Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007522.1 Hibiscus syriacus cultivar Beakdansim tig00020969_pilon, 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: 67274
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Found at i:2795 original size:13 final size:13
Alignment explanation
Indices: 2777--2801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2767 TAATATTAAT
2777 ATTTAAATTATAG
1 ATTTAAATTATAG
2790 ATTTAAATTATA
1 ATTTAAATTATA
2802 TTAATAGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTAAATTATAG
Found at i:5338 original size:21 final size:23
Alignment explanation
Indices: 5304--5347 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
5294 ATTTCCAATC
*
5304 ATATTCTATAAAATTATATTAAT
1 ATATTCTATAAAATTAAATTAAT
5327 ATATTCT-T-AAATTAAATTAAT
1 ATATTCTATAAAATTAAATTAAT
5348 TTAGATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTCTATAAAATTAAATTAAT
Found at i:5539 original size:14 final size:14
Alignment explanation
Indices: 5520--5548 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5510 TATTAATATT
5520 TAAACTATAAATTA
1 TAAACTATAAATTA
5534 TAAACTATAAATTA
1 TAAACTATAAATTA
5548 T
1 T
5549 TATATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTATAAATTA
Found at i:6537 original size:15 final size:15
Alignment explanation
Indices: 6517--6545 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6507 TAGAACAGAC
6517 GCAGTGAGCAGTTTT
1 GCAGTGAGCAGTTTT
6532 GCAGTGAGCAGTTT
1 GCAGTGAGCAGTTT
6546 CAGCAAGAAC
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:0.21, C:0.14, G:0.34, T:0.31
Consensus pattern (15 bp):
GCAGTGAGCAGTTTT
Found at i:10887 original size:15 final size:17
Alignment explanation
Indices: 10847--10895 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 17
10837 CTTGTTTTAG
*
10847 ATTATTATTTGCATTTGA
1 ATTATT-TTTACATTTGA
*
10865 ATTATTTTTATATTT-A
1 ATTATTTTTACATTTGA
10881 ATT-TTTTTACATTTG
1 ATTATTTTTACATTTG
10896 GATCAGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 10 0.37
16 4 0.15
17 7 0.26
18 6 0.22
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (17 bp):
ATTATTTTTACATTTGA
Found at i:15246 original size:13 final size:14
Alignment explanation
Indices: 15223--15251 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15213 ATAATAATAT
15223 TAATATTTAAATTA
1 TAATATTTAAATTA
15237 TAAT-TTTAAATTA
1 TAATATTTAAATTA
15250 TA
1 TA
15252 TTAGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTTAAATTA
Found at i:15313 original size:19 final size:20
Alignment explanation
Indices: 15276--15319 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15266 AATTAAATTG
*
15276 ATTTAAATTATTATAATATT
1 ATTTAAATTATTATAATATA
* *
15296 ATTTAAA-TATTTTTATATA
1 ATTTAAATTATTATAATATA
15315 ATTTA
1 ATTTA
15320 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATTATTATAATATA
Found at i:15321 original size:34 final size:34
Alignment explanation
Indices: 15283--15360 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
15273 TTGATTTAAA
*
15283 TTATTATAATATTAT-TTAAATATTTTTATATAAT
1 TTATTATAATATTATATTAAATA-ATTTATATAAT
* *
15317 TTATTCTTAA-ATTATATTAATTAATTTATATAAT
1 TTATT-ATAATATTATATTAAATAATTTATATAAT
15351 TT-TTA-AATAT
1 TTATTATAATAT
15361 AATAAGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.05
32 2 0.05
33 2 0.05
34 22 0.59
35 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (34 bp):
TTATTATAATATTATATTAAATAATTTATATAAT
Found at i:18634 original size:19 final size:20
Alignment explanation
Indices: 18596--18640 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
18586 TAACATAAAA
18596 AATTTAAATTATTCTAATAT
1 AATTTAAATTATTCTAATAT
* * *
18616 TATTTAAA-TATTTTTATAT
1 AATTTAAATTATTCTAATAT
18635 AATTTA
1 AATTTA
18641 TTTGTTGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAAATTATTCTAATAT
Found at i:20764 original size:21 final size:23
Alignment explanation
Indices: 20730--20773 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
20720 ATTTCCAATC
*
20730 ATATTCTATAAAATTATATTAAT
1 ATATTCTATAAAATTAAATTAAT
20753 ATATTCT-T-AAATTAAATTAAT
1 ATATTCTATAAAATTAAATTAAT
20774 TTAGATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTCTATAAAATTAAATTAAT
Found at i:20908 original size:14 final size:14
Alignment explanation
Indices: 20889--20917 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
20879 TAGTAATATT
20889 TAAACTATAAATTA
1 TAAACTATAAATTA
20903 TAAACTATAAATTA
1 TAAACTATAAATTA
20917 T
1 T
