Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 84 of 129
Found at i:15096570 original size:14 final size:14
Alignment explanation
Indices: 15096513--15096580 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
15096503 TTAATTATAT
15096513 TATAAATAATTAATA
1 TATAAAT-ATTAATA
* *
15096528 GTATAATTAATAA-A
1 -TATAAATATTAATA
15096542 TATTAAAATTATTAATA
1 TA-T-AAA-TATTAATA
*
15096559 TATGAATATTAATA
1 TATAAATATTAATA
15096573 TATAAATA
1 TATAAATA
15096581 ATATAGGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
13 2 0.05
14 17 0.40
15 8 0.19
16 12 0.29
17 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (14 bp):
TATAAATATTAATA
Found at i:15096584 original size:23 final size:23
Alignment explanation
Indices: 15096521--15096585 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 23
15096511 ATTATAAATA
*
15096521 ATTAATAGTATAATTAATA-AAT
1 ATTAATAGTATAAATAATATAAT
* * *
15096543 ATTAAAATTATTAAT-ATATGAAT
1 ATTAATAGTATAAATAATAT-AAT
15096566 ATTAATA-TATAAATAATATA
1 ATTAATAGTATAAATAATATA
15096586 GGTTGATACC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 18 0.53
23 13 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (23 bp):
ATTAATAGTATAAATAATATAAT
Found at i:15097250 original size:27 final size:27
Alignment explanation
Indices: 15097201--15097266 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
15097191 TTTAATCTTC
*
15097201 ATTTAA-ATTAATTTAAATAATAATAAT
1 ATTTAATAATAATTTAAATAATAAT-AT
*
15097228 ATTTAATAATAATTTAAGT-ATAATAT
1 ATTTAATAATAATTTAAATAATAATAT
*
15097254 AATTAATAA-AATT
1 ATTTAATAATAATT
15097267 ATATTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.11
26 10 0.29
27 11 0.31
28 10 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTTAATAATAATTTAAATAATAATAT
Found at i:15097269 original size:20 final size:20
Alignment explanation
Indices: 15097246--15097288 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
15097236 ATAATTTAAG
15097246 TATAATATAATTA-ATAAAAT
1 TATAATAT-ATTAGATAAAAT
* *
15097266 TATATTATATTAGATAATAT
1 TATAATATATTAGATAAAAT
15097286 TAT
1 TAT
15097289 TAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TATAATATATTAGATAAAAT
Found at i:15097580 original size:19 final size:19
Alignment explanation
Indices: 15097558--15097603 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
15097548 TACAGATTAA
15097558 ATAATTTATAATATT-AATT
1 ATAATTTA-AATATTAAATT
15097577 ATAATATTAAATATTAAATT
1 ATAAT-TTAAATATTAAATT
15097597 ATAATTT
1 ATAATTT
15097604 TCATATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATTTAAATATTAAATT
Found at i:15097584 original size:36 final size:39
Alignment explanation
Indices: 15097524--15097595 Score: 96
Period size: 36 Copynumber: 1.9 Consensus size: 39
15097514 TAATTTTTTA
*
15097524 TTATAATATTAATAATTAATATATTACAGATTAAATAAT
1 TTATAATATTAATAATTAATATATTAAAGATTAAATAAT
* *
15097563 TTATAATATTAATTA-T-A-ATATTAAATATTAAAT
1 TTATAATATTAATAATTAATATATTAAAGATTAAAT
15097596 TATAATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 14 0.47
37 1 0.03
38 1 0.03
39 14 0.47
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (39 bp):
TTATAATATTAATAATTAATATATTAAAGATTAAATAAT
Found at i:15097599 original size:32 final size:29
Alignment explanation
Indices: 15097563--15097621 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 29
15097553 ATTAAATAAT
15097563 TTATAATATTAATTATAATATTAAATATTAAA
1 TTATAATATTAA-TATAA-A-TAAATATTAAA
* *
15097595 TTATAATTTTCATATAAATAAATATTA
1 TTATAATATTAATATAAATAAATATTA
15097622 TTATATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.36
30 1 0.04
31 5 0.20
32 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATAATATTAATATAAATAAATATTAAA
Found at i:15097609 original size:19 final size:19
Alignment explanation
Indices: 15097558--15097613 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
15097548 TACAGATTAA
15097558 ATAATTTATAATATT-AATT
1 ATAATTT-TAATATTAAATT
*
15097577 ATAATATTAAATATTAAATT
1 ATAAT-TTTAATATTAAATT
*
15097597 ATAATTTTCATA-TAAAT
1 ATAATTTTAATATTAAAT
15097614 AAATATTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.16
19 16 0.50
20 11 0.34
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATTTTAATATTAAATT
Found at i:15097740 original size:8 final size:8
Alignment explanation
Indices: 15097727--15097753 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15097717 TAACAAATAC
15097727 TATTTTAA
1 TATTTTAA
15097735 TATTTTAA
1 TATTTTAA
15097743 TATTTTAA
1 TATTTTAA
15097751 TAT
1 TAT
15097754 ATTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:15098726 original size:17 final size:16
Alignment explanation
Indices: 15098704--15098735 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15098694 TATAAATAAT
15098704 ATAATATTTGATTATTA
1 ATAATATTT-ATTATTA
15098721 ATAATATTTATTATT
1 ATAATATTTATTATT
15098736 TTATTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
ATAATATTTATTATTA
Found at i:15099278 original size:23 final size:20
Alignment explanation
Indices: 15099232--15099288 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 20
15099222 GTCATTAATA
15099232 ATAATACTATAAATTAATATTT
1 ATAATA-TATAAA-TAATATTT
15099254 ATTAATATATAAATAATATAATT
1 A-TAATATATAAATAATAT--TT
15099277 ATAAT-TATAAAT
1 ATAATATATAAAT
15099289 TGATAATTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 13 0.41
22 11 0.34
23 8 0.25
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATATAAATAATATTT
Found at i:15099446 original size:15 final size:15
Alignment explanation
Indices: 15099422--15099456 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15099412 TTATATAAAC
*
15099422 AATAATTAATATTCG
1 AATAACTAATATTCG
*
15099437 AATAACTAATATTTG
1 AATAACTAATATTCG
15099452 AATAA
1 AATAA
15099457 ATAAAATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (15 bp):
AATAACTAATATTCG
Found at i:15099699 original size:16 final size:15
Alignment explanation
Indices: 15099680--15099719 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
15099670 AATTAAATAT
15099680 TATTTAATTATTTAAA
1 TATTTAATTATTT-AA
*
15099696 TATTCTATTTATTTAA
1 TATT-TAATTATTTAA
15099712 TATTTAAT
1 TATTTAAT
15099720 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 10 0.48
17 8 0.38
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTAATTATTTAA
Found at i:15099745 original size:5 final size:4
Alignment explanation
Indices: 15099720--15099766 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
15099710 AATATTTAAT
*
15099720 ATTA ATTA ATTAA ATTG ATTA TATTA ATTA ATATA ATT- ATTA ATTA A
1 ATTA ATTA ATT-A ATTA ATTA -ATTA ATTA AT-TA ATTA ATTA ATTA A
15099767 GTTTACTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 22 0.59
5 12 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:15099745 original size:22 final size:21
Alignment explanation
Indices: 15099718--15099803 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 21
15099708 TTAATATTTA
15099718 ATATTAATTAAT-TAAATTGATT
1 ATATTAATTAATAT-AATT-ATT
15099740 ATATTAATTAATATAATTATT
1 ATATTAATTAATATAATTATT
*
15099761 A-ATTAAGTTTACTATAATATAATT
1 ATATTAA--TTAATATAAT-T-ATT
*
15099785 ATTATTAATAAGATATAAT
1 A-TATTAATTA-ATATAAT
15099804 AAAGGATAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
20 5 0.09
21 4 0.08
22 25 0.47
23 2 0.04
24 6 0.11
25 6 0.11
26 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (21 bp):
ATATTAATTAATATAATTATT
Found at i:15099761 original size:38 final size:37
Alignment explanation
Indices: 15099664--15099766 Score: 97
Period size: 38 Copynumber: 2.7 Consensus size: 37
15099654 ATTAATTTGC
* *
15099664 TATTTAAATTAA-AT-ATTATTTAATTATTTAAATATTC
1 TATTT-AATTAATATAATTA-TTAATTAATTAAATATTA
*
15099701 TATTTATTTAATATTTAA-TATTAATTAATTAAATTGATTA
1 TATTTAATTAATA--TAATTATTAATTAATTAAA-T-ATTA
15099741 TA-TTAATTAATATAATTATTAATTAA
1 TATTTAATTAATATAATTATTAATTAA
15099767 GTTTACTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
36 5 0.09
37 9 0.16
38 22 0.40
39 13 0.24
40 6 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
TATTTAATTAATATAATTATTAATTAATTAAATATTA
Found at i:15099873 original size:17 final size:17
Alignment explanation
Indices: 15099851--15100114 Score: 71
Period size: 17 Copynumber: 15.7 Consensus size: 17
15099841 CTATTTTCAA
15099851 AATAATAATTAATTATT
1 AATAATAATTAATTATT
*
15099868 AATAAT-TTTAA--A-T
1 AATAATAATTAATTATT
*
15099881 AGT--TAA-TAATTATT
1 AATAATAATTAATTATT
*
15099895 TATAATAATTAATCTATT
1 AATAATAATTAAT-TATT
*
15099913 ATTAAT-ATTATATTATAT
1 AATAATAATTA-ATTAT-T
* *
15099931 ATTAATAAAGTAATCTAGTT
1 AATAAT-AATTAAT-TA-TT
* *
15099951 AAAAATTATTAATTA--
1 AATAATAATTAATTATT
*
15099966 AA-AATGAATTAAGATTAGT
1 AATAAT-AATT-A-ATTATT
*
15099985 AA-ATATAATTAAATATTT
1 AATA-ATAATTAATTA-TT
** *
15100003 ATATTTTAATTAATTATG
1 A-ATAATAATTAATTATT
*
15100021 AATAATAATTAAAATATT
1 AATAATAATT-AATTATT
* *
15100039 CATAATAATCT-ATTATG
1 AATAATAAT-TAATTATT
*
15100056 AATAATAATTTAA-AATT
1 AATAATAA-TTAATTATT
* *
15100073 AAT-CTATATAAATTATT
1 AATAATA-ATTAATTATT
*
15100090 -ATAAT-ATTTATTATT
1 AATAATAATTAATTATT
15100105 -ATAAT-ATTAA
1 AATAATAATTAA
15100115 CGATTTTCTT
Statistics
Matches: 181, Mismatches: 36, Indels: 62
0.65 0.13 0.22
Matches are distributed among these distances:
11 4 0.02
13 4 0.02
14 6 0.03
15 22 0.12
16 15 0.08
17 53 0.29
18 39 0.22
19 25 0.14
20 12 0.07
21 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (17 bp):
AATAATAATTAATTATT
Found at i:15099901 original size:20 final size:17
Alignment explanation
Indices: 15099865--15099907 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
15099855 ATAATTAATT
15099865 ATTAATAATTTTAAATA
1 ATTAATAATTTTAAATA
*
15099882 GTTAATAATTATTTATAATA
