Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168218.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_452, 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: 26320
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Found at i:1028 original size:21 final size:19
Alignment explanation
Indices: 980--1028 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
970 ATATTCACAA
*
980 TATAAT-TTTAATCCATAT
1 TATAATATTTAATCAATAT
998 TATAATTATTTAATGCAATAT
1 TATAA-TATTTAAT-CAATAT
1019 TATTAATATT
1 TA-TAATATT
1029 ATCTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 6 0.23
21 11 0.42
22 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAATATTTAATCAATAT
Found at i:1052 original size:13 final size:14
Alignment explanation
Indices: 1022--1054 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1012 GCAATATTAT
1022 TAATATTATCTAATA
1 TAAT-TTATCTAATA
1037 TAATTTATCT-ATA
1 TAATTTATCTAATA
1050 TAATT
1 TAATT
1055 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:1092 original size:27 final size:27
Alignment explanation
Indices: 1062--1113 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1052 ATTATAAATA
1062 AATAAATTATTAAT-AATAATTAATATG
1 AATAAATTA-TAATCAATAATTAATATG
* *
1089 AATAGATTATAATCATTAATTAATA
1 AATAAATTATAATCAATAATTAATA
1114 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (27 bp):
AATAAATTATAATCAATAATTAATATG
Found at i:2750 original size:33 final size:31
Alignment explanation
Indices: 2713--2780 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
2703 TAGATAGTCA
* *
2713 TAAT-ATTAAGATTATTATAACTTATTTAATTAC
1 TAATAATTAA-ATAATTAT-ACTAATTT-ATTAC
*
2746 TAATAATTAAATAATTATACTAATTTATTTC
1 TAATAATTAAATAATTATACTAATTTATTAC
2777 TAAT
1 TAAT
2781 CAAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 8 0.26
32 7 0.23
33 11 0.35
34 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAATTAAATAATTATACTAATTTATTAC
Found at i:3038 original size:16 final size:17
Alignment explanation
Indices: 3019--3059 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3009 TAATATTTAA
3019 TAATTCATA-TTAA-AAT
1 TAATT-ATATTTAAGAAT
3035 TAATTATATTTAAGAAT
1 TAATTATATTTAAGAAT
*
3052 TAAATATA
1 TAATTATA
3060 GATAATAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATTATATTTAAGAAT
Found at i:3589 original size:22 final size:21
Alignment explanation
Indices: 3560--3608 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
3550 ACTGTTTTTA
3560 ATAA-TAAATAGATAATAATCT
1 ATAACTAAATAGATAATAAT-T
***
3581 ATAACTAAATCTTTAATAATT
1 ATAACTAAATAGATAATAATT
3602 ATAACTA
1 ATAACTA
3609 TTACACTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAACTAAATAGATAATAATT
Found at i:4909 original size:21 final size:23
Alignment explanation
Indices: 4883--4952 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 23
4873 TTTATAATTT
4883 ATTAATATAATAATAA-ATTA-A
1 ATTAATATAATAATAATATTATA
*
4904 ATTAATATATTAATATTATATTATA
1 ATTAATATAATAATA--ATATTATA
4929 ATTTAATTATAATAATAATTATTA
1 A-TTAA-TATAATAATAA-TATTA
4953 ATTATTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 14 0.35
23 1 0.03
24 4 0.10
25 3 0.08
26 9 0.22
27 9 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAATATAATAATAATATTATA
Found at i:4926 original size:19 final size:19
Alignment explanation
Indices: 4882--4964 Score: 64
Period size: 21 Copynumber: 4.3 Consensus size: 19
4872 ATTTATAATT
*
4882 TATTAATATAATAATAAATTA
1 TATTAATATATTAAT--ATTA
*
4903 AATTAATATATTAATATTA
1 TATTAATATATTAATATTA
*
4922 TATT-ATA-ATTTA-ATTA
1 TATTAATATATTAATATTA
*
4938 TAATAATAATTATTAATTATTA
1 TATTAAT-A-TATTAA-TATTA
4960 TATTA
1 TATTA
4965 TATTTATATG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
16 7 0.14
17 6 0.12
18 4 0.08
19 7 0.14
20 4 0.08
21 13 0.27
22 8 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAATATATTAATATTA
Found at i:5079 original size:23 final size:23
Alignment explanation
Indices: 5052--5107 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
5042 TATTACTTAT
* *
5052 TATTATTTA-ATTATATATATAA
1 TATTATTTATATAATATAAATAA
*
5074 TAATTA-TCATATAATATAAATAA
1 T-ATTATTTATATAATATAAATAA
5097 TATTATTTATA
1 TATTATTTATA
5108 GAGATTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTATTTATATAATATAAATAA
Found at i:5315 original size:8 final size:8
Alignment explanation
Indices: 5293--5418 Score: 55
Period size: 8 Copynumber: 15.1 Consensus size: 8
5283 TCGTATTAAT
*
5293 TATTTTAA
1 TATTATAA
*
5301 TATTTATAT
1 TA-TTATAA
5310 TATTATAA
1 TATTATAA
5318 TATTCAATAA
1 TATT--ATAA
*
5328 AATTAAATAA
1 TATT--ATAA
5338 TATTATAA
1 TATTATAA
*
5346 TTATTATAG
1 -TATTATAA
*
