Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01002041.1 Corchorus capsularis cultivar CVL-1 contig02045, 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, 940
Length: 1568
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.35
Found at i:306 original size:135 final size:134
Alignment explanation
Indices: 45--314 Score: 490
Period size: 135 Copynumber: 2.0 Consensus size: 134
35 TATGGTCTAG
45 GTTTTGGCTAATTTGATTCAATTTTAATTTTCATCTCAAAAGTTTCTCATCACAATCGAACAAAA
1 GTTTTGGCTAATTTGATTCAATTTTAATTTTCATCTCAAAAGTTTCTCATCACAATCGAACAAAA
110 GGTCTAATAGATGATTTTTTTTTAATTTTTTTATTTTCTTAACTTGAAATAATGTATTTTTTAAC
66 GGTCTAATAGATGA-TTTTTTTTAATTTTTTTATTTTCTTAACTTGAAATAATGTATTTTTTAAC
175 TAAAC
130 TAAAC
180 GTTTTGGCTAATTTGATTCAATTTTAATTTTCATCTCAAAAGTTTCTCATCACAATCGAACAAAA
1 GTTTTGGCTAATTTGATTCAATTTTAATTTTCATCTCAAAAGTTTCTCATCACAATCGAACAAAA
245 GGTCTAATAGATG-TTTTTTTTAATTTTTTTTATTTTCTTAACTTGAAATAATGCT-TATTTTTA
66 GGTCTAATAGATGATTTTTTTTAA-TTTTTTTATTTTCTTAACTTGAAATAATG-TAT-TTTTTA
308 ACTAAAC
128 ACTAAAC
315 ATTTGATTGG
Statistics
Matches: 132, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
133 10 0.08
134 30 0.23
135 92 0.70
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.47
Consensus pattern (134 bp):
GTTTTGGCTAATTTGATTCAATTTTAATTTTCATCTCAAAAGTTTCTCATCACAATCGAACAAAA
GGTCTAATAGATGATTTTTTTTAATTTTTTTATTTTCTTAACTTGAAATAATGTATTTTTTAACT
AAAC
Done.