Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007918.1 Corchorus capsularis cultivar CVL-1 contig07939, 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: 21426
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Found at i:11299 original size:7 final size:7
Alignment explanation
Indices: 11283--11330 Score: 64
Period size: 7 Copynumber: 7.0 Consensus size: 7
11273 CGAATATTAA
11283 TATATAT
1 TATATAT
11290 TATAT-T
1 TATATAT
11296 T-TATAT
1 TATATAT
*
11302 TTTATAT
1 TATATAT
11309 TATATAT
1 TATATAT
11316 ATATATAT
1 -TATATAT
11324 TATATAT
1 TATATAT
11331 ATCTGATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 23 0.62
8 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATATAT
Found at i:11908 original size:12 final size:12
Alignment explanation
Indices: 11881--11913 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11871 GTACTTATGG
*
11881 TTTGATT-TTTA
1 TTTGATTATTGA
11892 TTTGATTATTGA
1 TTTGATTATTGA
11904 TTTGATTATT
1 TTTGATTATT
11914 ATTGGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (12 bp):
TTTGATTATTGA
Done.