5355 T-TTATAT
1 TATTATAA
5362 TATTATAA
1 TATTATAA
* *
5370 CATTATAC
1 TATTATAA
*
5378 TACTATAA
1 TATTATAA
5386 CTATT-T--
1 -TATTATAA
5392 TATTA-AA
1 TATTATAA
5399 TTATTACTAA
1 -TATTA-TAA
5409 TAATTATAA
1 T-ATTATAA
5418 T
1 T
5419 TGTTTGTTAT
Statistics
Matches: 90, Mismatches: 15, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
5 4 0.04
7 6 0.07
8 38 0.42
9 21 0.23
10 21 0.23
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (8 bp):
TATTATAA
Found at i:6569 original size:21 final size:19
Alignment explanation
Indices: 6521--6569 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
6511 ATATTCACAA
*
6521 TATAAT-TTTAATCCATAT
1 TATAATATTTAATCAATAT
6539 TATAATTATTTAATGCAATAT
1 TATAA-TATTTAAT-CAATAT
6560 TATTAATATT
1 TA-TAATATT
6570 ATCTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 6 0.23
21 11 0.42
22 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAATATTTAATCAATAT
Found at i:6593 original size:13 final size:14
Alignment explanation
Indices: 6563--6595 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6553 GCAATATTAT
6563 TAATATTATCTAATA
1 TAAT-TTATCTAATA
6578 TAATTTATCT-ATA
1 TAATTTATCTAATA
6591 TAATT
1 TAATT
6596 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:6633 original size:27 final size:27
Alignment explanation
Indices: 6603--6654 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6593 ATTATAAATA
6603 AATAAATTATTAAT-AATAATTAATATG
1 AATAAATTA-TAATCAATAATTAATATG
* *
6630 AATAGATTATAATCATTAATTAATA
1 AATAAATTATAATCAATAATTAATA
6655 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (27 bp):
AATAAATTATAATCAATAATTAATATG
Found at i:8309 original size:33 final size:31
Alignment explanation
Indices: 8272--8339 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
8262 TAGATAGTCA
* *
8272 TAAT-ATTAAGATTATTATAACTTATTTAATTAC
1 TAATAATTAA-ATAATTAT-ACTAATTT-ATTAC
*
8305 TAATAATTAAATAATTATACTAATTTATTTC
1 TAATAATTAAATAATTATACTAATTTATTAC
8336 TAAT
1 TAAT
8340 CAAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 8 0.26
32 7 0.23
33 11 0.35
34 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAATTAAATAATTATACTAATTTATTAC
Found at i:8613 original size:14 final size:14
Alignment explanation
Indices: 8568--8613 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
8558 GCAATAATGA
8568 TAATATTTAATAAT
1 TAATATTTAATAAT
* *
8582 TCATATTAAATTAAT
1 TAATATTTAA-TAAT
*
8597 TAATATTTAAGAAT
1 TAATATTTAATAAT
8611 TAA
1 TAA
8614 ATATAGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATATTTAATAAT
Found at i:9304 original size:28 final size:25
Alignment explanation
Indices: 9243--9296 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
9233 TATATTATAG
*
9243 TATTAGAT-ATAATTAGTAAAAATA
1 TATTAAATAATAATTAGTAAAAATA
* *
9267 TATTTAATAATAATTATTAAAAATA
1 TATTAAATAATAATTAGTAAAAATA
9292 T-TTAA
1 TATTAA
9297 TTAAATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TATTAAATAATAATTAGTAAAAATA
Found at i:9310 original size:24 final size:23
Alignment explanation
Indices: 9261--9320 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
9251 ATAATTAGTA
*
9261 AAAATATATTTAATAATAATTATT
1 AAAA-ATATTTAATAATAAATATT
9285 AAAAATATTTAATTAAATAAAT-TT
1 AAAAATATTTAA-T-AATAAATATT
* *
9309 AAATATAATTAA
1 AAAAATATTTAA
9321 ACTAATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 8 0.26
24 17 0.55
25 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATATTTAATAATAAATATT
Found at i:10511 original size:43 final size:48
Alignment explanation
Indices: 10420--10515 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 48
10410 ATAAATTAAT
10420 TTATAATTTATTAATATAATAATAAATTAAATTAATATATTAAATATTATA
1 TTATAATTTA-TAATATAATAATAAATT-AATTAATATATT-AATATTATA
*
10471 TTATAATTTA-ATTATAATAAT-AATT-ATTAAT-TATT-ATATTATA
1 TTATAATTTATAATATAATAATAAATTAATTAATATATTAATATTATA
10514 TT
1 TT
10516 TATATGAGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
43 10 0.23
45 4 0.09
46 6 0.14
48 4 0.09
49 10 0.23
51 10 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (48 bp):
TTATAATTTATAATATAATAATAAATTAATTAATATATTAATATTATA
Found at i:10626 original size:23 final size:23
Alignment explanation
Indices: 10599--10654 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
10589 TATTACTTAT
* *
10599 TATTATTTA-ATTATATATATAA
1 TATTATTTATATAATATAAATAA
*
10621 TAATTA-TCATATAATATAAATAA
1 T-ATTATTTATATAATATAAATAA
10644 TATTATTTATA
1 TATTATTTATA
10655 GAGATTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTATTTATATAATATAAATAA
Found at i:12116 original size:21 final size:19
Alignment explanation
Indices: 12068--12116 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