1 ATTAATAA-T-TTTA-AATA
15099902 ATTAAT
1 ATTAAT
15099908 CTATTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 1 0.05
19 4 0.19
20 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
ATTAATAATTTTAAATA
Found at i:15099918 original size:18 final size:19
Alignment explanation
Indices: 15099897--15099938 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
15099887 TAATTATTTA
15099897 TAATAATTA-ATCTAT-TAT
1 TAATAATTATAT-TATATAT
15099915 TAAT-ATTATATTATATAT
1 TAATAATTATATTATATAT
15099933 TAATAA
1 TAATAA
15099939 AGTAATCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.33
18 13 0.62
19 1 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATAATTATATTATATAT
Found at i:15100096 original size:15 final size:15
Alignment explanation
Indices: 15100078--15100111 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15100068 AAATTAATCT
15100078 ATATAAATTATTATA
1 ATATAAATTATTATA
**
15100093 ATATTTATTATTATA
1 ATATAAATTATTATA
15100108 ATAT
1 ATAT
15100112 TAACGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAAATTATTATA
Found at i:15100112 original size:15 final size:15
Alignment explanation
Indices: 15100084--15100112 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15100074 ATCTATATAA
15100084 ATTATTATAATATTT
1 ATTATTATAATATTT
15100099 ATTATTATAATATT
1 ATTATTATAATATT
15100113 AACGATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTATTATAATATTT
Found at i:15100694 original size:19 final size:18
Alignment explanation
Indices: 15100665--15100703 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
15100655 ACATTAGTTT
15100665 ATTAAAAATTAATTATTA
1 ATTAAAAATTAATTATTA
15100683 ATTAAAATATTAATTATTA
1 ATTAAAA-ATTAATTATTA
15100702 AT
1 AT
15100704 ATTTGAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAAAATTAATTATTA
Found at i:15100900 original size:18 final size:16
Alignment explanation
Indices: 15100865--15100904 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
15100855 TTATTGCGAT
15100865 TTTAAATAGATAAATA
1 TTTAAATAGATAAATA
*
15100881 TTTAAATAGTCATAATTA
1 TTTAAATAG--ATAAATA
15100899 TTTAAA
1 TTTAAA
15100905 CTTGATCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (16 bp):
TTTAAATAGATAAATA
Found at i:15102379 original size:21 final size:21
Alignment explanation
Indices: 15102341--15102380 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15102331 ATCATAAATT
*
15102341 AAAATAATTTTAATTAATATG
1 AAAATAATTTTAACTAATATG
15102362 AAAATAA-TTTATACTAATA
1 AAAATAATTTTA-ACTAATA
15102381 ATATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AAAATAATTTTAACTAATATG
Found at i:15102690 original size:27 final size:26
Alignment explanation
Indices: 15102632--15102692 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
15102622 TATGAATAGT
* *
15102632 ATAATTAATTATTTAATTATATAATTA
1 ATAAATAATTATTTAATGATATAA-TA
15102659 ATAAATAATTATTTATATGATATAA-A
1 ATAAATAATTATTTA-ATGATATAATA
15102685 ATTAAATA
1 A-TAAATA
15102693 TTAACTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 20 0.67
28 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
ATAAATAATTATTTAATGATATAATA
Found at i:15103626 original size:14 final size:14
Alignment explanation
Indices: 15103588--15103628 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
15103578 ATTATTTATT
15103588 ATAATATTT-ATAA
1 ATAATATTTAATAA
* *
15103601 AT-TTATTAAATAA
1 ATAATATTTAATAA
15103614 ATAATATTTAATAA
1 ATAATATTTAATAA
15103628 A
1 A
15103629 ATATTAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.18
13 8 0.36
14 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATTTAATAA
Found at i:15103633 original size:26 final size:27
Alignment explanation
Indices: 15103588--15103688 Score: 75
Period size: 26 Copynumber: 3.7 Consensus size: 27
15103578 ATTATTTATT
*
15103588 ATAATATTTATAAATTTATTAA-ATAA
1 ATAATATTTATAAATATATTAATATAA
15103614 ATAATATTTAATAAA-ATATTAATATAA
1 ATAATATTT-ATAAATATATTAATATAA
* * *
15103641 TTATAAT-TGTAATTAATA-ATTAATATTA
1 --ATAATAT-TTATAAATATATTAATATAA
* *
15103669 ATCATATTATATAATTATAT
1 ATAATATT-TATAAATATAT
15103689 ATAGTACAGT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
26 20 0.34
27 15 0.26
28 16 0.28
29 7 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATAATATTTATAAATATATTAATATAA
Found at i:15103670 original size:17 final size:17
Alignment explanation
Indices: 15103622--15103670 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
15103612 AAATAATATT
15103622 TAATAA-AATATTAATA
1 TAATAATAATATTAATA
*
15103638 TAATTATAAT-TGTAAT-
1 TAATAATAATAT-TAATA
15103654 TAATAATTAATATTAAT
1 TAATAA-TAATATTAAT
15103671 CATATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 11 0.41
17 15 0.56
18 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATAATAATATTAATA
Found at i:15103823 original size:15 final size:16
Alignment explanation
Indices: 15103800--15103837 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15103790 ATATAAACAA
*
15103800 TAATATATAA-TATAC
1 TAATTTATAAGTATAC
*
15103815 TAATTTATAAGTATAT
1 TAATTTATAAGTATAC
15103831 TAATTTA
1 TAATTTA
15103838 AGTTTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAATTTATAAGTATAC
Found at i:15104002 original size:25 final size:24
Alignment explanation
Indices: 15103948--15104004 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
15103938 AAATATGTTC
*
15103948 ATTACAATTAATTATTATAATTAA
1 ATTATAATTAATTATTATAATTAA
* *
15103972 AATATAATTAAGTTCTTATAA-TATA
1 ATTATAATTAA-TTATTATAATTA-A
15103997 ATTATAAT
1 ATTATAAT
15104005 GGGCTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
ATTATAATTAATTATTATAATTAA
Found at i:15104046 original size:21 final size:21
Alignment explanation
Indices: 15104009--15104049 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15103999 TATAATGGGC
15104009 TAAATATAAATATTTAATTAG
1 TAAATATAAATATTTAATTAG
*
15104030 TAAATTATAATTA-TTAATTA
1 TAAA-TATAAATATTTAATTA
15104050 TAATTTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAATATAAATATTTAATTAG
Found at i:15104050 original size:13 final size:12
Alignment explanation
Indices: 15104032--15104066 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
15104022 TTAATTAGTA
15104032 AATTATAATTATT
1 AATTATAATT-TT
15104045 AATTATAATTTT
1 AATTATAATTTT
15104057 AA-TATAATTT
1 AATTATAATTT
15104067 AATATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 4 0.18
13 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTATAATTTT
Found at i:15104285 original size:30 final size:33
Alignment explanation
Indices: 15104237--15104302 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 33
15104227 ATCAGTTCAA
*
15104237 ATAATAATAATTATTATATTA-TA-TATA-AAT
1 ATAATAATAATTACTATATTATTAGTATATAAT
15104267 ATAAT-ATAATTTACTATATTATTAGTATATAAT
1 ATAATAATAA-TTACTATATTATTAGTATATAAT
15104300 ATA
1 ATA
15104303 TTTAATTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
30 15 0.48
31 2 0.06
32 4 0.13
33 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (33 bp):
ATAATAATAATTACTATATTATTAGTATATAAT
Found at i:15108247 original size:15 final size:15
Alignment explanation
Indices: 15108227--15108257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15108217 CAATTTGATC
*
15108227 TAGGCCTGGATCAAA
1 TAGGCCTGGACCAAA
15108242 TAGGCCTGGACCAAA
1 TAGGCCTGGACCAAA
15108257 T
1 T
15108258 GGGTAGGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.19
Consensus pattern (15 bp):
TAGGCCTGGACCAAA
Found at i:15108297 original size:14 final size:15
Alignment explanation
Indices: 15108274--15108340 Score: 52
Period size: 14 Copynumber: 4.7 Consensus size: 15
15108264 GCCCATTTTG
*
15108274 TTTTTGTTTTTGT-T
1 TTTTTATTTTTGTAT
15108288 TTTTTA-TTTTGTAT
1 TTTTTATTTTTGTAT
* *
15108302 TTTATATTTTTATA-
1 TTTTTATTTTTGTAT
* *
15108316 TTTATA-TTTTATAT
1 TTTTTATTTTTGTAT
*
15108330 TTTATATTTTT
1 TTTTTATTTTT
15108341 TTCTTCTTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 13 0.28
14 23 0.50
15 10 0.22
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (15 bp):
TTTTTATTTTTGTAT
Found at i:15108356 original size:8 final size:7
Alignment explanation
Indices: 15108287--15108339 Score: 72
Period size: 7 Copynumber: 7.6 Consensus size: 7
15108277 TTGTTTTTGT
*
15108287 TTTTTTA
1 TTTTATA
*
15108294 TTTTGTA
1 TTTTATA
15108301 TTTTATA
1 TTTTATA
15108308 TTTT-TA
1 TTTTATA
15108314 TATTTATA
1 T-TTTATA
15108322 TTTTATA
1 TTTTATA
15108329 TTTTATA
1 TTTTATA
15108336 TTTT
1 TTTT
15108340 TTTCTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
6 3 0.07
7 36 0.86
8 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (7 bp):
TTTTATA
Found at i:15108365 original size:7 final size:7
Alignment explanation
Indices: 15108355--15108513 Score: 57
Period size: 7 Copynumber: 22.1 Consensus size: 7
15108345 TCTTTATATC
*
15108355 TTATGTA
1 TTATTTA
15108362 TTATTTA
1 TTATTTA
15108369 TTTATTTA
1 -TTATTTA
15108377 TTA-TTA
1 TTATTTA
*
15108383 CTATTTA
1 TTATTTA
*
15108390 TTA-ATA
1 TTATTTA
15108396 TATATTTA
1 T-TATTTA
*
15108404 TTTATTTT
1 -TTATTTA
15108412 TTATGTTA
1 TTAT-TTA
* *
15108420 ATATATA
1 TTATTTA
15108427 TT-TATTA
1 TTAT-TTA
*
15108434 TTACTTA
1 TTATTTA
*
15108441 GCTA-TT-
1 -TTATTTA
15108447 TTATATTA
1 TTAT-TTA
15108455 TTATATATA
1 TTAT-T-TA
15108464 TGTATTTA
1 T-TATTTA
15108472 TTA-TTA
1 TTATTTA
15108478 -TATATTA
1 TTAT-TTA
*
15108485 TAATTTA
1 TTATTTA
15108492 TCTA-TTA
1 T-TATTTA
15108499 TTTATTT-
1 -TTATTTA
15108506 TTATTTA
1 TTATTTA
15108513 T
1 T
15108514 CTGTTAATAT
Statistics
Matches: 115, Mismatches: 16, Indels: 42
0.66 0.09 0.24
Matches are distributed among these distances:
5 4 0.03
6 18 0.16
7 49 0.43
8 36 0.31
9 5 0.04
10 3 0.03
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (7 bp):