20918 TATATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTATAAATTA
Found at i:26754 original size:13 final size:14
Alignment explanation
Indices: 26731--26759 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
26721 ATAATAATAT
26731 TAATATTTAAATTA
1 TAATATTTAAATTA
26745 TAAT-TTTAAATTA
1 TAATATTTAAATTA
26758 TA
1 TA
26760 TTAGTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTTAAATTA
Found at i:26821 original size:19 final size:20
Alignment explanation
Indices: 26784--26827 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
26774 AATTAAATTG
*
26784 ATTTAAATTATTATAATATT
1 ATTTAAATTATTATAATATA
* *
26804 ATTTAAA-TATTTTTATATA
1 ATTTAAATTATTATAATATA
26823 ATTTA
1 ATTTA
26828 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATTATTATAATATA
Found at i:26829 original size:34 final size:34
Alignment explanation
Indices: 26791--26868 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
26781 TTGATTTAAA
*
26791 TTATTATAATATTAT-TTAAATATTTTTATATAAT
1 TTATTATAATATTATATTAAATA-ATTTATATAAT
* *
26825 TTATTCTTAA-ATTATATTAATTAATTTATATAAT
1 TTATT-ATAATATTATATTAAATAATTTATATAAT
26859 TT-TTA-AATAT
1 TTATTATAATAT
26869 AATAAGGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.05
32 2 0.05
33 2 0.05
34 22 0.59
35 9 0.24
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (34 bp):
TTATTATAATATTATATTAAATAATTTATATAAT
Found at i:30138 original size:19 final size:20
Alignment explanation
Indices: 30100--30144 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
30090 TAACATAAAA
30100 AATTTAAATTATTCTAATAT
1 AATTTAAATTATTCTAATAT
* * *
30120 TATTTAAA-TATTTTTATAT
1 AATTTAAATTATTCTAATAT
30139 AATTTA
1 AATTTA
30145 TTTGTTGACC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATTTAAATTATTCTAATAT
Found at i:32266 original size:21 final size:23
Alignment explanation
Indices: 32232--32275 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
32222 ATTTCCAATC
*
32232 ATATTCTATAAAATTATATTAAT
1 ATATTCTATAAAATTAAATTAAT
32255 ATATTCT-T-AAATTAAATTAAT
1 ATATTCTATAAAATTAAATTAAT
32276 TTAGATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTCTATAAAATTAAATTAAT
Found at i:32410 original size:14 final size:14
Alignment explanation
Indices: 32391--32419 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32381 TAGTAATATT
32391 TAAACTATAAATTA
1 TAAACTATAAATTA
32405 TAAACTATAAATTA
1 TAAACTATAAATTA
32419 T
1 T
32420 TATATATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTATAAATTA
Found at i:43128 original size:2 final size:2
Alignment explanation
Indices: 43123--43172 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
43113 ATATAGACTC
43123 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
43165 GA GA GA GA
1 GA GA GA GA
43173 TGTTTCAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49753 original size:2 final size:2
Alignment explanation
Indices: 49746--49782 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
49736 AAACTTTAAT
49746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49783 CCAAATATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53033 original size:49 final size:49
Alignment explanation
Indices: 52961--53058 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
52951 TTTAGTCTTT
*
52961 ATACTATTGGTTTTGAATTTCATACAGGTAACAACGTGGATCAGTTGTC
1 ATACTATTGGTTTTGAATTTCATACAGGCAACAACGTGGATCAGTTGTC
* *
53010 ATACTCTTGGTTTTGAATTTCATACAGGCAACAACGTGGATCATTTGTC
1 ATACTATTGGTTTTGAATTTCATACAGGCAACAACGTGGATCAGTTGTC
53059 TATGTATTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (49 bp):
ATACTATTGGTTTTGAATTTCATACAGGCAACAACGTGGATCAGTTGTC
Found at i:55175 original size:16 final size:17
Alignment explanation
Indices: 55150--55193 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
55140 GTATAGTTTT
*
55150 ATTAATTTATTT-TAAA
1 ATTAAATTATTTATAAA
55166 ATTAAATTATTTATAAA
1 ATTAAATTATTTATAAA
*
55183 TTATAAATTAT
1 AT-TAAATTAT
55194 AAAATATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.46
17 5 0.21
18 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAAATTATTTATAAA
Found at i:55580 original size:14 final size:13
Alignment explanation
Indices: 55557--55617 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
55547 TAATAATATT
55557 ATTTAAATTATAA
1 ATTTAAATTATAA
55570 ATTTAAAATTATATA
1 ATTT-AAATTATA-A
*
55585 A--TAAATTCTTAA
1 ATTTAAATT-ATAA
55597 A-TTAAA-T-TAA
1 ATTTAAATTATAA
55607 ATTTAAATTAT
1 ATTTAAATTAT
55618 TATAATATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
10 4 0.10
11 5 0.12