12058 ATATTCACAA
*
12068 TATAAT-TTTAATCCATAT
1 TATAATATTTAATCAATAT
12086 TATAATTATTTAATGCAATAT
1 TATAA-TATTTAAT-CAATAT
12107 TATTAATATT
1 TA-TAATATT
12117 ATCTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 6 0.23
21 11 0.42
22 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAATATTTAATCAATAT
Found at i:12140 original size:13 final size:14
Alignment explanation
Indices: 12110--12142 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
12100 GCAATATTAT
12110 TAATATTATCTAATA
1 TAAT-TTATCTAATA
12125 TAATTTATCT-ATA
1 TAATTTATCTAATA
12138 TAATT
1 TAATT
12143 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:12180 original size:27 final size:27
Alignment explanation
Indices: 12150--12201 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
12140 ATTATAAATA
12150 AATAAATTATTAAT-AATAATTAATATG
1 AATAAATTA-TAATCAATAATTAATATG
* *
12177 AATAGATTATAATCATTAATTAATA
1 AATAAATTATAATCAATAATTAATA
12202 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (27 bp):
AATAAATTATAATCAATAATTAATATG
Found at i:13852 original size:33 final size:31
Alignment explanation
Indices: 13815--13882 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
13805 TAGATAGTCA
* *
13815 TAAT-ATTAAGATTATTATAACTTATTTAATTAC
1 TAATAATTAA-ATAATTAT-ACTAATTT-ATTAC
*
13848 TAATAATTAAATAATTATACTAATTTATTTC
1 TAATAATTAAATAATTATACTAATTTATTAC
13879 TAAT
1 TAAT
13883 CAAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 8 0.26
32 7 0.23
33 11 0.35
34 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAATTAAATAATTATACTAATTTATTAC
Found at i:14155 original size:14 final size:14
Alignment explanation
Indices: 14110--14155 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
14100 GCAATAATGA
14110 TAATATTTAATAAT
1 TAATATTTAATAAT
* *
14124 TCATATTAAATTAAT
1 TAATATTTAA-TAAT
*
14139 TAATATTTAAGAAT
1 TAATATTTAATAAT
14153 TAA
1 TAA
14156 ATATAGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATATTTAATAAT
Found at i:14841 original size:26 final size:25
Alignment explanation
Indices: 14780--14848 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
14770 AAGATTATAT
14780 TATAGTATTAGATATAATTAGTAAAAA
1 TATA-TATTA-ATATAATTAGTAAAAA
*
14807 TATAT-TTAATATAATTATTAAAAAA
1 TATATATTAATATAATTAGT-AAAAA
* *
14832 TATTTATTAATAAAATT
1 TATATATTAATATAATT
14849 TAAATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.27
25 12 0.32
26 11 0.30
27 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TATATATTAATATAATTAGTAAAAA
Found at i:14844 original size:24 final size:24
Alignment explanation
Indices: 14791--14837 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14781 ATAGTATTAG
14791 ATATAATTAGTAAAAATATATTTA
1 ATATAATTAGTAAAAATATATTTA
*
14815 ATATAATTATTAAAAA-ATATTTA
1 ATATAATTAGTAAAAATATATTTA
14838 TTAATAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATAATTAGTAAAAATATATTTA
Found at i:15016 original size:18 final size:19
Alignment explanation
Indices: 14993--15030 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
14983 ATTATCGTTA
14993 TATTTA-ACTAATATATAT
1 TATTTATACTAATATATAT
*
15011 TATTTATTAGTAATATATAT
1 TATTTA-TACTAATATATAT
15031 AATACTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
TATTTATACTAATATATAT
Found at i:15031 original size:22 final size:22
Alignment explanation
Indices: 15003--15047 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
14993 TATTTAACTA
* *
15003 ATATATATTATTTATTAGTAAT
1 ATATATAATACTTATTAGTAAT
15025 ATATATAATACTTATTAGTAAT
1 ATATATAATACTTATTAGTAAT
15047 A
1 A
15048 ATTGAGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATATAATACTTATTAGTAAT
Found at i:15421 original size:18 final size:18
Alignment explanation
Indices: 15400--15450 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
15390 TGATAAACTA
15400 TATTATTATCTTAATTAT
1 TATTATTATCTTAATTAT
*
15418 TATTAATTA-C-AACATTAT
1 TATT-ATTATCTTA-ATTAT
15436 TATTATTATCTTAAT
1 TATTATTATCTTAAT
15451 AATAATTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
17 5 0.19
18 17 0.63
19 5 0.19
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATTATCTTAATTAT
Found at i:15488 original size:27 final size:30
Alignment explanation
Indices: 15447--15516 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 30
15437 ATTATTATCT
*
15447 TAATAATAATT-TAATAAT-TTATAA-TAC
1 TAATAATAATTATAATAATCTAATAATTAC
*
15474 TAATAAT-ATTATAATTATCCTAATAATTAC
1 TAATAATAATTATAATAAT-CTAATAATTAC
*
15504 TAATAATGATTAT
1 TAATAATAATTAT
15517 CTTTAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 3 0.08
27 13 0.36
29 5 0.14
30 10 0.28
31 5 0.14