TTATTTA
Found at i:15108371 original size:4 final size:4
Alignment explanation
Indices: 15108362--15108513 Score: 54
Period size: 4 Copynumber: 38.0 Consensus size: 4
15108352 ATCTTATGTA
*
15108362 TTAT TTAT TTAT TTA- TTAT TACTAT TTAT TAATAT ATAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT T--TAT TTAT T--TAT TTAT TTAT TTAT
* * * * *
15108409 TT-T TTAT GTTA- ATAT ATAT TTA- TTA- TTAC TTAG CTATT TTAT ATTAT
1 TTAT TTAT -TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTAT -TTAT
* * * *
15108456 TATAT ATAT GTAT TTA- TTAT TATAT ATTA- TAAT TTAT CTA- TTAT TTA-
1 T-TAT TTAT TTAT TTAT TTAT T-TAT -TTAT TTAT TTAT TTAT TTAT TTAT
15108503 TT-T TTAT TTAT
1 TTAT TTAT TTAT
15108514 CTGTTAATAT
Statistics
Matches: 114, Mismatches: 15, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
3 25 0.22
4 64 0.56
5 17 0.15
6 8 0.07
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (4 bp):
TTAT
Found at i:15108392 original size:10 final size:9
Alignment explanation
Indices: 15108303--15108504 Score: 56
Period size: 8 Copynumber: 22.2 Consensus size: 9
15108293 ATTTTGTATT
15108303 TTATATTT-
1 TTATATTTA
15108311 TTATATTTA
1 TTATATTTA
15108320 -TAT-TTTA
1 TTATATTTA
15108327 -TAT-TTTA
1 TTATATTTA
15108334 -TAT-TTT-
1 TTATATTTA
*
15108340 TT-TCTTCT-
1 TTATATT-TA
15108348 TTATATCTTA
1 TTATAT-TTA
15108358 TGTATTATTTA
1 T-TA-TATTTA
15108369 TT-TATTTA
1 TTATATTTA
*
15108377 TTAT-TACTA
1 TTATAT-TTA
*
15108386 TT-TATTAA
1 TTATATTTA
15108394 TATATATTTA
1 T-TATATTTA
*
15108404 TT-TATTTT
1 TTATATTTA
* *
15108412 TTATGTTAA
1 TTATATTTA
15108421 TATATATTTA
1 T-TATATTTA
15108431 TTATTACTTAGCTA
1 TTA-TA-TT---TA
*
15108445 TTTTATATTA
1 TTATAT-TTA
*
15108455 TTATATATA
1 TTATATTTA
*
15108464 -TGTATTTA
1 TTATATTTA
*
15108472 TTATTATATA
1 TTA-TATTTA
15108482 TTATAATTTA
1 TTAT-ATTTA
15108492 TCTATTATTTA
1 T-TA-TATTTA
15108503 TT
1 TT
15108505 TTTATTTATC
Statistics
Matches: 148, Mismatches: 19, Indels: 52
0.68 0.09 0.24
Matches are distributed among these distances:
6 1 0.01
7 20 0.14
8 39 0.26
9 21 0.14
10 39 0.26
11 16 0.11
12 5 0.03
13 3 0.02
14 4 0.03
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTATATTTA
Found at i:15108402 original size:27 final size:27
Alignment explanation
Indices: 15108371--15108439 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
15108361 ATTATTTATT
15108371 TATTTATTATTACTATTTA-TTAATATA
1 TATTTATTATTACT-TTTAGTTAATATA
15108398 TATTTATTTATT--TTTTATGTTAATATA
1 TATTTA-TTATTACTTTTA-GTTAATATA
15108425 TATTTATTATTACTT
1 TATTTATTATTACTT
15108440 AGCTATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
25 4 0.11
26 6 0.16
27 20 0.54
28 7 0.19
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (27 bp):
TATTTATTATTACTTTTAGTTAATATA
Found at i:15108498 original size:41 final size:41
Alignment explanation
Indices: 15108453--15108541 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 41
15108443 TATTTTATAT
15108453 TATTATATATATGTATTTAT-TATTATATATTATAATTTATC
1 TATTATATATATGTATTTATCTATTA-ATATTATAATTTATC
* * * * * *
15108494 TATTATTTATTTTTATTTATCTGTTAATATTTTGATTTATC
1 TATTATATATATGTATTTATCTATTAATATTATAATTTATC
15108535 TGATTAT
1 T-ATTAT
15108542 TTTCTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 31 0.77
42 9 0.22
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (41 bp):
TATTATATATATGTATTTATCTATTAATATTATAATTTATC
Found at i:15108514 original size:21 final size:21
Alignment explanation
Indices: 15108453--15108573 Score: 115
Period size: 20 Copynumber: 5.9 Consensus size: 21
15108443 TATTTTATAT
* *
15108453 TATTATATATATGTATTTAT-
1 TATTATATATTTTTATTTATC
* *
15108473 TATTATATATTATAATTTATC
1 TATTATATATTTTTATTTATC
*
15108494 TATTATTTATTTTTATTTATC
1 TATTATATATTTTTATTTATC
* *
15108515 TGTTA-ATATTTTGATTTATC
1 TATTATATATTTTTATTTATC
* *
15108535 TGATTAT-TTTCTTTTAATTATC
1 T-ATTATATAT-TTTTATTTATC
15108557 TATTA-ATATTTTTATTT
1 TATTATATATTTTTATTT
15108574 GATTTTTATT
Statistics
Matches: 80, Mismatches: 16, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
20 37 0.46
21 33 0.41
22 10 0.12
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (21 bp):
TATTATATATTTTTATTTATC
Found at i:15108526 original size:20 final size:20
Alignment explanation
Indices: 15108466--15108573 Score: 101
Period size: 21 Copynumber: 5.2 Consensus size: 20
15108456 TATATATATG
*
15108466 TATTTAT-TATTATATATTAT
1 TATTTATCTATTA-ATATTTT
* *
15108486 AATTTATCTATTATTTATTTT
1 TATTTATCTATTA-ATATTTT
*
15108507 TATTTATCTGTTAATATTTT
1 TATTTATCTATTAATATTTT
* * *
15108527 GATTTATCTGATTATTTTCTTT
1 TATTTATCT-ATTAATAT-TTT
*
15108549 TAATTATCTATTAATATTTT
1 TATTTATCTATTAATATTTT
15108569 TATTT
1 TATTT
15108574 GATTTTTATT
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
20 27 0.39
21 33 0.47
22 10 0.14
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (20 bp):
TATTTATCTATTAATATTTT
Found at i:15108556 original size:42 final size:41
Alignment explanation
Indices: 15108469--15108590 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 41
15108459 ATATATGTAT
* * *
15108469 TTAT-TATTATATATTATAATTTATCTATTATTTAT-TTTTAT
1 TTATCTATTA-ATATTTTGATTTATCTATTATTT-TCTTTTAA
*
15108510 TTATCTGTTAATATTTTGATTTATCTGATTATTTTCTTTTAA
1 TTATCTATTAATATTTTGATTTATCT-ATTATTTTCTTTTAA
* *
15108552 TTATCTATTAATATTTTTATTTGAT-TTTTATTTTCTTTT
1 TTATCTATTAATATTTTGATTT-ATCTATTATTTTCTTTT
15108591 TTTTTTTTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
41 31 0.44
42 37 0.53
43 2 0.03
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (41 bp):
TTATCTATTAATATTTTGATTTATCTATTATTTTCTTTTAA
Found at i:15109370 original size:8 final size:7
Alignment explanation
Indices: 15109353--15109421 Score: 50
Period size: 7 Copynumber: 9.1 Consensus size: 7
15109343 CGTTCCTAGG
15109353 TTTTT-T
1 TTTTTAT
*
15109359 TTTTCAT
1 TTTTTAT
15109366 TTTTTAT
1 TTTTTAT
15109373 TATTTTATT
1 T-TTTTA-T
15109382 TTATTTAT
1 TT-TTTAT
15109390 TTATTTAT
1 TT-TTTAT
*
15109398 TATTTAT
1 TTTTTAT
15109405 TATTATTAT
1 T-TT-TTAT
*
15109414 TATTTAT
1 TTTTTAT
15109421 T
1 T
15109422 GATTAGATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
6 4 0.08
7 19 0.37
8 18 0.35
9 11 0.21
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAT
Found at i:15109383 original size:13 final size:13
Alignment explanation
Indices: 15109367--15109414 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
15109357 TTTTTTCATT
15109367 TTTTATTATTTTA
1 TTTTATTATTTTA
15109380 TTTTATT-TATTTA
1 TTTTATTAT-TTTA
15109393 -TTTATTA-TTTA
1 TTTTATTATTTTA
15109404 TTATTATTATT
1 TT-TTATTATT
15109415 ATTTATTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
11 4 0.13
12 8 0.27
13 17 0.57
14 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:15109679 original size:58 final size:58
Alignment explanation
Indices: 15109485--15109695 Score: 160
Period size: 58 Copynumber: 3.5 Consensus size: 58
15109475 AATAAAATTA
* * * **
15109485 AAAAAAAAATTTTTGAGGAAAAGTTGAAAGTATCAATTGTCCTTGAAAATAAGCTTTC
1 AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * *
15109543 TAAAAT-TATTTTTGGAAAAAAGTTG-AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAGTTTT
1 AAAAATAAATTTTT-G-----AG--GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT
15109606 C
58 C
** * * * *
15109607 AAAAATGGATTTTTGAGGAAAAGTTAAAAGTATCAATTTTTCTTGAAATTAAAATTTT-
1 AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
* *
15109665 AAAAA-AAATATTTTGGGGAAAAATTGAAAGT
1 AAAAATAAAT-TTTTGAGGAAAAGTTGAAAGT
15109696 TTCCTGTACA
Statistics
Matches: 123, Mismatches: 18, Indels: 24
0.75 0.11 0.15
Matches are distributed among these distances:
57 9 0.07
58 55 0.45
59 8 0.07
63 2 0.02
64 42 0.34
65 7 0.06
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (58 bp):
AAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:15110501 original size:25 final size:25
Alignment explanation
Indices: 15110445--15110495 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15110435 TTTTTCACTT
15110445 GTAGCCTGTAATAGGTGAGGATTAG
1 GTAGCCTGTAATAGGTGAGGATTAG
15110470 GTAGCCTGTAATAGGTGAGGATTAG
1 GTAGCCTGTAATAGGTGAGGATTAG
15110495 G
1 G
15110496 GTGCCTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.37, T:0.27
Consensus pattern (25 bp):
GTAGCCTGTAATAGGTGAGGATTAG
Found at i:15113691 original size:31 final size:30
Alignment explanation
Indices: 15113633--15113691 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
15113623 ATGAATGATG
* *
15113633 AGAAAAAAAATGATGAAAAGTGAAAAAAAT
1 AGAAAAAAAAAGATGAAAAGAGAAAAAAAT
* *
15113663 AGAAAGAAAAAAGATGAAAGGAGGAAAAA
1 AGAAA-AAAAAAGATGAAAAGAGAAAAAA
15113692 TGAAGACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (30 bp):
AGAAAAAAAAAGATGAAAAGAGAAAAAAAT
Found at i:15115531 original size:41 final size:40
Alignment explanation
Indices: 15115428--15116101 Score: 389
Period size: 41 Copynumber: 16.1 Consensus size: 40
15115418 GATTGTTCAA
* * * * *
15115428 GAGCAATTTACTTTCCAAAGTTATGGTTGCCTCTATTTAGAG
1 GAGC-ATTTATTTTCCAAAGTCATTG-AGCCTTTATTTAGAG
* * * * *
15115470 GAGCAATTTACTTTCAAAAGTTATGGCGCCTTTATTTAGAG
1 GAGC-ATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
*
15115511 GAGCAGTTTATTTTCCAAAGTCATTGAGCCTCTGA-TTAGAG
1 GAGCA-TTTATTTTCCAAAGTCATTGAGCCT-TTATTTAGAG
* *
15115552 GATCCATTTAATTTT-CAAAGTCGTTGAGCCTTTATTTAGAG
1 GA-GCATTT-ATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* *
15115593 GAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGA-TTAGAG
1 GAGC-ATTTATTTTCCAAAGTCATTGAGCCT-TTATTTAGAG
* *
15115634 GAGCCATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAG
1 GAG-CATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* * *
