA-G
65 -AGAACTCTCATAGATGTTG-AGATTTATAAGA-CATCGAGG
* * ** * *
17792984 CATAATCTCTAATATCTTTAGGCAAAACATTTTAAATCATTAAAGTTTCAATGCCTTTTATTAGA
1 CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
* *
17793049 GAAGCTCTCATAGGTGTTGAGATTTATAAGACATCTAGG
66 GAA-CTCTCATAGATGTTGAGATTTATAAGACATCGAGG
* * * *
17793088 CATAATCTTTAAGACCTTTAGGTAAAATATTTTAAATTTTTAAAATTTCAATGACTTTGATTAGA
1 CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
17793153 G
66 G
17793154 GAGATTTCGT
Statistics
Matches: 139, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
103 8 0.06
104 126 0.91
105 5 0.04
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (103 bp):
CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
GAACTCTCATAGATGTTGAGATTTATAAGACATCGAGG
Found at i:17793177 original size:104 final size:102
Alignment explanation
Indices: 17792880--17793208 Score: 275
Period size: 104 Copynumber: 3.2 Consensus size: 102
17792870 GACTTTCGAC
* * * * *
17792880 CATAATCTTTAAGACC-TCATGACAAAACATTTTAAATTTTTAAAGTTTCAATGTCTCTGATTAG
1 CATAATCTCTAAGACCTTTA-GGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAG
* * * * * * *
17792944 AAGA-ACTTTCATATATTTGAAGATTTGTAATATCTTCGAG
65 AGGAGA-TTTCATAAATGT-AGGATTTGTAAGA-CATCTAG
* * ** * *
17792984 CATAATCTCTAATATCTTTAGGCAAAACATTTTAAATCATTAAAGTTTCAATGCCTTTTATTAGA
1 CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
* * * ** * *
17793049 GAAGCTCTCATAGGTGTTGAGATTTATAAGACATCTAGG
66 GGAGATTTCATAAATGTAG-GATTTGTAAGACATCTA-G
* * * *
17793088 CATAATCTTTAAGACCTTTAGGTAAAATATTTTAAATTTTTAAAATTTCAATGACTTTGATTAGA
1 CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
* * *
17793153 GGAGATTTCGTAAATGTCAGGATTTGTAAGACCTTTAAG
66 GGAGATTTCATAAATGT-AGGATTTGTAAGACATCT-AG
*
17793192 CATAATCTCTAAAACCT
1 CATAATCTCTAAGACCT
17793209 CCAAGTGTGA
Statistics
Matches: 174, Mismatches: 45, Indels: 12
0.75 0.19 0.05
Matches are distributed among these distances:
103 4 0.02
104 166 0.95
105 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (102 bp):
CATAATCTCTAAGACCTTTAGGCAAAACATTTTAAATTTTTAAAGTTTCAATGACTTTGATTAGA
GGAGATTTCATAAATGTAGGATTTGTAAGACATCTAG
Found at i:17795728 original size:258 final size:259
Alignment explanation
Indices: 17795256--17795770 Score: 784
Period size: 258 Copynumber: 2.0 Consensus size: 259
17795246 TAAAATATAG
** *
17795256 ATAGTTCCACACATATAAAAAATATAATGAGTTGTCTAAGCATTCTAGACATTAACACAATTAAA
1 ATAGTTCCACACATATAAAAAATATAAAAAGTTGTCTAAGCATTCTAGACATTAACACAAATAAA
* **
17795321 GTCTTATCGTTACACTTTTGTCAAAGTCTTGATATTTTCAAGTTCAATAAAGTCTTGCTTTACAA
66 GTCTTATCATTACACTTTTGTCAAAGTCTTGATATTTTCAAGTTCAATAAAGTCTCACTTTACAA
* * *
17795386 TCTTTTAAATACACACGCTCTTCAAAAATAATTGCATTTGAACTTTTTACATTTGAAAATTATTT
131 TCTTTTAAATACACACGCTCTTCAAAAATAATTGCATCTAAACTCTTTACATTTGAAAATTATTT
17795451 TTACCATCAAACTTGAAAATTGAACACTGCATATACTGTATATTGGCAGTCATCCTAAGAACAA
196 TTACCATCAAACTTGAAAATTGAACACTGCATATACTGTATATTGGCAGTCATCCTAAGAACAA
* * *
17795515 ATAGTTTCATACAT-TAAAAAATATAAAAAGTTGTCTAAGCATTATTA-ACATTAACACAAATAA
1 ATAGTTCCACACATATAAAAAATATAAAAAGTTGTCTAAGCATT-CTAGACATTAACACAAATAA
* ** *
17795578 ATTCTCT-TCATTATGCTTTTGTCAAAGTCTTGATATTTTCAAGTTCAATAAAGTCTCATTTTAC
65 AGTCT-TATCATTACACTTTTGTCAAAGTCTTGATATTTTCAAGTTCAATAAAGTCTCACTTTAC
* * * * *
17795642 GATCTTTTAAATACACATGCTTTTCAAAAATAATTGCATCTAAACTCTTTGCTTTTGAAAATTAT
129 AATCTTTTAAATACACACGCTCTTCAAAAATAATTGCATCTAAACTCTTTACATTTGAAAATTAT
* *
17795707 TTTTACCATCAAACTTGAAAATTGAACATTGCATGTACTGTATATTGGCAGTCATCCTAAGAAC
194 TTTTACCATCAAACTTGAAAATTGAACACTGCATATACTGTATATTGGCAGTCATCCTAAGAAC
17795771 TTATGGCCTT
Statistics
Matches: 231, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
258 216 0.94
259 15 0.06
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (259 bp):
ATAGTTCCACACATATAAAAAATATAAAAAGTTGTCTAAGCATTCTAGACATTAACACAAATAAA
GTCTTATCATTACACTTTTGTCAAAGTCTTGATATTTTCAAGTTCAATAAAGTCTCACTTTACAA
TCTTTTAAATACACACGCTCTTCAAAAATAATTGCATCTAAACTCTTTACATTTGAAAATTATTT