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (30 bp):
TAATAATAATTATAATAATCTAATAATTAC
Found at i:15606 original size:11 final size:11
Alignment explanation
Indices: 15575--15737 Score: 51
Period size: 11 Copynumber: 14.5 Consensus size: 11
15565 TGATTTAGTT
15575 ATATAATTTATA
1 ATATAA-TTATA
15587 ATATAATTATA
1 ATATAATTATA
* *
15598 GTATTATTAT-
1 ATATAATTATA
*
15608 ATTTAA-TACTTA
1 ATATAATTA--TA
15620 ATAT-ATTATTTAA
1 ATATAATTA--T-A
*
15633 ACATATATTATTA
1 ATATA-ATTA-TA
*
15646 ATTTATATT-TA
1 ATATA-ATTATA
15657 ATAT-A-TA-A
1 ATATAATTATA
15665 ATATAATTATA
1 ATATAATTATA
15676 A-ATATATCTAT-
1 ATATA-AT-TATA
15687 ATAT-ATTATA
1 ATATAATTATA
*
15697 TATGTATATTAT-
1 -ATATA-ATTATA
*
15709 ATATTATTTATA
1 ATA-TAATTATA
*
15721 AAATAATTATA
1 ATATAATTATA
15732 ATATAA
1 ATATAA
15738 CAATATATAT
Statistics
Matches: 114, Mismatches: 17, Indels: 41
0.66 0.10 0.24
Matches are distributed among these distances:
8 6 0.05
9 7 0.06
10 10 0.09
11 46 0.40
12 22 0.19
13 17 0.15
14 2 0.02
15 4 0.04
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (11 bp):
ATATAATTATA
Found at i:15631 original size:19 final size:19
Alignment explanation
Indices: 15607--15662 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
15597 AGTATTATTA
15607 TATTTAATACTTAATATAT
1 TATTTAATACTTAATATAT
*
15626 TATTTAA-ACAT-ATATTAT
1 TATTTAATACTTAATA-TAT
*
15644 TAATTT-ATATTTAATATAT
1 T-ATTTAATACTTAATATAT
15663 AAATATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
17 3 0.10
18 8 0.27
19 16 0.53
20 3 0.10
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAATACTTAATATAT
Found at i:15696 original size:44 final size:43
Alignment explanation
Indices: 15574--15697 Score: 121
Period size: 44 Copynumber: 2.7 Consensus size: 43
15564 TTGATTTAGT
15574 TATATAATTTATAATATAATTATAGTATTATTATATTTAATACTTAA
1 TATATAATTTA-AATAT-ATTATA-TA-TATTATATTTAATACTTAA
*
15621 TATATTATTTAAACATATATTAT-TA-ATTTATATTTAATA-TATAA
1 TATATAATTT-AA-ATATATTATATATA-TTATATTTAATACT-TAA
15665 -ATATAATTATAAATATATCTATATATATTATAT
1 TATATAATT-TAAATATAT-TATATATATTATAT
15698 ATGTATATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 19
0.76 0.02 0.22
Matches are distributed among these distances:
42 6 0.09
43 14 0.21
44 24 0.36
45 3 0.04
47 15 0.22
48 5 0.07
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (43 bp):
TATATAATTTAAATATATTATATATATTATATTTAATACTTAA
Found at i:15706 original size:13 final size:12
Alignment explanation
Indices: 15684--15720 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
15674 TAAATATATC
15684 TATA-TATATTA
1 TATATTATATTA
15695 TATATGTATATTA
1 TATAT-TATATTA
15708 TATATTAT-TTA
1 TATATTATATTA
15719 TA
1 TA
15721 AAATAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.38
12 3 0.12
13 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (12 bp):
TATATTATATTA
Found at i:15712 original size:15 final size:17
Alignment explanation
Indices: 15677--15710 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15667 ATAATTATAA
15677 ATATATCTATATATATT
1 ATATATCTATATATATT
*
15694 ATATATGTATATTATAT
1 ATATATCTATA-TATAT
15711 ATTATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATATCTATATATATT
Found at i:15749 original size:20 final size:19
Alignment explanation
Indices: 15649--15749 Score: 61
Period size: 20 Copynumber: 5.4 Consensus size: 19
15639 ATTATTAATT
15649 TATATT-TAATATATAAATA
1 TATATTATAATATA-AAATA
**
15668 TA-ATTATAAATATATCTATA
1 TATATTAT-AATATA-AAATA
* * *
15688 TATATTATATATGTATATTA
1 TATATTATA-ATATAAAATA
*
15708 TATATTAT-TTAT-AAA-A
1 TATATTATAATATAAAATA
15724 TA-ATTATAATATAACAATA
1 TATATTATAATATAA-AATA
15743 TATATTA
1 TATATTA
15750 GTTATTATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 17
0.69 0.12 0.19
Matches are distributed among these distances:
15 5 0.08
16 6 0.10
17 2 0.03
18 7 0.11
19 6 0.10
20 27 0.44
21 9 0.15
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (19 bp):
TATATTATAATATAAAATA
Found at i:15920 original size:22 final size:22
Alignment explanation
Indices: 15846--15937 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 22
15836 TTTATAAAAT
*
15846 AATAATAATAATAATAATTTATTA
1 AATAATAATAATTATAA-TTA-TA
** *
15870 GTTAATTAATCATTAATTAATT-TA
1 AATAA-TAATAATT-A-TAATTATA
*
15894 TATAATAAT-ATTACTAATTATA
1 AATAATAATAATTA-TAATTATA
*
15916 AATAATCATAATTATAATTATA
1 AATAATAATAATTATAATTATA
15938 GATTCATAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
21 6 0.11
22 20 0.37
23 8 0.15
24 8 0.15
25 6 0.11
26 3 0.06
27 3 0.06
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (22 bp):
AATAATAATAATTATAATTATA
Found at i:18298 original size:19 final size:18
