Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01013238.1 Corchorus capsularis cultivar CVL-1 contig13259, 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: 2434
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:1566 original size:160 final size:161
Alignment explanation
Indices: 1340--1650 Score: 590
Period size: 160 Copynumber: 1.9 Consensus size: 161
1330 AAAAAGATAT
*
1340 TTGTTTTTTTACCTTTTTTTTAAAAAAACATACTTTTAATCCTAAAAATCTTTGTTCATGCGTTT
1 TTGTTTTTTTACCTTTTTTTTAAAAAAACATACTTTTAATCCAAAAAATCTTTGTTCATGCGTTT
1405 TGATGTTGTTTTACTTGAATGATTTTGAATGATTGAGTTTTGAAAGTTCGAAGGTCGAGAGAATT
66 TGATGTTGTTTTACTTGAATGATTTTGAATGATTGAGTTTTGAAAGTTCGAAGGTCGAGAGAATT
1470 TGAGAGAATTGAAAAGTTTAAAGTTGAGAGAA
131 TGAGAGAATTG-AAAGTTTAAAGTTGAGAGAA
1502 TTGTTTTTTTACC-TTTTTTT-AAAAAACATACTTTTAATCCAAAAAATCTTTGTTCATGCGTTT
1 TTGTTTTTTTACCTTTTTTTTAAAAAAACATACTTTTAATCCAAAAAATCTTTGTTCATGCGTTT
1565 TGATGTTGTTTTACTTGAATGATTTTGAATGATTGAGTTTTGAAAGTTCGAAGGTCGAGAGAATT
66 TGATGTTGTTTTACTTGAATGATTTTGAATGATTGAGTTTTGAAAGTTCGAAGGTCGAGAGAATT
1630 TGAGAGAATTGAAAGTTTAAA
131 TGAGAGAATTGAAAGTTTAAA
1651 ATTTGATGGA
Statistics
Matches: 148, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
159 10 0.07
160 118 0.80
161 7 0.05
162 13 0.09
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (161 bp):
TTGTTTTTTTACCTTTTTTTTAAAAAAACATACTTTTAATCCAAAAAATCTTTGTTCATGCGTTT
TGATGTTGTTTTACTTGAATGATTTTGAATGATTGAGTTTTGAAAGTTCGAAGGTCGAGAGAATT
TGAGAGAATTGAAAGTTTAAAGTTGAGAGAA
Done.