15115675 AAGCTATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAG
1 GAGC-ATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* * * *
15115716 GAGCTATTTATTTTCCAAAGTCGTTGAGCCCCTGA-TTATAG
1 GAGC-ATTTATTTTCCAAAGTCATTGAG-CCTTTATTTAGAG
* * *
15115757 GAGCCGTTTA-TTTCTCAAAGGT-GTTGAGCCTCTATTTAGAGAAGCTAG
1 GAG-CATTTATTTTC-CAAA-GTCATTGAGCCTTTATTT-----AG--AG
* * *
15115805 GAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTAATTAGAG
1 GAGC-ATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* * *
15115846 GAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAG
1 GAG-CATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* * * * *
15115887 GAACAATTTATTTTTTCAAAGTCGTTGAGCCTCTGA-TTAAAG
1 GAGC-ATTTA-TTTTCCAAAGTCATTGAGCCT-TTATTTAGAG
* * * * * * *
15115929 AAGCTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAA
1 GAGC-ATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
* * *
15115970 GAGC-TTTATTCATTTTCAAAGTCGTTGAGCCTCTGA-TTAGAG
1 GAGCATTTA-T--TTTCCAAAGTCATTGAGCCT-TTATTTAGAG
* * * *
15116012 GAGC-TTTATTCATTTTCAAAGTCATGGAGCCTCTGA-TTAGAT
1 GAGCATTTA-T--TTTCCAAAGTCATTGAGCCT-TTATTTAGAG
* * **
15116054 GAGCATTGTTTATGTTTTTCAAAGTCGTTGAGCCTTTGCTTAGAG
1 GAGCA---TTTA--TTTTCCAAAGTCATTGAGCCTTTATTTAGAG
15116099 GAG
1 GAG
15116102 TTTTAATCAA
Statistics
Matches: 526, Mismatches: 65, Indels: 79
0.79 0.10 0.12
Matches are distributed among these distances:
39 4 0.01
40 20 0.04
41 290 0.55
42 142 0.27
43 3 0.01
44 1 0.00
45 26 0.05
46 5 0.01
47 4 0.01
48 27 0.05
49 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (40 bp):
GAGCATTTATTTTCCAAAGTCATTGAGCCTTTATTTAGAG
Found at i:15115572 original size:82 final size:81
Alignment explanation
Indices: 15115428--15116045 Score: 498
Period size: 82 Copynumber: 7.4 Consensus size: 81
15115418 GATTGTTCAA
* * * * * * * *
15115428 GAGCAATTTACTTTCCAAAGTTATGGTTGCCTCTATTTAGAGGAGCAATTTACTTTCAAAAGTTA
1 GAGCTATTTATTTTCCAAAGTCATTG-AGCCTCTATTTAGAGGAGCCATTTATTTTC-AAAGTCA
* *
15115493 TGGCGCCTTTATTTAGAG
64 TTGAGCCTTTATTTAGAG
*
15115511 GAGC-AGTTTATTTTCCAAAGTCATTGAGCCTCTGA-TTAGAGGATCCATTTAATTTTCAAAGTC
1 GAGCTA-TTTATTTTCCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCCATTT-ATTTTCAAAGTC
*
15115574 GTTGAGCCTTTATTTAGAG
63 ATTGAGCCTTTATTTAGAG
*
15115593 GAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCCATTTATTTTTCAAAGTCA
1 GAGCTATTTATTTTCCAAAGTCATTGAGCCTCT-ATTTAGAGGAGCCATTTA-TTTTCAAAGTCA
*
15115657 TTGAGCCTCTATTTAGAG
64 TTGAGCCTTTATTTAGAG
* * * *
15115675 AAGCTATTTATTTTTCAAAGTCATTGAGCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGT
1 GAGCTATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCCATTTATTTT-CAAAGTCAT
* * *
15115740 TGAGCCCCTGA-TTATAG
65 TGAG-CCTTTATTTAGAG
** * *
15115757 GAGCCGTTTA-TTTCTCAAAGGT-GTTGAGCCTCTATTTAGAGAAGCTAGGAGCTATTTATTTTC
1 GAGCTATTTATTTTC-CAAA-GTCATTGAGCCTCTATTT-----AG--AGGAGCCATTTATTTT-
* * *
15115820 CAAAGTCGTTGAGCCTCTAATTAGAG
56 CAAAGTCATTGAGCCTTTATTTAGAG
* * * * * *
15115846 GAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTATTTAGAGGAACAATTTATTTTTTCAAAGTCG
1 GAGCTATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCCATTTA--TTTTCAAAGTCA
* *
15115911 TTGAGCCTCTGA-TTAAAG
64 TTGAGCCT-TTATTTAGAG
* * * * * * * * *
15115929 AAGCTATTTATTTTTCAAAGTTATTGAGCCTCTGTTTAAAAGAGCTTTATTCATTTTCAAAGTCG
1 GAGCTATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGC--CATTTATTTTCAAAGTCA
*
15115994 TTGAGCCTCTGA-TTAGAG
64 TTGAGCCT-TTATTTAGAG
* *
15116012 GAGCTTTATTCATTTT-CAAAGTCATGGAGCCTCT
1 GAGC--TATTTATTTTCCAAAGTCATTGAGCCTCT
15116046 GATTAGATGA
Statistics
Matches: 453, Mismatches: 55, Indels: 53
0.81 0.10 0.09
Matches are distributed among these distances:
81 9 0.02
82 212 0.47
83 123 0.27
84 23 0.05
85 13 0.03
87 2 0.00
88 5 0.01
89 63 0.14
90 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (81 bp):
GAGCTATTTATTTTCCAAAGTCATTGAGCCTCTATTTAGAGGAGCCATTTATTTTCAAAGTCATT
GAGCCTTTATTTAGAG
Found at i:15115653 original size:123 final size:123
Alignment explanation
Indices: 15115456--15116088 Score: 654
Period size: 123 Copynumber: 5.0 Consensus size: 123
15115446 AGTTATGGTT
* * * ** * * *
15115456 GCCTCTATTTAGAGGAGCAATTTACTTTCAAAAGTTATGGCGCCT-TTATTTAGAGGAG-CAGTT
1 GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCCA-TT
* * * *
15115519 TATTTTCCAAAGTCATTGAGCCTCTGATTAGAGGATCCATTTAATTTTCAAAGTCGTTGA
64 TATTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCGTTGA
*
15115579 GCCTTTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
1 GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
* *
15115644 TTTTTCAAAGTCATTGAGCCTCT-ATTTAGAGAAGCTATTTATTTTTCAAAGTCATTGA
66 TTTTTCAAAGTCATTGAGCCTCTGA-TTAGAGGAGCTATTTATTTTTCAAAGTCGTTGA
* * *
15115702 GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCCCTGATTATAGGAGCCGTTTA
1 GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
* * *
15115767 TTTCTCAAAGGT-GTTGAGCCTCT-ATTTAGAGAAGCTAGGAGCTATTTATTTTCCAAAGTCGTT
66 TTTTTCAAA-GTCATTGAGCCTCTGA-TT-----AG--AGGAGCTATTTATTTTTCAAAGTCGTT
15115830 GA
122 GA
* * * * *
15115832 GCCTCTAATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCT-ATTTAGAGGAACAATTT
1 GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGA-TTAGAGGAGCCATTT
* * * **
15115896 ATTTTTTCAAAGTCGTTGAGCCTCTGATTAAAGAAGCTATTTATTTTTCAAAGTTATTGA
65 A-TTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCGTTGA
* * * *
15115956 GCCTCTGTTTAAAAGAGCTTTATTCATTTT-CAAAGTCGTTGAGCCTCTGATTAGAGGAG-C-TT
1 GCCTCTATTTAGAGGAGC--TATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATT
* * *
15116018 TATTCATTTTCAAAGTCATGGAGCCTCTGATTAGATGAGCATTGTTTATGTTTTTCAAAGTCGTT
64 TA-T--TTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGC--TATTTA--TTTTTCAAAGTCGTT
15116083 GA
122 GA
15116085 GCCT
1 GCCT
15116089 TTGCTTAGAG
Statistics
Matches: 432, Mismatches: 54, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
122 1 0.00
123 189 0.44
124 45 0.10
125 55 0.13
126 10 0.02
127 5 0.01
128 2 0.00
129 20 0.05
130 83 0.19
131 21 0.05
132 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.38
Consensus pattern (123 bp):
GCCTCTATTTAGAGGAGCTATTTATTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTA
TTTTTCAAAGTCATTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCGTTGA
Found at i:15115947 original size:83 final size:83
Alignment explanation
Indices: 15115805--15116101 Score: 325
Period size: 83 Copynumber: 3.5 Consensus size: 83
15115795 GAGAAGCTAG
* * * * *
15115805 GAGCTATTTA-TTTTCCAAAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATTTTTCAAAGTCG
1 GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCA
*
15115869 TTGAGCCTCTATTTAGAG
66 TTGAGCCTCTATTTAGAA
* * * *
15115887 GAACAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAAAGAAGCTATTTATTTTTCAAAGTTA
1 GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCA
* *
15115952 TTGAGCCTCTGTTTAAAA
66 TTGAGCCTCTATTTAGAA
*
15115970 GAGC--TTTATTCATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTCA-TTTTCAAA
1 GAGCAATTTATT--TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGC--TATTTATTTTTCAAA
* *
15116032 GTCATGGAGCCTCTGA-TTAGAT
62 GTCATTGAGCCTCT-ATTTAGAA
* * *
15116054 GAGCATTGTTTATGTTTTTCAAAGTCGTTGAGCCTTTGCTTAGAGGAG
1 GAGCA--ATTTAT-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG
15116102 TTTTAATCAA
Statistics
Matches: 181, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
81 6 0.03
82 8 0.04
83 97 0.54
84 28 0.15
85 5 0.03
87 31 0.17
88 5 0.03
89 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (83 bp):
GAGCAATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTATTTATTTTTCAAAGTCA
TTGAGCCTCTATTTAGAA
Found at i:15116301 original size:7 final size:7
Alignment explanation
Indices: 15116291--15116419 Score: 55
Period size: 7 Copynumber: 17.1 Consensus size: 7
15116281 TTGTTTTTGT
15116291 TTTTTTA
1 TTTTTTA
15116298 TTTTTTA
1 TTTTTTA
15116305 -TTTTTA
1 TTTTTTA
*
15116311 -TATTTA
1 TTTTTTA
*
15116317 TATTTATA
1 T-TTTTTA
*
15116325 TTTTATA
1 TTTTTTA
*
15116332 TTTTATA
1 TTTTTTA
*
15116339 TTTTTTTC
1 -TTTTTTA
15116347 TTCTTTGTA
1 TT-TTT-TA
*
15116356 TCTTATGTA
1 T-TT-TTTA
*
15116365 TTATTTA
1 TTTTTTA
15116372 TTTATTTA
1 TTT-TTTA
*
15116380 TTATTGCTA
1 TT-TT-TTA
*
15116389 TTTATTA
1 TTTTTTA
*
15116396 ATTTTTA
1 TTTTTTA
15116403 TTTTTTTA
1 -TTTTTTA
15116411 TTTGTTTA
1 TTT-TTTA
15116419 T
1 T
15116420 GTTAATATAT
Statistics
Matches: 94, Mismatches: 16, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
6 11 0.12
7 37 0.39
8 33 0.35
9 11 0.12
10 2 0.02
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTTTTA
Found at i:15116301 original size:8 final size:8
Alignment explanation
Indices: 15116284--15116419 Score: 53
Period size: 8 Copynumber: 15.9 Consensus size: 8
15116274 GCCCATTTTG
*
15116284 TTTTTGTT
1 TTTTTATT
15116292 TTTTTA-T
1 TTTTTATT
15116299 TTTTTATT
1 TTTTTATT
*
15116307 TTTATATT
1 TTTTTATT
15116315 TATATTTA-T
1 T-T-TTTATT
*
15116324 ATTTTATAT
1 TTTTTAT-T
*
15116333 TTTATATT
1 TTTTTATT
*
15116341 TTTTTCTT
1 TTTTTATT
*
15116349 CTTTGTATCT
1 -TTTTTAT-T
15116359 TATGTATTATT
1 T-T-T-TTATT
*
15116370 TATTTA-T
1 TTTTTATT
*
15116377 TTATTATT
1 TTTTTATT
*
15116385 GCTATTTATT
1 --TTTTTATT
15116395 AATTTTTATT
1 --TTTTTATT
15116405 TTTTTATT
1 TTTTTATT
*
15116413 TGTTTAT
1 TTTTTAT
15116420 GTTAATATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
7 16 0.17
8 40 0.42
9 15 0.16
10 18 0.19
11 3 0.03
12 3 0.03
ACGTcount: A:0.20, C:0.03, G:0.04, T:0.74
Consensus pattern (8 bp):
TTTTTATT
Found at i:15116316 original size:19 final size:19
Alignment explanation
Indices: 15116301--15116341 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