Alignment explanation
Indices: 18274--18314 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
18264 TCCAAAATAA
18274 TTAATTAAATTCAATTAAT
1 TTAATTAAATTCAATT-AT
* *
18293 TTAATTAATTTTAATTAT
1 TTAATTAAATTCAATTAT
18311 TTAA
1 TTAA
18315 AATAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTAAATTCAATTAT
Found at i:18344 original size:21 final size:22
Alignment explanation
Indices: 18315--18362 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
18305 AATTATTTAA
18315 AATAATTTAAAGAATTAAAT-T
1 AATAATTTAAAGAATTAAATAT
* *
18336 AATACTTTAAAGAATTATATAT
1 AATAATTTAAAGAATTAAATAT
18358 AATAA
1 AATAA
18363 AATTAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
AATAATTTAAAGAATTAAATAT
Found at i:18943 original size:181 final size:179
Alignment explanation
Indices: 18555--19494 Score: 682
Period size: 180 Copynumber: 5.2 Consensus size: 179
18545 TTTGTGAACT
* * * ** *
18555 AAAACAATTGTTTTATGACAAAACAAAA-ATTCACAATGATTTTAAATAGATAATTGCTCAAATA
1 AAAA-AATTGTTTTATGATAAAACAAAAGA-TCAGAATGATTTAAAATAGATAATTATTCTAATA
** * * * * *
18619 GTCATAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCT
64 GTCATAACTATTTGAAC-TGTTCAGCAAACACATTTA-TTTTTTAAATATCTTACTTATTAAT-T
* * ** *
18684 TTCAAAA-GTTAATAAATTAGTATTATTTTCT-T-TTGATAAGCTTATATGAACTG
126 TTTAAAATATTAATAAATTAGTATTATTTT-TATCTAAATAAGCTTATATGAA-AG
* * * * * * * *
18737 AAACAATTATTTGATGATTAAACAAAAGGTCAGAACGATTTAAAATAGAAAATTATTCTAATAAT
1 AAAAAATTGTTTTATGATAAAACAAAAGATCAGAATGATTTAAAATAGATAATTATTCTAATAGT
* * * *
18802 C-TATACTATTTGAACTGATCGGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTCA
66 CATA-ACTATTTGAACTGTTCAGCAAACACATTTATTTTTTAAATATCTTACTTATTAATTTTTA
* *
18866 AAATATTATTAAATTAGTATTATTTTTATCTAAATAAGCTTATATGATAAA
130 AAATATTAATAAATTAGTATTATTTTTATCTAAATAAGCTTATATGA-AAG
* * * * *
18917 AAAAATATTGTTTTATGATAAAAC-AAAGATCATAACGATTTAAGATTA-ATATTTATTCAAATA
1 AAAAA-ATTGTTTTATGATAAAACAAAAGATCAGAATGATTTAA-AATAGATAATTATTCTAATA
* * * * * * * *
18980 GTCATAATTATTAGAACTGCTT-TG-AAAAACAGCTTTAGTTTTTAAATCTCTTGCTTAATAATT
64 GTCATAACTATTTGAACTG-TTCAGCAAACACA--TTTATTTTTTAAATATCTTACTTATTAATT
* * * * * * *
19043 TTTTAAATATTAATAAAGTAGTATTA-TTTTATTTCAAATAAGTTTTTATTAACTG
126 TTTAAAATATTAATAAATTAGTATTATTTTTATCT-AAATAAGCTTATATGAA-AG
* * * * * * *
19098 AAACAATTGTTTCATGACAAAACAAAATG-TCAAAATAATTTTAAACAGATAATTATT-TAAATA
1 AAAAAATTGTTTTATGATAAAACAAAA-GATCAGAATGATTTAAAATAGATAATTATTCT-AATA
* * * * *
19161 GTCATATCTATTTGAAATTGTTCAGTAAATAGATTTATTTTTTTAAATATCTTA-TT-TTAATTT
64 GTCATAACTATTTG-AACTGTTCAGCAAACACATTTA-TTTTTTAAATATCTTACTTATTAATTT
** * * * * **
19224 TTTGAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTGTGAACT
127 TTAAAATATTAATAAATTAGTATTATTTTTA-TCTAAATAAGCTTATATGAAAG
*
19277 AAAATAATTGTTTTATGACT-AAACAAAAGCAT-AGAATGATTTAAAATAGATAATTATTCTGAT
1 AAAA-AATTGTTTTATGA-TAAAACAAAAG-ATCAGAATGATTTAAAATAGATAATTATTCTAAT
** * *
19340 AGTTTTAACTATTTGAACTAGTTCAGCTAACATATTTATTTTTT-AA-ATC-T-CTTATTAATTT
63 AGTCATAACTATTTGAACT-GTTCAGCAAACACATTTATTTTTTAAATATCTTACTTATTAATTT
* * ** * * *
19401 TTGAAATATTATTAAATTAGTACCATTTTAATCTGAATAAGCTTGTATGAAAGG
127 TTAAAATATTAATAAATTAGTATTATTTTTATCTAAATAAGCTTATATGAAA-G
* * * * **
19455 AAACAATTGTTGTATGACAAAA-TAAAGATCATTATGATTT
1 AAAAAATTGTTTTATGATAAAACAAAAGATCAGAATGATTT
19495 GATTATAATT
Statistics
Matches: 599, Mismatches: 124, Indels: 76
0.75 0.16 0.10
Matches are distributed among these distances:
175 2 0.00
176 15 0.03
177 61 0.10
178 18 0.03
179 61 0.10
180 221 0.37
181 194 0.32
182 22 0.04
183 5 0.01
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (179 bp):
AAAAAATTGTTTTATGATAAAACAAAAGATCAGAATGATTTAAAATAGATAATTATTCTAATAGT
CATAACTATTTGAACTGTTCAGCAAACACATTTATTTTTTAAATATCTTACTTATTAATTTTTAA
AATATTAATAAATTAGTATTATTTTTATCTAAATAAGCTTATATGAAAG
Found at i:19385 original size:361 final size:358
Alignment explanation
Indices: 18493--19392 Score: 843
Period size: 361 Copynumber: 2.5 Consensus size: 358
18483 TTTAAATCTC
* * * **** * *
18493 TTAATTTTCAAAATATTAAGAAAAGTAGTATTATTTTATTTTTGGATAAACTTTTGTGAACTAAA
1 TTAATTTTCAAAATATTAA-TAAATTAGTATTATTTT-TATCCAAATAAGCTTATGTGAACTAAA
* * * **
18558 ACAATTGTTTTATGACAAAACAAAA-ATTCACAATGATTTTAAATAGATAATTGCTCAAATAGTC
64 AAAATTGTTTTATGACTAAACAAAAGA-TCACAATGATTTAAAATAGATAATTATTCAAATAGTC
* * * * *
18622 ATAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTC
128 ATAACTATTTGAAC-TGTTTGAT-AACAAATTTA-TTTTTTAAATCTCTTGCTTAATAATCTTTC
* * ** *
18687 AAAAGTTAATAAATTAGTATTATTTTCTTTTGATAAGCTTATATGAACTGAAACAATTATTTGAT
190 AAAAGTTAATAAAGTAGTATTATTTTATTTAAATAAGCTTATATGAACTGAAACAATTATTTCAT