TTACCATCAAACTTGAAAATTGAACACTGCATATACTGTATATTGGCAGTCATCCTAAGAACAA
Found at i:17796171 original size:16 final size:17
Alignment explanation
Indices: 17796152--17796192 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
17796142 ATTTATCTAC
17796152 TCATGAATATA-GGTAT
1 TCATGAATATATGGTAT
*
17796168 TCATGAATCTATGGTAT
1 TCATGAATATATGGTAT
17796185 TCATGAAT
1 TCATGAAT
17796193 TCAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (17 bp):
TCATGAATATATGGTAT
Found at i:17796465 original size:26 final size:27
Alignment explanation
Indices: 17796427--17796513 Score: 94
Period size: 26 Copynumber: 3.3 Consensus size: 27
17796417 TTCTTTTATG
*
17796427 TTATCTTTATTTTATCTTTATT-TCAT
1 TTATCTTTATTTTATCTTTATTCTAAT
*
17796453 TTATCTTTGTTTTAT-TTTACTTCTAAT
1 TTATCTTTATTTTATCTTTA-TTCTAAT
*
17796480 TT-TCTTTATCTTTATCTTTA-T-TATT
1 TTATCTTTAT-TTTATCTTTATTCTAAT
17796505 TTATCTTTA
1 TTATCTTTA
17796514 CCTATTGCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
25 9 0.17
26 29 0.56
27 10 0.19
28 4 0.08
ACGTcount: A:0.18, C:0.11, G:0.01, T:0.69
Consensus pattern (27 bp):
TTATCTTTATTTTATCTTTATTCTAAT
Found at i:17796466 original size:11 final size:11
Alignment explanation
Indices: 17796390--17796501 Score: 81
Period size: 11 Copynumber: 10.2 Consensus size: 11
17796380 ATGTCCATTT
* *
17796390 TTTTATCATTG
1 TTTTATCTTTA
*
17796401 TTTTATCATTA
1 TTTTATCTTTA
17796412 TTTTATTCTTTTA
1 TTTTA-TC-TTTA
*
17796425 TGTTATCTTTA
1 TTTTATCTTTA
17796436 TTTTATCTTTA
1 TTTTATCTTTA
*
17796447 TTTCA--TTTA
1 TTTTATCTTTA
*
17796456 TCTTTGT-TTTA
1 T-TTTATCTTTA
17796467 TTTTA-CTTCTA
1 TTTTATCTT-TA
*
17796478 ATTT-TCTTTA
1 TTTTATCTTTA
17796488 TCTTTATCTTTA
1 T-TTTATCTTTA
17796500 TT
1 TT
17796502 ATTTTATCTT
Statistics
Matches: 82, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
9 5 0.06
10 9 0.11
11 50 0.61
12 11 0.13
13 7 0.09
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTATCTTTA
Found at i:17796469 original size:15 final size:15
Alignment explanation
Indices: 17796427--17796513 Score: 63
Period size: 15 Copynumber: 5.5 Consensus size: 15
17796417 TTCTTTTATG
17796427 TTATCTTTATTTTATCT
1 TTAT-TTTA-TTTATCT
*
17796444 TTATTTCATTTATCT
1 TTATTTTATTTATCT
*
17796459 TTGTTTTATTT-TACT
1 TTATTTTATTTAT-CT
*
17796474 TCTAATTTTCTTTATCT
1 T-T-ATTTTATTTATCT
17796491 TTATCTTTA-TTAT-T
1 TTAT-TTTATTTATCT
17796505 TTATCTTTA
1 TTAT-TTTA
17796514 CCTATTGCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
14 11 0.19
15 25 0.42
16 8 0.14
17 14 0.24
18 1 0.02
ACGTcount: A:0.18, C:0.11, G:0.01, T:0.69
Consensus pattern (15 bp):
TTATTTTATTTATCT
Found at i:17796509 original size:14 final size:15
Alignment explanation
Indices: 17796485--17796513 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17796475 CTAATTTTCT
17796485 TTATCTTTATCTTTA
1 TTATCTTTATCTTTA
17796500 TTAT-TTTATCTTTA
1 TTATCTTTATCTTTA
17796514 CCTATTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATCTTTATCTTTA
Found at i:17796513 original size:6 final size:6
Alignment explanation
Indices: 17796427--17796500 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
17796417 TTCTTTTATG
*
17796427 TTATCT TTAT-T TTATCT TTATTTCAT TTATCT TTGT-T TTAT-T TTA-CT
1 TTATCT TTATCT TTATCT TTA--TC-T TTATCT TTATCT TTATCT TTATCT
*
17796474 TCTA-AT TT-TCT TTATCT TTATCT TTAT
1 T-TATCT TTATCT TTATCT TTATCT TTAT
17796501 TATTTTATCT
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
5 19 0.34
6 29 0.52
7 2 0.04
8 2 0.04
9 4 0.07
ACGTcount: A:0.18, C:0.12, G:0.01, T:0.69
Consensus pattern (6 bp):
TTATCT
Found at i:17797125 original size:4 final size:5
Alignment explanation
Indices: 17797089--17797124 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
17797079 GCTGGTATAT
17797089 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTA -TTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
17797125 AAGAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.27
5 22 0.73
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Done.