12 9 0.22
13 12 0.30
14 8 0.20
15 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAATTATAA
Found at i:55584 original size:36 final size:37
Alignment explanation
Indices: 55544--55633 Score: 102
Period size: 36 Copynumber: 2.5 Consensus size: 37
55534 ATCTTGCCCC
*
55544 ATATAATAATATTATTTAAATT-A-TAAATTTAAAATT
1 ATATAATAATATTAATTAAATTAATTAAATTT-AAATT
*
55580 ATATAATAA-ATT-CTTAAATTAAATTAAATTTAAATT
1 ATATAATAATATTAATTAAATT-AATTAAATTTAAATT
55616 AT-T-ATAATATTAATTAAA
1 ATATAATAATATTAATTAAA
55634 ACACACTCTA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
34 11 0.23
35 7 0.15
36 22 0.47
37 7 0.15
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (37 bp):
ATATAATAATATTAATTAAATTAATTAAATTTAAATT
Found at i:56234 original size:26 final size:26
Alignment explanation
Indices: 56203--56253 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
56193 ATTAATTTAA
56203 ATTATCATTGTTTCATTTGGATAATG
1 ATTATCATTGTTTCATTTGGATAATG
*
56229 ATTATCATTGTTTGATTTGGATAAT
1 ATTATCATTGTTTCATTTGGATAAT
56254 TTATTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (26 bp):
ATTATCATTGTTTCATTTGGATAATG
Found at i:56318 original size:26 final size:26
Alignment explanation
Indices: 56288--56342 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
56278 TTCAAACTCG
* *
56288 GATTATTAATGTTTGATTTGGATAAT
1 GATTATCAATGTTTGATTTGAATAAT
* *
56314 GATTATCATTGTTTGATTTGAATTAT
1 GATTATCAATGTTTGATTTGAATAAT
56340 GAT
1 GAT
56343 GTGAATTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (26 bp):
GATTATCAATGTTTGATTTGAATAAT
Found at i:56816 original size:23 final size:24
Alignment explanation
Indices: 56779--56823 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
56769 TCGAACAATG
*
56779 ATTATTATTGCTTGTT-TTTGATT
1 ATTATTATTACTTGTTGTTTGATT
*
56802 ATTATTATTATTTGTTGTTTGA
1 ATTATTATTACTTGTTGTTTGA
56824 AAAATGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.64
Consensus pattern (24 bp):
ATTATTATTACTTGTTGTTTGATT
Found at i:58496 original size:15 final size:17
Alignment explanation
Indices: 58465--58502 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
58455 TTATGCGATG
58465 CATTTGAATTATTTTTA
1 CATTTGAATTATTTTTA
*
58482 TATTT-AATT-TTTTTA
1 CATTTGAATTATTTTTA
58497 CATTTG
1 CATTTG
58503 GATCAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
CATTTGAATTATTTTTA
Found at i:62805 original size:13 final size:14
Alignment explanation
Indices: 62782--62810 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
62772 ATAATAATAT
62782 TAATATTTAAATTA
1 TAATATTTAAATTA
62796 TAAT-TTTAAATTA
1 TAATATTTAAATTA
62809 TA
1 TA
62811 TTAATATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATTTAAATTA
Found at i:62855 original size:26 final size:26
Alignment explanation
Indices: 62792--62855 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
62782 TAATATTTAA
*
62792 ATTATAATTTTAAATTATATTAATAT
1 ATTATAATATTAAATTATATTAATAT
*
62818 ATTCTTAA-ATTAAATTGAT-TTAA-ATT
1 ATT-ATAATATTAAATT-ATATTAATA-T
62844 ATTATAATATTA
1 ATTATAATATTA
62856 TTTAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.13
26 22 0.71
27 5 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
ATTATAATATTAAATTATATTAATAT
Found at i:62872 original size:19 final size:20
Alignment explanation
Indices: 62835--62878 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
62825 AATTAAATTG
*
62835 ATTTAAATTATTATAATATT
1 ATTTAAATTATTATAATATA
* *
62855 ATTTAAA-TATTTTTATATA
1 ATTTAAATTATTATAATATA
62874 ATTTA
1 ATTTA
62879 TTCTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATTATTATAATATA
Found at i:63151 original size:13 final size:13
Alignment explanation
Indices: 63133--63157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63123 AAATATTAAT
63133 ATTTAAATTATAG
1 ATTTAAATTATAG
63146 ATTTAAATTATA
1 ATTTAAATTATA
63158 TTAATATGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTAAATTATAG
Found at i:65921 original size:44 final size:44
Alignment explanation
Indices: 65859--65946 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
65849 TTTAGTCTTT
65859 ATACTTGTTTTGAATTTCATACAGGT-ACACGGGATCAGTTGTC
1 ATACTTGTTTTGAATTTCATACAGGTAACACGGGATCAGTTGTC
* * *
65902 ATACTCTGTTTTGAATTTCATATAGGTAACACGTGATCATTTGTC
1 ATACT-TGTTTTGAATTTCATACAGGTAACACGGGATCAGTTGTC
65947 TATGTATTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 5 0.12
44 20 0.50
45 15 0.38
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (44 bp):
ATACTTGTTTTGAATTTCATACAGGTAACACGGGATCAGTTGTC
Done.