** * * *
18752 GATTAAACAAAAGGTCAGAACGATTTAAAATAGAAAATTATTCTAATAATCTATACTATTTGAAC
255 GACAAAACAAAAGGTCAAAACAATTTAAAACAGAAAATTATTCTAATAATCTATACTATTTGAAC
* *
18817 TGATCGGCAAACACATTTATTTTTTAAATCTCTTACTTA
320 TGATCAGCAAACACATTTATTTTTTAAATATCTTACTTA
* * * *
18856 TTAATTTTCAAAATATTATTAAATTAGTATTATTTTTATCTAAATAAGCTTATATGATA-AAAAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATGTGA-ACTAAAA
* * * *
18920 AATATTGTTTTATGA-TAAA-ACAAAGATCATAACGATTTAAGATTA-ATATTTATTCAAATAGT
65 AA-ATTGTTTTATGACTAAACA-AAAGATCACAATGATTTAA-AATAGATAATTATTCAAATAGT
* * * ** * * *
18982 CATAATTATTAGAACTGCTTTGAAAAACAGCTTTAGTTTTTAAATCTCTTGCTTAATAATTTTTT
127 CATAACTATTTGAACTG-TTTG-ATAACAAATTTATTTTTTAAATCTCTTGCTTAATAATCTTTC
* * * *
19047 AAATA-TTAATAAAGTAGTATTATTTTATTTCAAATAAGTTTTTATTAACTGAAACAATTGTTTC
190 AAA-AGTTAATAAAGTAGTATTATTTTATTT-AAATAAGCTTATATGAACTGAAACAATTATTTC
* * * * *
19111 ATGACAAAACAAAATGTCAAAATAATTTTAAACAGATAATTATT-TAAATAGTC-ATATCTATTT
253 ATGACAAAACAAAAGGTCAAAACAATTTAAAACAGAAAATTATTCT-AATAATCTATA-CTATTT
* * * * *
19174 GAAATTGTTCAGTAAATAGATTTATTTTTTTAAATATCTTA-TT-
316 G-AACTGATCAGCAAACACATTTA-TTTTTTAAATATCTTACTTA
*** * *
19217 TTAATTTTTTGAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTGTGAACTAAAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTA-TCCAAATAAGCTTATGTGAACTAAAA
* * ** **
19281 TAATTGTTTTATGACTAAACAAAAGCAT-AGAATGATTTAAAATAGATAATTATTCTGATAGTTT
65 AAATTGTTTTATGACTAAACAAAAG-ATCACAATGATTTAAAATAGATAATTATTCAAATAGTCA
* * *
19345 TAACTATTTGAACTAGTTCAGCTAACATATTTATTTTTTAAATCTCTT
129 TAACTATTTGAACT-GTT-TGATAACAAATTTATTTTTTAAATCTCTT
19393 ATTAATTTTT
Statistics
Matches: 431, Mismatches: 85, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
360 77 0.18
361 266 0.62
362 55 0.13
363 33 0.08
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (358 bp):
TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATGTGAACTAAAAA
AATTGTTTTATGACTAAACAAAAGATCACAATGATTTAAAATAGATAATTATTCAAATAGTCATA
ACTATTTGAACTGTTTGATAACAAATTTATTTTTTAAATCTCTTGCTTAATAATCTTTCAAAAGT
TAATAAAGTAGTATTATTTTATTTAAATAAGCTTATATGAACTGAAACAATTATTTCATGACAAA
ACAAAAGGTCAAAACAATTTAAAACAGAAAATTATTCTAATAATCTATACTATTTGAACTGATCA
GCAAACACATTTATTTTTTAAATATCTTACTTA
Found at i:19544 original size:23 final size:24
Alignment explanation
Indices: 19498--19555 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
19488 ATGATTTGAT
* *
19498 TATAATTA-TAATAAATATATTAA
1 TATAATTATTATTAAATATAATAA
* *
19521 TTTATTTATTATTAAATA-AATAA
1 TATAATTATTATTAAATATAATAA
19544 TATAATTATTAT
1 TATAATTATTAT
19556 AATTTAATCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TATAATTATTATTAAATATAATAA
Found at i:19729 original size:38 final size:33
Alignment explanation
Indices: 19687--19755 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 33
19677 ACAACATTAA
*
19687 TTATTATAATGTTATATTTATTATTAATAATAACTAAT
1 TTATTA-AAT-TTATA-CTATTATT-ATAA-AACTAAT
19725 TTATTAAATTTATACTATTATTATAAAACTA
1 TTATTAAATTTATACTATTATTATAAAACTA
19756 TATTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 5 0.17
34 4 0.13
35 7 0.23
36 5 0.17
37 3 0.10
38 6 0.20
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (33 bp):
TTATTAAATTTATACTATTATTATAAAACTAAT
Found at i:19757 original size:19 final size:20
Alignment explanation
Indices: 19735--19772 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
19725 TTATTAAATT
*
19735 TATACTATTATT-ATAAAAC
1 TATACTATAATTAATAAAAC
*
19754 TATATTATAATTAATAAAA
1 TATACTATAATTAATAAAA
19773 AATCAATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TATACTATAATTAATAAAAC
Found at i:19980 original size:20 final size:21
Alignment explanation
Indices: 19944--19987 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
19934 TTTAATATAG
*
19944 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
19964 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
19985 TTT
1 TTT
19988 TTTGTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:20140 original size:14 final size:14
Alignment explanation
Indices: 20121--20158 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
20111 CTATTTAGGG
20121 AATTTAATTAATTA
1 AATTTAATTAATTA
*
20135 AATTTAA-TAATTT
1 AATTTAATTAATTA
20148 AATTTAATTAA
1 AATTTAATTAA
20159 ATATTAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTTAATTAATTA
Found at i:20176 original size:23 final size:22
Alignment explanation
Indices: 20128--20176 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
20118 GGGAATTTAA
*
20128 TTAATTAAATTTAATAATTTAAT
1 TTAATTAAATTTAATAAATT-AT
20151 TTAATTAAATATTAACTAAATT-T
1 TTAATTAAAT-TTAA-TAAATTAT
20174 TTA
1 TTA
20177 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 4 0.17