15116291 TTTTTTATTT
15116301 TTTAT-TTTTATATTTATA
1 TTTATATTTTATATTTATA
15116319 TTTATATTTTATATTTTATA
1 TTTATATTTTATA-TTTATA
15116339 TTT
1 TTT
15116342 TTTTCTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 9 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATATTTTATATTTATA
Found at i:15116374 original size:4 final size:4
Alignment explanation
Indices: 15116365--15116522 Score: 59
Period size: 4 Copynumber: 40.5 Consensus size: 4
15116355 ATCTTATGTA
* *
15116365 TTAT TTAT TTAT TTA- TTAT TGCTAT TTA- TTAA TT-T TTAT TTTT TTAT
1 TTAT TTAT TTAT TTAT TTAT T--TAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * * * * *
15116412 TTGT TTAT GTTAAT ATAT ATAT TTA- TTA- TTAC TTAG CTAT TTAT ATA-
1 TTAT TTAT -TT-AT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
* * * *
15116459 TTAT TATAT ATAT GTAT TTA- TTAT TATAT ATTA- TAAT TTAT CTA- TTAT
1 TTAT T-TAT TTAT TTAT TTAT TTAT T-TAT -TTAT TTAT TTAT TTAT TTAT
15116507 TTA- TT-T TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TT
15116523 GTTAATATTT
Statistics
Matches: 117, Mismatches: 20, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
3 27 0.23
4 72 0.62
5 11 0.09
6 7 0.06
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (4 bp):
TTAT
Found at i:15116467 original size:10 final size:10
Alignment explanation
Indices: 15116431--15116521 Score: 76
Period size: 10 Copynumber: 8.8 Consensus size: 10
15116421 TTAATATATA
15116431 TATTTATTAT
1 TATTTATTAT
* *
15116441 TACTTAGCTATT
1 TATTTA-TTA-T
*
15116453 TATATATTAT
1 TATTTATTAT
*
15116463 TATATA-TAT
1 TATTTATTAT
15116472 GTATTTATTAT
1 -TATTTATTAT
*
15116483 TATATATTAT
1 TATTTATTAT
*
15116493 AATTTATCTAT
1 TATTTAT-TAT
*
15116504 TATTTATTTT
1 TATTTATTAT
15116514 TATTTATT
1 TATTTATT
15116522 TGTTAATATT
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
9 3 0.05
10 41 0.63
11 16 0.25
12 5 0.08
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (10 bp):
TATTTATTAT
Found at i:15116520 original size:14 final size:14
Alignment explanation
Indices: 15116292--15116522 Score: 66
Period size: 14 Copynumber: 15.9 Consensus size: 14
15116282 TGTTTTTGTT
15116292 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
15116305 TTTTTA--TATTTA
1 TTTTTATTTATTTA
*
15116317 TATTTATATTT-TATA
1 T-TTT-TATTTATTTA
* *
15116332 TTTTATATTTTTTTCT
1 TTTT-TATTTATTT-A
*
15116348 TCTTTGTATCTTATGTA
1 T-TTT-TAT-TTATTTA
15116365 TTATTTATTTATTTA
1 TT-TTTATTTATTTA
*
15116380 TTATTGCTATTTATTAA
1 TT-TT--TATTTATTTA
15116397 TTTTTATTT-TTT-
1 TTTTTATTTATTTA
* *
15116409 TATTTGTTTATGTTA
1 TTTTTATTTAT-TTA
* * *
15116424 -ATATATATATTTA
1 TTTTTATTTATTTA
* * **
15116437 TTATTACTTAGCTA
1 TTTTTATTTATTTA
*
15116451 TTTATATATTA-TTA
1 TTTTTAT-TTATTTA
* * *
15116465 TATATATGTATTTA
1 TTTTTATTTATTTA
* *
15116479 TTATTATATATTATAA
1 TTTTTATTTATT-T-A
15116495 TTTATCTA-TTATTTA
1 TTT-T-TATTTATTTA
15116510 TTTTTATTTATTT
1 TTTTTATTTATTT
15116523 GTTAATATTT
Statistics
Matches: 161, Mismatches: 34, Indels: 45
0.67 0.14 0.19
Matches are distributed among these distances:
11 1 0.01
12 12 0.07
13 19 0.12
14 61 0.38
15 25 0.16
16 12 0.07
17 25 0.16
18 6 0.04
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:15116570 original size:42 final size:40
Alignment explanation
Indices: 15116476--15116580 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 40
15116466 ATATATGTAT
* *
15116476 TTATTATTATATATTATAATTTATCTATTATTTATTTTTAT
1 TTATTATTA-ATATTTTAATTTATCTATTATTTATTTTTAA
* *
15116517 TTATTTGTTAATATTTTGATTTATCTAATTATTT-TCTTTTAA
1 TTA-TTATTAATATTTTAATTTATCT-ATTATTTAT-TTTTAA
*
15116559 TTATCTATTAATATTTTTATTT
1 TTAT-TATTAATATTTTAATTT
15116581 GATTTTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
41 19 0.35
42 35 0.65
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (40 bp):
TTATTATTAATATTTTAATTTATCTATTATTTATTTTTAA
Found at i:15117391 original size:3 final size:3
Alignment explanation
Indices: 15117357--15117429 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
15117347 CCAGGTTTTT
* *
15117357 TTA TT- TTA TT- TTA TTTA TTTA TTTA TTTA TTA TTA TTA TTA TTG TTG
1 TTA TTA TTA TTA TTA -TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA
* * *
15117404 TTG TTG TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
15117430 TATTGATTAG
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 4 0.06
3 46 0.71
4 15 0.23
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:15117469 original size:5 final size:5
Alignment explanation
Indices: 15117459--15117522 Score: 71
Period size: 5 Copynumber: 12.8 Consensus size: 5
15117449 GTTTAATACT
*
15117459 TTTTA TTTTA TTTTTA TTTTTA TTTTA TTTTA TTTTA -TTT- CTTTA TTTTTA
1 TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
15117510 TTTTA -TTTA TTTT
1 TTTTA TTTTA TTTT
15117523 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
4 10 0.19
5 28 0.53
6 15 0.28
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:15117474 original size:11 final size:11
Alignment explanation
Indices: 15117458--15117517 Score: 77
Period size: 11 Copynumber: 5.3 Consensus size: 11
15117448 TGTTTAATAC
15117458 TTTTTATTTTA
1 TTTTTATTTTA
15117469 TTTTTATTTT-
1 TTTTTATTTTA
15117479 TATTTTATTTTA
1 T-TTTTATTTTA
*
15117491 TTTTATTTCTTTA
1 TTTT-TAT-TTTA
15117504 TTTTTATTTTA
1 TTTTTATTTTA
15117515 TTT
1 TTT
15117518 ATTTTCTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 1 0.02
11 29 0.67
12 5 0.12
13 8 0.19
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:15117512 original size:29 final size:27
Alignment explanation
Indices: 15117459--15117522 Score: 103
Period size: 29 Copynumber: 2.3 Consensus size: 27
15117449 GTTTAATACT
15117459 TTTTATTTTATTTTTATTTTTATTTTA
1 TTTTATTTTATTTTTATTTTTATTTTA
15117486 TTTTATTTTATTTCTTTATTTTTATTTTA
1 TTTTATTTTA-TT-TTTATTTTTATTTTA
15117515 -TTTATTTT
1 TTTTATTTT
15117523 CTTTAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
27 10 0.29
28 10 0.29
29 15 0.43
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTATTTTATTTTTATTTTTATTTTA
Found at i:15117523 original size:24 final size:23
Alignment explanation
Indices: 15117458--15117527 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 23
15117448 TGTTTAATAC
15117458 TTTTTATTTTATTTTTATT-TTTA
1 TTTTTATTTTATTTTT-TTCTTTA
15117481 -TTTTATTTTATTTTATTTCTTTA
1 TTTTTATTTTATTTT-TTTCTTTA
15117504 TTTTTATTTTATTTATTTTCTTTA
1 TTTTTATTTTATTT-TTTTCTTTA
15117528 AATAAAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
22 16 0.37
23 5 0.12
24 21 0.49
25 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTATTTTATTTTTTTCTTTA
Found at i:15117606 original size:57 final size:57
Alignment explanation
Indices: 15117536--15117654 Score: 184
Period size: 57 Copynumber: 2.1 Consensus size: 57
15117526 TAAATAAAAT
* *
15117536 TAAAAAAAATTTTGAGAAAAAGTTGAAAGTATTAATTTTCCTTGAAACTAAGCTTTC
1 TAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
* * * *
15117593 TAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAGCTTTC
1 TAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
15117650 TAAAA
1 TAAAA
15117655 TTTTCCTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (57 bp):
TAAAAAAAATTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGCTTTC
Found at i:15117656 original size:27 final size:27
Alignment explanation
Indices: 15117626--15117681 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
15117616 TGAAAGTATC
*
15117626 AATTTTTCTTGAAAATAAGCTTTCTAA
1 AATTTTCCTTGAAAATAAGCTTTCTAA
15117653 AATTTTCCTTGAAAATAAGCTTTCTAA
1 AATTTTCCTTGAAAATAAGCTTTCTAA
15117680 AA
1 AA
15117682 AAATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (27 bp):
AATTTTCCTTGAAAATAAGCTTTCTAA
Found at i:15117712 original size:86 final size:84
Alignment explanation
Indices: 15117569--15117725 Score: 262
Period size: 86 Copynumber: 1.8 Consensus size: 84
15117559 TGAAAGTATT
* *
15117569 AATTTTCCTTGAAACTAAGCTTTCTAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
1 AATTTTCCTTGAAAATAAGCTTTCTAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
15117634 TTGAAAATAAGCTTTCTAA
66 TTGAAAATAAGCTTTCTAA
15117653 AATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTTTGGG-AAAAGTTGAAAGTATCAATTT
1 AATTTTCCTTGAAAATAAGCTTTCT--AAAAATA-TTTTTGGGAAAAAGTTGAAAGTATCAATTT
15117717 TCCTTGAAA
63 TCCTTGAAA
15117726 TTAAAATTTT
Statistics
Matches: 68, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
84 24 0.35
86 36 0.53
87 8 0.12
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (84 bp):
AATTTTCCTTGAAAATAAGCTTTCTAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCC
TTGAAAATAAGCTTTCTAA
Found at i:15117777 original size:59 final size:59
Alignment explanation
Indices: 15117653--15117774 Score: 194
Period size: 57 Copynumber: 2.1 Consensus size: 59
15117643 AGCTTTCTAA
** *
15117653 AATTTTCCTTGAAAATAAGCTTTCTAAAAAAATATTTTTTGGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAAATAAAATTTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATC
*
15117712 AATTTTCCTTGAAATTAAAATTT-TAAAAAAATA-TTTTAGGGAAAAGTTGAAAGTATC
1 AATTTTCCTTGAAAATAAAATTTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATC
15117769 AATTTT
1 AATTTT
15117775 TTCAGTACAA
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
57 29 0.49
58 10 0.17
59 20 0.34
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (59 bp):
AATTTTCCTTGAAAATAAAATTTCTAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATC
Found at i:15122289 original size:118 final size:119
Alignment explanation
Indices: 15122150--15122407 Score: 443
Period size: 118 Copynumber: 2.2 Consensus size: 119
15122140 TTAATTTATA
15122150 AATTAATAAAC--TAAATTAATTATATATTAAGAATTTATTATAAAACAAGCTATGTTTTAAAGT
