Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012250.1 Corchorus olitorius cultivar O-4 contig12283, 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: 2243
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Found at i:1036 original size:25 final size:24
Alignment explanation
Indices: 986--1038 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
976 TGAGGAACTA
* *
986 TTTTATTACTGTTTTATTAATATG
1 TTTTATTAATGTTTTATAAATATG
1010 TTTTATTAATGGTTTTAATAAAT-TG
1 TTTTATTAAT-GTTTT-ATAAATATG
1035 TTTT
1 TTTT
1039 GGGTGCATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.36
25 11 0.44
26 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (24 bp):
TTTTATTAATGTTTTATAAATATG
Found at i:1037 original size:13 final size:12
Alignment explanation
Indices: 986--1038 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
976 TGAGGAACTA
*
986 TTTTATT-ACTG
1 TTTTATTAATTG
997 TTTTATTAATATG
1 TTTTATTAAT-TG
*
1010 TTTTATTAATGG
1 TTTTATTAATTG
*
1022 TTTTAATAAATTG
1 TTTT-ATTAATTG
1035 TTTT
1 TTTT
1039 GGGTGCATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
11 7 0.20
12 6 0.17
13 22 0.63
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.62
Consensus pattern (12 bp):
TTTTATTAATTG
Done.