25 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTAAATTTAATAAATTAT
Found at i:20446 original size:21 final size:20
Alignment explanation
Indices: 20422--20467 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
20412 AATAACTATC
20422 ATAATTAGTATTATTAAATTA
1 ATAATTAGTATTATTAAA-TA
* *
20443 ATAATTATTATTTTTAAATA
1 ATAATTAGTATTATTAAATA
20463 ATAAT
1 ATAAT
20468 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATTAGTATTATTAAATA
Found at i:20770 original size:15 final size:15
Alignment explanation
Indices: 20721--20767 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
20711 AAATTTAATC
*
20721 TAATAATATTTATAAAT
1 TAATAAT-TTTA-ATAT
20738 T-ATAATTTTAATAT
1 TAATAATTTTAATAT
20752 TAATAATTATTAATAT
1 TAATAATT-TTAATAT
20768 AATTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 4 0.15
15 10 0.37
16 12 0.44
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATAATTTTAATAT
Found at i:21282 original size:21 final size:22
Alignment explanation
Indices: 21258--21308 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
21248 ATTCATTGAC
21258 AATTTAATTAATAAT-TTTATA-
1 AATTTAA-TAATAATATTTATAT
*
21279 AATTTAATAATTATATTTATAT
1 AATTTAATAATAATATTTATAT
21301 AA-TTAATA
1 AATTTAATA
21309 TTATAATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 6 0.22
21 19 0.70
22 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTAATAATAATATTTATAT
Found at i:21412 original size:15 final size:15
Alignment explanation
Indices: 21384--21434 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
21374 TTAAAAATAA
21384 TTAATAACTATTATAT
1 TTAATAA-TATTATAT
21400 TTAATAATATTATAAT
1 TTAATAATATTAT-AT
*
21416 TAATATAATCATTATAT
1 TTA-ATAAT-ATTATAT
21433 TT
1 TT
21435 TAGTTATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 11 0.37
17 8 0.27
18 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATAATATTATAT
Found at i:21593 original size:40 final size:38
Alignment explanation
Indices: 21548--21664 Score: 100
Period size: 37 Copynumber: 3.1 Consensus size: 38
21538 AAGAGATTTA
*
21548 ATTATTAATTATAGTTAAATAATTATAAC-TATAATTAAT
1 ATTATTAATTA-A-TTAAATAATTATAACATATAATAAAT
* * *
21587 AGTTATTTATTAATTAAA-AA-GATAGCATATAATAAAT
1 A-TTATTAATTAATTAAATAATTATAACATATAATAAAT
* * *
21624 ATTATTAATTAATTTATATAA-T-TAATATATAATATAT
1 ATTATTAATTAA-TTAAATAATTATAACATATAATAAAT
21661 ATTA
1 ATTA
21665 ATAGTAATAG
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
36 14 0.22
37 32 0.50
38 7 0.11
39 2 0.03
40 9 0.14
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (38 bp):
ATTATTAATTAATTAAATAATTATAACATATAATAAAT
Found at i:21645 original size:13 final size:13
Alignment explanation
Indices: 21613--21654 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
21603 AAAAGATAGC
*
21613 ATATAATAAATATT
1 ATATAATTAAT-TT
21627 AT-TAATTAATTT
1 ATATAATTAATTT
*
21639 ATATAATTAATAT
1 ATATAATTAATTT
21652 ATA
1 ATA
21655 ATATATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 4 0.16
13 19 0.76
14 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATATAATTAATTT
Found at i:22139 original size:38 final size:39
Alignment explanation
Indices: 22077--22150 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 39
22067 TATTTTCTAA
**
22077 ATATTAATAAAAAAATATTATTTTATTTCAAACAAACTT
1 ATATTAATAAAAAAATATTATTTTATGACAAACAAACTT
* *
22116 ATATTAATAAAAACA-ATTGTTTTATGACAAACAAA
1 ATATTAATAAAAAAATATTATTTTATGACAAACAAA
22151 TCTTTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 17 0.55
39 14 0.45
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.36
Consensus pattern (39 bp):
ATATTAATAAAAAAATATTATTTTATGACAAACAAACTT
Found at i:22304 original size:21 final size:21
Alignment explanation
Indices: 22263--22304 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22253 AATTATTATC
*
22263 TTTAATTAAAATATAATAAAT
1 TTTAATTAAAATATAAAAAAT
*
22284 TTTAATTTATAAT-TAAAAAAT
1 TTTAA-TTAAAATATAAAAAAT
22305 AAATTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAATTAAAATATAAAAAAT
Found at i:24114 original size:177 final size:177
Alignment explanation
Indices: 23733--24241 Score: 480
Period size: 177 Copynumber: 2.8 Consensus size: 177
23723 TTTAAAATTG
* *
23733 TTAC-TTATTAATTTTTGGAACATTAATAAATTTATATTATTATTTTTAAATAAGCTTGAATGAA
1 TTACTTTATTAATTTTTGGAATATTAATAAA-TTATATTATT-TTTTTAAATAAGCTTAAATGAA
* ** *
23797 TAGAACCAATTGTTTTATGACAAAACAAAAGGTTGTAATGTTTTGAAATAGATAATTATTAAGAT
64 TAGAAACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTAAGAT
* * **
23862 AGTTATAACTATTTGAAATTGTTCGATAAACATATTATTTTTTTAATTCTC
129 AGTCATAACTATTTGAAATTGTTCGATAAAC--ATTATTTTTTAAAGGCTC