1 AATTAATAAACAATAAATTAATTATATATTAAGAATTTATTATAAAACAAGCTATGTTTTAAAGT
15122213 TTATTTTTGTATTTATATTTTTGTTAATTCAATTTAA-T-ATTAATTAATATTT
66 TTATTTTTGTATTTATATTTTTGTTAATTCAATTTAATTAATTAATTAATATTT
*
15122265 AATTAATAAACAATAACATTAATTATATATTATGAATTTATTATAAAACAAGCTATGTTTTAAAG
1 AATTAATAAACAATAA-ATTAATTATATATTAAGAATTTATTATAAAACAAGCTATGTTTTAAAG
15122330 TTTATTTTTGTATTTATATTTTTGTTAATTCAATTTAATGTTAATTAATTAATATTT
65 TTTATTTTTGTATTTATATTTTTGTTAATTCAATTTAA--TTAATTAATTAATATTT
15122387 AATTAATAAACAATAATATTA
1 AATTAATAAACAATAA-ATTA
15122408 TTTGTCATAT
Statistics
Matches: 134, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
115 11 0.08
117 3 0.02
118 85 0.63
121 1 0.01
122 34 0.25
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (119 bp):
AATTAATAAACAATAAATTAATTATATATTAAGAATTTATTATAAAACAAGCTATGTTTTAAAGT
TTATTTTTGTATTTATATTTTTGTTAATTCAATTTAATTAATTAATTAATATTT
Found at i:15122511 original size:22 final size:21
Alignment explanation
Indices: 15122486--15122566 Score: 78
Period size: 22 Copynumber: 3.7 Consensus size: 21
15122476 TTAATTAATA
15122486 TTATAAATTTATAATATAA-AAT
1 TTAT-AATTTATAAT-TAACAAT
15122508 TTATTATATTATATAATTAACAA-
1 TTA-TA-ATT-TATAATTAACAAT
*
15122531 TT-TAATTTATTATTAATCAAT
1 TTATAATTTATAATTAA-CAAT
15122552 TTATAATTTATAATT
1 TTATAATTTATAATT
15122567 TATAATTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
19 8 0.16
20 6 0.12
21 4 0.08
22 15 0.30
23 9 0.18
24 8 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATAATTTATAATTAACAAT
Found at i:15122532 original size:24 final size:24
Alignment explanation
Indices: 15122495--15122547 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
15122485 ATTATAAATT
15122495 TATAATATAAAATTT-ATTATATTA
1 TATAATATAAAATTTAATT-TATTA
15122519 TATAAT-TAACAATTTAATTTATTA
1 TATAATATAA-AATTTAATTTATTA
15122543 T-TAAT
1 TATAAT
15122548 CAATTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.26
24 17 0.63
25 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TATAATATAAAATTTAATTTATTA
Found at i:15122561 original size:7 final size:7
Alignment explanation
Indices: 15122481--15122573 Score: 64
Period size: 7 Copynumber: 12.7 Consensus size: 7
15122471 TATCGTTAAT
15122481 TAATATTA
1 TAAT-TTA
15122489 TAAATTTA
1 T-AATTTA
*
15122497 TAATATA
1 TAATTTA
*
15122504 AAATTTA
1 TAATTTA
15122511 TTATATTATA
1 -TA-ATT-TA
*
15122521 TAATTAA
1 TAATTTA
*
15122528 CAA-TT-
1 TAATTTA
15122533 TAATTTA
1 TAATTTA
* *
15122540 TTATTAA
1 TAATTTA
15122547 TCAATTTA
1 T-AATTTA
15122555 TAATTTA
1 TAATTTA
15122562 TAATTTA
1 TAATTTA
15122569 TAATT
1 TAATT
15122574 ATATTTAACA
Statistics
Matches: 66, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
5 2 0.03
6 3 0.05
7 37 0.56
8 14 0.21
9 8 0.12
10 2 0.03
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (7 bp):
TAATTTA
Found at i:15122832 original size:15 final size:17
Alignment explanation
Indices: 15122800--15122834 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15122790 TTATATATAA
15122800 ATATAATTGTTAATATT
1 ATATAATTGTTAATATT
15122817 ATATAATT-TTAA-ATT
1 ATATAATTGTTAATATT
15122832 ATA
1 ATA
15122835 ATTATATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 4 0.22
17 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATATAATTGTTAATATT
Found at i:15122842 original size:23 final size:22
Alignment explanation
Indices: 15122779--15122843 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
15122769 TAATTAATTA
15122779 ATAACTTATAATTATATATAAAT
1 ATAA-TTATAATTATATATAAAT
* *
15122802 ATAATTGTTAA-TATTATATAATT
1 ATAATT-ATAATTA-TATATAAAT
*
15122825 TTAAATTATAATTATATAT
1 AT-AATTATAATTATATAT
15122844 TCTACTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 4 0.12
23 24 0.71
24 6 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATAATTATAATTATATATAAAT
Found at i:15122917 original size:31 final size:34
Alignment explanation
Indices: 15122882--15122945 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
15122872 TTTATCATTA
15122882 TTATA-TATTAGAAATA-T-TA-ATTAATAAATTG
1 TTATACTATTA-AAATAGTATATATTAATAAATTG
*
15122913 TTATACTATTAAATTAGTATATATTAATAAATT
1 TTATACTATTAAAATAGTATATATTAATAAATT
15122946 ATAATTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 9 0.32
32 6 0.21
33 2 0.07
34 11 0.39
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (34 bp):
TTATACTATTAAAATAGTATATATTAATAAATTG
Found at i:15122990 original size:8 final size:8
Alignment explanation
Indices: 15122979--15123008 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
15122969 TAAACAATTA
15122979 ATAATATT
1 ATAATATT
15122987 ATAATATT
1 ATAATATT
15122995 ATAATTATT
1 ATAA-TATT
15123004 ATAAT
1 ATAAT
15123009 CATTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATAATATT
Found at i:15123108 original size:21 final size:21
Alignment explanation
Indices: 15123061--15123113 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
15123051 TCAATAAATA
* *
15123061 ATTA-TATTAATATAATTTAT
1 ATTATTATTATTATAATTAAT
15123081 -TTAATTATTATTATAATTAAT
1 ATT-ATTATTATTATAATTAAT
15123102 ATTATTAATTAT
1 ATTATT-ATTAT
15123114 CTTAGATTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 17 0.63
22 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATTATTATAATTAAT
Found at i:15123370 original size:20 final size:19
Alignment explanation
Indices: 15123319--15123382 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
15123309 AAATATTAGT
*
15123319 TATT-TAATAATTATCAAT
1 TATTATAATAATTATCAAA
15123337 TA-TATGAATAAATTATCCAAA
1 TATTAT-AAT-AATTAT-CAAA
*
15123358 TATTATAATAATTATAATAA
1 TATTATAATAATTATCA-AA
15123378 TATTA
1 TATTA
15123383 GTTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 3 0.08
19 4 0.11
20 19 0.50
21 8 0.21
22 3 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TATTATAATAATTATCAAA
Found at i:15123500 original size:20 final size:20
Alignment explanation
Indices: 15123475--15123523 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
15123465 TAATTTATTT
*
15123475 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
15123495 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
*
15123515 ATTTTAATT
1 ATATTAATT
15123524 TATCAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:15124525 original size:176 final size:177
Alignment explanation
Indices: 15124071--15124784 Score: 721
Period size: 176 Copynumber: 4.0 Consensus size: 177
15124061 CTAATAGTAG
**
15124071 TGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAAT
1 TGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAAT
* ***
15124136 ACTACTTTATTAATATTTTGCAAATTAATAGGTAGGAGATTTAAAAAATAAATCTATTTACTGAA
66 ACTAATTTATTAATATTTCAAAAATTAATA---A-GAGATTTAAAAAATAAATCTATTTACTGAA
* * * **
15124201 CAAGTTCAAATAGTTA-CATCCATTAGAACAATTAT-TCATTTCAAATTGTTA
127 CAAGTTCAAATAGTTATGA-CTATTAGAATAATTATCT-ATTTCAAATCATTA
* * * *
15124252 TGACCTTTTGTTTTATCATAAAATAATTGTTTCTATTCATACAAAATTATTCAAAATAAAATAAT
1 TGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAAT
** * * * * * *
15124317 TTTGATTTACTAATATTTTAAAAATTAATAAGAGATTTAAAAACTAAATCTATTTACTAAACCAG
66 ACTAATTTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTATTTACTGAACAAG
* * *
15124382 TTCAAATAGTTATGACTATTTGAATAATTATCTATCTCAAATCATAA
131 TTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTA
* * * * * *
15124429 TGATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATGA
1 TGATCTTTTGTTTTGTCATAAAACAATTGTTT-CTATTCATACAAACTTATTCAAAATAAAATAA
* *
15124492 TACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAA--TATGTTAGCCG-AC
65 TACTAATTTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTAT-TTA-CTGAAC
* * * *
15124554 TAGTTCAAATAGTTAAGACTATCAGAATAATTATCTATTTCAAATCATTC
128 AAGTTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTA
* * * ***
15124604 T-ATCCTTTTGTTTAGTCATAAAATAATTATTTC-AGTTCATACAAACTTATTTGGAATAAAATA
1 TGAT-CTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAACTTATTCAAAATAAAATA
* * * *
15124667 ATACTAATTTATTAACA-TTCGAAAAATTAAAGCAAGAGATTTAAAAAAATAAATTTGTTTACTG
64 ATACTAATTTATTAATATTTC-AAAAATT-AA-TAAGAGATTT-AAAAAATAAATCTATTTACTG
* * ** * *
15124731 AATAATTTCAAATAAATATGACTATTTA-AATAATTATCTATTTAAAATTATTA
125 AACAAGTTCAAATAGTTATGACTA-TTAGAATAATTATCTATTTCAAATCATTA
15124784 T
1 T
15124785 AATTATAATA
Statistics
Matches: 443, Mismatches: 73, Indels: 35
0.80 0.13 0.06
Matches are distributed among these distances:
174 5 0.01
175 54 0.12
176 156 0.35
177 74 0.17
178 12 0.03
179 12 0.03
180 43 0.10
181 87 0.20
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (177 bp):
TGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCAAAATAAAATAAT
ACTAATTTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTATTTACTGAACAAG
TTCAAATAGTTATGACTATTAGAATAATTATCTATTTCAAATCATTA
Found at i:15125157 original size:21 final size:21
Alignment explanation
Indices: 15125115--15125157 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15125105 AAAAAAAGAA
** *
15125115 AATTAACAATTATCTATCGAT
1 AATTAACAATTATAAATAGAT
*
15125136 AATTAATAATTATAAATAGAT
1 AATTAACAATTATAAATAGAT
15125157 A
1 A
15125158 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (21 bp):
AATTAACAATTATAAATAGAT
Found at i:15125773 original size:17 final size:17
Alignment explanation
Indices: 15125739--15125776 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
15125729 ATATAGTATT
*
15125739 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
15125756 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
15125773 ATTA
1 ATTA
15125777 AATAATTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:15126316 original size:29 final size:28
Alignment explanation
