Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01022023.1 Corchorus olitorius cultivar O-4 contig22056, 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: 6093
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Found at i:5093 original size:39 final size:39
Alignment explanation
Indices: 5050--5126 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
5040 TTAAAAGCAC
*
5050 TTTTTTGCAAAT-CAAGTTTTTCCCAACTGCAACCTCAAG
1 TTTTTTCCAAATGC-AGTTTTTCCCAACTGCAACCTCAAG
*
5089 TTTTTTCCAATTGCAGTTTTTCCCAACTGCAACCTCAA
1 TTTTTTCCAAATGCAGTTTTTCCCAACTGCAACCTCAA
5127 TGTCAAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 34 0.97
40 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.09, T:0.38
Consensus pattern (39 bp):
TTTTTTCCAAATGCAGTTTTTCCCAACTGCAACCTCAAG
Found at i:5175 original size:47 final size:47
Alignment explanation
Indices: 5106--5202 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
5096 CAATTGCAGT
*
5106 TTTTCCCAACTGCAACCTCAATGTCAAACTAAGCCGAACTCCCAAGC
1 TTTTCCCAACTGCAACCTCAATGTCAAACTAAGCCAAACTCCCAAGC
*
5153 TTTTCCCAACTGCAACCTCAATGTCAAATTAAGCCAAACTCCCAAGC
1 TTTTCCCAACTGCAACCTCAATGTCAAACTAAGCCAAACTCCCAAGC
5200 TTT
1 TTT
5203 ACATTTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (47 bp):
TTTTCCCAACTGCAACCTCAATGTCAAACTAAGCCAAACTCCCAAGC
Done.