23913 TTACTTT-TTAATTTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGC-TAACATG
1 TTACTTTATTAATTTTTGGAATATTAATAAATTA-TATTATTTT-TTT-AAATAAGCTTAA-ATG
* * * *
23976 AATTGAAACAATTGTTTTATTAGCAAAACAAAATGTTACAATGATTTGAAGTAGAT-ATTATTCA
62 AATAGAAACAATTGTTTTATGA-CAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATT-A
* * * *
24040 A-ATAGTCATGACTA-TTGAACTTGTTTGGTAAAC-TTATTTTTTAAAAGGCT-
125 AGATAGTCATAACTATTTGAAATTGTTCGATAAACATTATTTTTT-AAAGGCTC
* * * ** ** * * * *
24090 TTA-TTTATTAATTGTTGAAATATTAATAAATCAATATTATTTAATCGAATAAACTCATATGGAT
1 TTACTTTATTAATTTTTGGAATATTAATAAAT-TATATTATTTTTTTAAATAAGCTTAAATGAAT
* * * * * *
24154 AGAAAACAATTGTTTAATGACAAAACAAAAAAGTCATAA-GAATTTGAAATAAATAATTATTTAG
65 AG-AAACAATTGTTTTATGACAAAAC-AAAAGGTTACAATG-ATTTGAAATAGATAATTATTAAG
* *
24218 ATAGTCATAACGATTTGAATTTGT
127 ATAGTCATAACTATTTGAAATTGT
24242 CAATAAATAG
Statistics
Matches: 271, Mismatches: 41, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
175 19 0.07
176 41 0.15
177 59 0.22
178 14 0.05
179 5 0.02
180 54 0.20
181 49 0.18
182 30 0.11
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (177 bp):
TTACTTTATTAATTTTTGGAATATTAATAAATTATATTATTTTTTTAAATAAGCTTAAATGAATA
GAAACAATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTAAGATAG
TCATAACTATTTGAAATTGTTCGATAAACATTATTTTTTAAAGGCTC
Found at i:24553 original size:15 final size:15
Alignment explanation
Indices: 24530--24559 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24520 CCTTTTGTAA
*
24530 TATTGTAATTATAAT
1 TATTATAATTATAAT
24545 TATTATAATTATAAT
1 TATTATAATTATAAT
24560 AGATTAGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTATAATTATAAT
Found at i:24884 original size:22 final size:21
Alignment explanation
Indices: 24859--24926 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
24849 TTAAATTAGA
24859 ATTAATATTATTAAATATTATT
1 ATTAATA-TATTAAATATTATT
*
24881 ATTAATATATTATTATAATTATT
1 ATTAATATATTA-AAT-ATTATT
* * *
24904 -GTAATAT-TGACATATTATT
1 ATTAATATATTAAATATTATT
24923 ATTA
1 ATTA
24927 CGATAATTAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
19 6 0.16
20 4 0.11
21 7 0.18
22 15 0.39
23 6 0.16
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTAATATATTAAATATTATT
Found at i:24896 original size:14 final size:14
Alignment explanation
Indices: 24864--24926 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
24854 TTAGAATTAA
24864 TATTATTAA-ATAT
1 TATTATTAATATAT
24877 TATTATTAATATAT
1 TATTATTAATATAT
24891 TATTA-TAAT-TATT
1 TATTATTAATATA-T
* * *
24904 GTAATATTGACATAT
1 -TATTATTAATATAT
24919 TATTATTA
1 TATTATTA
24927 CGATAATTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
12 2 0.05
13 14 0.35
14 19 0.47
15 3 0.08
16 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (14 bp):
TATTATTAATATAT
Found at i:25295 original size:23 final size:23
Alignment explanation
Indices: 25252--25295 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25242 ATAAAATATT
* *
25252 AATAAATATATTTATTCATTACA
1 AATAAAAATATTTATTAATTACA
*
25275 AATAAAAATATTTGTTAATTA
1 AATAAAAATATTTATTAATTA
25296 TATTAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
AATAAAAATATTTATTAATTACA
Found at i:25330 original size:30 final size:32
Alignment explanation
Indices: 25290--25360 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 32
25280 AAATATTTGT
*
25290 TAATTATATTAATTATAA-AT-TTAATATTAA
1 TAATTATATTAATTATAATATATTAATATAAA
*
25320 TAATTTTATTAATTATAATATATTAATATAAA
1 TAATTATATTAATTATAATATATTAATATAAA
25352 TATATTATA
1 TA-ATTATA
25361 ATATTTCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
30 17 0.49
31 2 0.06
32 11 0.31
33 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TAATTATATTAATTATAATATATTAATATAAA
Found at i:25343 original size:14 final size:14
Alignment explanation
Indices: 25294--25358 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 14
25284 ATTTGTTAAT
25294 TATATTAATTATAA
1 TATATTAATTATAA
25308 -AT-TTAATATTAATAA
1 TATATT-A-ATT-ATAA
*
25323 TTTTATTAATTATAA
1 -TATATTAATTATAA
25338 TATATTAA-TATAAA
1 TATATTAATTAT-AA
25352 TATATTA
1 TATATTA
25359 TAATATTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
12 2 0.05
13 6 0.14
14 19 0.45
15 8 0.19
16 3 0.07
17 2 0.05
18 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATATTAATTATAA
Found at i:26013 original size:14 final size:15
Alignment explanation
Indices: 25994--26022 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25984 TTACTTAAAT
25994 CAATTATT-TATTAA
1 CAATTATTATATTAA
26008 CAATTATTATATTAA
1 CAATTATTATATTAA
26023 AAAATAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
CAATTATTATATTAA
Done.