Indices: 15126275--15126333 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
15126265 AGAGATTTAA
* *
15126275 ATATTAATTTTA-TAAAATAAAGTAATAT
1 ATATTAATATTATTAAAAGAAA-TAATAT
*
15126303 ATATTAAATATTATTTAAAGAAATAATAT
1 ATATT-AATATTATTAAAAGAAATAATAT
15126332 AT
1 AT
15126334 TATAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 14 0.54
30 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
ATATTAATATTATTAAAAGAAATAATAT
Found at i:15126379 original size:28 final size:28
Alignment explanation
Indices: 15126326--15126379 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
15126316 TTTAAAGAAA
* *
15126326 TAATATATTATAATTATATACTAATAAT
1 TAATAAATTATAATTATATAATAATAAT
15126354 TAATAAATTATAA-TATATTAATAATA
1 TAATAAATTATAATTATA-TAATAATA
15126380 TTATATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAATAAATTATAATTATATAATAATAAT
Found at i:15126389 original size:22 final size:22
Alignment explanation
Indices: 15126326--15126438 Score: 61
Period size: 21 Copynumber: 5.6 Consensus size: 22
15126316 TTTAAAGAAA
*
15126326 TAATATATT-ATAAT-TATATAC
1 TAATATATTAATAATAT-TATAT
15126347 TAATA-ATTAATAA-A-T-TA-
1 TAATATATTAATAATATTATAT
15126364 TAATATATTAATAATATTATAT
1 TAATATATTAATAATATTATAT
* * * *
15126386 TAATTTGTTTATAA-CTTATAT
1 TAATATATTAATAATATTATAT
* *
15126407 T-ATATTTATAATAATAATA-AT
1 TAATATAT-TAATAATATTATAT
15126428 T--TATATTAATA
1 TAATATATTAATA
15126439 TCAAAATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
17 5 0.07
18 10 0.14
19 7 0.10
20 12 0.16
21 26 0.36
22 13 0.18
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (22 bp):
TAATATATTAATAATATTATAT
Found at i:15126578 original size:27 final size:28
Alignment explanation
Indices: 15126547--15126625 Score: 76
Period size: 27 Copynumber: 2.9 Consensus size: 28
15126537 TGTTCATAAT
15126547 GATATTATATTAAATTTATATTATA-TA
1 GATATTATATTAAATTTATATTATATTA
* *
15126574 GATATAATATATAAATTAAT-TTATATTA
1 GATATTATAT-TAAATTTATATTATATTA
*
15126602 GATTATTA-A-TATAATATATATTAT
1 GA-TATTATATTA-AATTTATATTAT
15126626 TAAATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.05
27 19 0.45
28 17 0.40
29 4 0.10
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
GATATTATATTAAATTTATATTATATTA
Found at i:15127205 original size:15 final size:15
Alignment explanation
Indices: 15127185--15127214 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15127175 CCTTTTGTAA
15127185 TATTATAATTATAAT
1 TATTATAATTATAAT
15127200 TATTATAATTATAAT
1 TATTATAATTATAAT
15127215 AGATTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATTATAATTATAAT
Found at i:15127550 original size:19 final size:19
Alignment explanation
Indices: 15127526--15127565 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
15127516 ATAAATGAAG
*
15127526 ATTAAA-TATTATTAATTAA
1 ATTAAATTAATATT-ATTAA
15127545 ATTAAATTAATATTATTAA
1 ATTAAATTAATATTATTAA
15127564 AT
1 AT
15127566 ATTATTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAATTAATATTATTAA
Found at i:15127634 original size:28 final size:29
Alignment explanation
Indices: 15127547--15127691 Score: 85
Period size: 28 Copynumber: 5.1 Consensus size: 29
15127537 TTAATTAAAT
* *
15127547 TAAAT-TAATATTATTAA-ATATTATTAC
1 TAAATATATTATTATTAATATATTATTAA
*
15127574 T--ATATATTATTA-TAAT-TATT-GTAA
1 TAAATATATTATTATTAATATATTATTAA
*
15127598 TATTGATATATTATTA-TAATATATTATTAA
1 TA--AATATATTATTATTAATATATTATTAA
* *
15127628 TAAATATATAATAATATTAATATATTTTTAA
1 TAAATATAT--TATTATTAATATATTATTAA
* *
15127659 TACATTATAAATATTAATTAATA-ATT-TTAA
1 TA-AATAT-ATTATT-ATTAATATATTATTAA
15127689 TAA
1 TAA
15127692 TACAATATTA
Statistics
Matches: 94, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
24 3 0.03
25 9 0.10
26 7 0.07
27 1 0.01
28 21 0.22
29 5 0.05
30 15 0.16
31 21 0.22
32 11 0.12
33 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TAAATATATTATTATTAATATATTATTAA
Found at i:15127652 original size:31 final size:31
Alignment explanation
Indices: 15127614--15127691 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
15127604 TATATTATTA
15127614 TAATATATTATTAATAAA-TATATAATAAT-AT
1 TAATATATT-TTAATAAATTATA-AATAATAAT
* *
15127645 TAATATATTTTTAATACATTATAAATATTAAT
1 TAATATA-TTTTAATAAATTATAAATAATAAT
15127677 TAATA-ATTTTAATAA
1 TAATATATTTTAATAA
15127692 TACAATATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 8 0.20
31 20 0.49
32 13 0.32
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (31 bp):
TAATATATTTTAATAAATTATAAATAATAAT
Found at i:15128320 original size:27 final size:27
Alignment explanation
Indices: 15128293--15128345 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
15128283 AATTAAATTT
15128293 ATATACAATTATTTGAA-TATTGATTTTA
1 ATATA-AA-TATTTGAATTATTGATTTTA
* *
15128321 ATTTAAATATTTTAATTATTGATTT
1 ATATAAATATTTGAATTATTGATTT
15128346 AAAATATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 7 0.32
27 11 0.50
28 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (27 bp):
ATATAAATATTTGAATTATTGATTTTA
Found at i:15129362 original size:13 final size:13
Alignment explanation
Indices: 15129334--15129378 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
15129324 TTATAATTAC
*
15129334 TTATAATATA-AA
1 TTATAATAAATAA
*
15129346 TTATATTAAATAA
1 TTATAATAAATAA
*
15129359 TTATAATATATAA
1 TTATAATAAATAA
15129372 TTATAAT
1 TTATAAT
15129379 TTATTAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATAATAAATAA
Found at i:15129557 original size:9 final size:8
Alignment explanation
Indices: 15129522--15129605 Score: 50
Period size: 9 Copynumber: 10.0 Consensus size: 8
15129512 GTTAGTTTAA
15129522 ATAATAAT
1 ATAATAAT
*
15129530 ATTAATTATT
1 A-TAA-TAAT
*
15129540 ATTATAAT
1 ATAATAAT
15129548 AGTAATAAT
1 A-TAATAAT
15129557 AT--TAATT
1 ATAATAA-T
15129564 ATAATAAT
1 ATAATAAT
15129572 A-AATAAT
1 ATAATAAT
15129579 AGTCAA-AAT
1 A-T-AATAAT
15129588 ATAACTAAT
1 ATAA-TAAT
15129597 AGTAATAAT
1 A-TAATAAT
15129606 TTTAATTATT
Statistics
Matches: 60, Mismatches: 4, Indels: 23
0.69 0.05 0.26
Matches are distributed among these distances:
6 3 0.05
7 12 0.20
8 9 0.15
9 27 0.45
10 9 0.15
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (8 bp):
ATAATAAT
Found at i:15129603 original size:31 final size:31
Alignment explanation
Indices: 15129543--15129604 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
15129533 AATTATTATT
*
15129543 ATAATAGTAATAATATTAATTATAATAATAA
1 ATAATAGTAATAATATTAATAATAATAATAA
*
15129574 ATAATAGTCAA-AATA-TAACTAATAGTAATAA
1 ATAATAGT-AATAATATTAA-TAATAATAATAA
15129605 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 22 0.81
32 2 0.07
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (31 bp):
ATAATAGTAATAATATTAATAATAATAATAA
Found at i:15129623 original size:34 final size:35
Alignment explanation
Indices: 15129585--15129652 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
15129575 TAATAGTCAA
*
15129585 AATATAACTAATAGTAATAAT-TTTAATT-ATTATT
1 AATATAACCAATA-TAATAATATTTAATTAATTATT
**
15129619 AATATTTCCAATATAATAATATTTAATTAATTAT
1 AATATAACCAATATAATAATATTTAATTAATTAT
15129653 AACTTAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 7 0.24
34 17 0.59
35 5 0.17
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (35 bp):
AATATAACCAATATAATAATATTTAATTAATTATT
Found at i:15129787 original size:14 final size:14
Alignment explanation
Indices: 15129761--15129803 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15129751 TAAGATGATA
*
15129761 ATAAATATAATTAT
1 ATAATTATAATTAT
*
15129775 ATTA-TAGTAATTAT
1 ATAATTA-TAATTAT
15129789 ATAATTATAATTAT
1 ATAATTATAATTAT
15129803 A
1 A
15129804 ATACTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
ATAATTATAATTAT
Found at i:15129811 original size:22 final size:22
Alignment explanation
Indices: 15129758--15129811 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
15129748 TATTAAGATG
15129758 ATAATAA--ATATAATTATATT
1 ATAATAACTATATAATTATATT
* *
15129778 ATAGTAATTATATAATTATAATT
1 ATAATAACTATATAATTAT-ATT
15129801 ATAAT-ACTATA
1 ATAATAACTATA
15129812 AAAATAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 6 0.21
22 15 0.54
23 7 0.25
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATAACTATATAATTATATT
Found at i:15130614 original size:42 final size:39
Alignment explanation
Indices: 15130568--15130660 Score: 91
Period size: 42 Copynumber: 2.3 Consensus size: 39
15130558 ATTAAGTTAT
15130568 AATTAATTAATATGA-TTATATTGGAATATTAATAATAATTAA
1 AATTAATTAATATGAGTTATATTGGAATATT-AT--T-ATTAA
* * * * *
15130610 AATT-ATTACTATTAGTTATATTTGACTATTATTATTAT
1 AATTAATTAATATGAGTTATATTGGAATATTATTATTAA
15130648 AATTAATTAATAT
1 AATTAATTAATAT
15130661 TAATATAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
38 8 0.19
39 8 0.19
41 10 0.23
42 17 0.40
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (39 bp):
AATTAATTAATATGAGTTATATTGGAATATTATTATTAA
Found at i:15130661 original size:19 final size:19
Alignment explanation
Indices: 15130564--15130716 Score: 66
Period size: 19 Copynumber: 8.5 Consensus size: 19
15130554 TATAATTAAG
*
15130564 TTATAATTAATTAATATGA
1 TTATAATTAATTAATATTA
*
15130583 TTAT-ATTGGAATATTAATAATAA
1 TTATAATT---A-ATTAAT-ATTA
* *
15130606 TTAAAATT-ATTACTATTA
1 TTATAATTAATTAATATTA
* * * *
15130624 GTTATATTTGACTATTATTA
1 -TTATAATTAATTAATATTA
15130644 TTATAATTAATTAATATTA
1 TTATAATTAATTAATATTA
15130663 --AT-A-TAA-TAAGTATT-
1 TTATAATTAATTAA-TATTA
15130677 TTATAA-TAA--AA-A-TA
1 TTATAATTAATTAATATTA
15130691 TTATAATTAATTAATA--A
1 TTATAATTAATTAATATTA
15130708 TTATAATTA
1 TTATAATTA
15130717 TTACATAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 36
0.69 0.08 0.24
Matches are distributed among these distances:
13 1 0.01
14 10 0.10
15 10 0.10
16 5 0.05
17 18 0.17
18 7 0.07
19 30 0.29
20 8 0.08
21 1 0.01
22 6 0.06
23 6 0.06
24 3 0.03
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (19 bp):
TTATAATTAATTAATATTA
Found at i:15130707 original size:25 final size:23
Alignment explanation
Indices: 15130642--15130708 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 23
15130632 TGACTATTAT
*
15130642 TATTATAATTAATTAAT-ATTAA
1 TATTATAATTAATTAATAATAAA
* * * *
15130664 TATAATAAGTATTTTATAATAAAAA
1 TATTATAATTAATTAATAAT--AAA
15130689 TATTATAATTAATTAATAAT
1 TATTATAATTAATTAATAAT
15130709 TATAATTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
22 13 0.39
23 2 0.06
25 18 0.55
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TATTATAATTAATTAATAATAAA
Found at i:15130712 original size:17 final size:17
Alignment explanation
Indices: 15130690--15130726 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15130680 TAATAAAAAT
15130690 ATTATAATTAATTA-ATA
1 ATTATAATT-ATTACATA
15130707 ATTATAATTATTACATA
1 ATTATAATTATTACATA
15130724 ATT
1 ATT
15130727 TTAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATAATTATTACATA
Found at i:15130735 original size:17 final size:16
Alignment explanation
Indices: 15130690--15130762 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 16
15130680 TAATAAAAAT
*
15130690 ATTATAATTAATTAATA
1 ATTATAAAT-ATTAATA
*
15130707 ATTATAATTATTACATA
1 ATTATAAATATTA-ATA
* * *
15130724 ATTTTAAATATTTATT
1 ATTATAAATATTAATA
* *
15130740 ATTATTAAT-TTAATT
1 ATTATAAATATTAATA
15130755 ATT-TAAAT
1 ATTATAAAT
15130763 TAATTTATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
14 4 0.09
15 8 0.17
16 13 0.28
17 22 0.47
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATAAATATTAATA
Found at i:15130764 original size:18 final size:18
Alignment explanation
Indices: 15130743--15130780 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
15130733 ATTTATTATT
15130743 ATTAATTTA-ATTATTTAA
1 ATTAATTTATATTA-TTAA
15130761 ATTAATTTATATTATTAA
1 ATTAATTTATATTATTAA
15130779 AT
1 AT
15130781 AGAATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTAATTTATATTATTAA
Found at i:15131522 original size:29 final size:27
Alignment explanation
Indices: 15131484--15131540 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
15131474 ATTATTATAG
15131484 AATAACATAACAATTATTATATATAATTA
1 AATAACATAACAATTA--ATATATAATTA
* * *
15131513 AATAATATAATAATTAATTTATAATTA
1 AATAACATAACAATTAATATATAATTA
15131540 A
1 A
15131541 TATATAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
29 14 0.56
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAACATAACAATTAATATATAATTA
Found at i:15132222 original size:33 final size:34
Alignment explanation
Indices: 15132168--15132249 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 34
15132158 TATAAATTCG
* * *
15132168 TAAT-TATATAATAGTAATAATTGAAAAAATAA-
1 TAATATATATTATAATATTAATTGAAAAAATAAC
* *
15132200 TATTATATATTATAATATTAATTGAAAAACTAAC
1 TAATATATATTATAATATTAATTGAAAAAATAAC
15132234 TAATATATATTATAAT
1 TAATATATATTATAAT
15132250 TCATTATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
32 3 0.07
33 24 0.57
34 15 0.36
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (34 bp):
TAATATATATTATAATATTAATTGAAAAAATAAC
Found at i:15132398 original size:23 final size:25
Alignment explanation
Indices: 15132370--15132426 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
15132360 TCTTGTTTAG
*
15132370 TATTAATTA-TATAAT-TAATGTAT
1 TATTAATTAGTATAATCTAATGTAA
*
15132393 TATTAA-TAGTATAATCTAATTTAA
1 TATTAATTAGTATAATCTAATGTAA
15132417 TATTATATTA
1 TATTA-ATTA
15132427 ATGTTCAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.07
23 12 0.43
24 11 0.39
25 1 0.04
26 2 0.07
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
TATTAATTAGTATAATCTAATGTAA
Found at i:15132487 original size:3 final size:3
Alignment explanation
Indices: 15132479--15132505 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15132469 TTTTAAATAC
15132479 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15132506 CAAATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15132758 original size:14 final size:15
Alignment explanation
Indices: 15132741--15132781 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
15132731 TAATCGTTAA
15132741 ATTATAATTATTA-T
1 ATTATAATTATTATT
*
15132755 ATTATAATAATTATT
1 ATTATAATTATTATT
15132770 ATTACTAATTAT
1 ATTA-TAATTAT
15132782 AGTTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 12 0.52
15 5 0.22
16 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATTATTATT
Found at i:15132788 original size:23 final size:23
Alignment explanation
Indices: 15132740--15132782 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
15132730 ATAATCGTTA
*
15132740 AATTATAATTATTATATTATAAT
1 AATTATAATTACTATATTATAAT
*
15132763 AATTATTATTACTA-ATTATA
1 AATTATAATTACTATATTATA
15132783 GTTAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATAATTACTATATTATAAT
Found at i:15133022 original size:19 final size:19
Alignment explanation
Indices: 15132995--15133031 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15132985 TAATACTATA
*
15132995 TAAATATTAATAATAATTG
1 TAAAAATTAATAATAATTG
15133014 TAAAAATTAATAATAATT
1 TAAAAATTAATAATAATT
15133032 ACTAACCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
TAAAAATTAATAATAATTG
Found at i:15133323 original size:20 final size:18
Alignment explanation
Indices: 15133247--15133314 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
15133237 AATTATATTT
*
15133247 ATTAATTTAATAATTCATA
1 ATTAATTTAATTATT-ATA
15133266 A-TAATTTCAAATTA-TAGTA
1 ATTAATTT--AATTATTA-TA
15133285 ATTAAGTCTTAATTATTATA
1 ATTAA-T-TTAATTATTATA
15133305 ATTAATTTAA
1 ATTAATTTAA
15133315 ATTAATTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
18 11 0.27
19 6 0.15
20 19 0.46
21 3 0.07
22 2 0.05
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (18 bp):
ATTAATTTAATTATTATA
Found at i:15133453 original size:19 final size:22
Alignment explanation
Indices: 15133410--15133457 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
15133400 AATTTATTAA
*
15133410 ATTATTAGTATAATAATTATTT
1 ATTATTAGTATAATAATTATCT
15133432 ATTATTA-TA-AATAATTA-CT
1 ATTATTAGTATAATAATTATCT
15133451 ATTATTA
1 ATTATTA
15133458 AATTAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 8 0.32
21 2 0.08
22 7 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTATTAGTATAATAATTATCT
Found at i:15133643 original size:20 final size:20
Alignment explanation
Indices: 15133620--15133660 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
15133610 TTTTTTTATC
*
15133620 AATTATTAGCCAAGTTAATA
1 AATTATTAGCCAAGCTAATA
15133640 AATTATTAGCCAAGCTAATA
1 AATTATTAGCCAAGCTAATA
15133660 A
1 A
15133661 TTAAATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (20 bp):
AATTATTAGCCAAGCTAATA
Found at i:15133853 original size:16 final size:18
Alignment explanation
Indices: 15133832--15133870 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
15133822 TAACCTTTTA
15133832 AATATT-ATTTA-ATATT
1 AATATTAATTTATATATT
15133848 AATATTAATTTATTATATT
1 AATATTAATTTA-TATATT
15133867 AATA
1 AATA
15133871 AGTTTGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
19 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AATATTAATTTATATATT
Found at i:15134137 original size:20 final size:20
Alignment explanation
Indices: 15134112--15134150 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15134102 TTCAAATTAA
15134112 TAATTTTATAA-ATATAATAT
1 TAATTTTA-AACATATAATAT
15134132 TAATTTTAAACATATAATA
1 TAATTTTAAACATATAATA
15134151 AAAAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TAATTTTAAACATATAATAT
Found at i:15134227 original size:9 final size:9
Alignment explanation
Indices: 15134170--15134234 Score: 53
Period size: 9 Copynumber: 7.0 Consensus size: 9
15134160 ATATACAATT
15134170 TAATTATAA
1 TAATTATAA
*
15134179 TAATTGACAA
1 TAATT-ATAA
15134189 T-ATT-TAA
1 TAATTATAA
*
15134196 TTATTATAA
1 TAATTATAA
15134205 TTAATTAAATAA
1 -TAATT--ATAA
15134217 TAATTATAA
1 TAATTATAA
*
15134226 TAAATATAA
1 TAATTATAA
15134235 CTATATTGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 3 0.07
8 3 0.07
9 23 0.50
10 8 0.17
11 5 0.11
12 4 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (9 bp):
TAATTATAA
Found at i:15134512 original size:12 final size:11
Alignment explanation
Indices: 15134476--15134521 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
15134466 TAAATAAATA
15134476 TAATTATATAT
1 TAATTATATAT
*
15134487 TAATTATTTAAT
1 TAATTATAT-AT
15134499 TAATTATAATAT
1 TAATTAT-ATAT
15134511 TAATTGATATA
1 TAATT-ATATA
15134522 AATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 8 0.27
12 19 0.63
13 3 0.10
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
TAATTATATAT
Found at i:15134532 original size:21 final size:20
Alignment explanation
Indices: 15134481--15134534 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
15134471 AAATATAATT
*
15134481 ATATATTAATTATTTAATTAA
1 ATATATT-ATTAATTAATTAA
* * *
15134502 TTATAATATTAATTGATATAA
1 ATATATTATTAATTAAT-TAA
15134523 ATATATTATTAA
1 ATATATTATTAA
15134535 AATATTGTCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATATTATTAATTAATTAA
Found at i:15134673 original size:15 final size:14
Alignment explanation
Indices: 15134637--15134678 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
15134627 TATATAATAT
15134637 ATTATTATATATCA-A
1 ATTATTA-ATAT-AGA
15134652 ATTATTAATATAGA
1 ATTATTAATATAGA
15134666 ATTAATTAATATA
1 ATT-ATTAATATA
15134679 ATATTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 8 0.32
15 16 0.64
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTATTAATATAGA
Done.