Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01023223.1 Corchorus olitorius cultivar O-4 contig23256, 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: 6370
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Found at i:3473 original size:164 final size:165
Alignment explanation
Indices: 3198--3519 Score: 556
Period size: 164 Copynumber: 2.0 Consensus size: 165
3188 GAGGAGCCTG
** **
3198 CATTTTGTCTTTTTTTGTCTTTTCTCGGTTGCCGGATTACTAAAGAAGCCCCTCAATCAGTTTCC
1 CATTTTGTCTTTTTTTGTCTTTTCTCACTTGCCGGATTACTAAAGAAGCCCCTCAATCAGACTCC
* *
3263 TGCACTTCCTTTTCTCCCTGTCTTTTTTGGTAATTGACTGTTTGGCCACTTAAAAGTGTTCTCTT
66 TGCACTTCCTTTTCTCCCTGTCTTTTTTGGTAATTGACTCTTTGGCCACTTAAAAGCGTTCTCTT
3328 TCTTCATAAATATGTATATTTATGTATATTCTCAT
131 TCTTCATAAATATGTATATTTATGTATATTCTCAT
3363 CATTTTGTCTTTTTTTGTCTTTTCTCACTTGCCGGATTACT-AAGAAGCCCCTCAATCAGACTCC
1 CATTTTGTCTTTTTTTGTCTTTTCTCACTTGCCGGATTACTAAAGAAGCCCCTCAATCAGACTCC
* *
3427 TGCACTTTCTTTTCTCCCTGTCTTTTTTGGTAATTGATTCTTTGGCCACTTAAAAGCGTTCTCTT
66 TGCACTTCCTTTTCTCCCTGTCTTTTTTGGTAATTGACTCTTTGGCCACTTAAAAGCGTTCTCTT
*
3492 TCTTTATAAATATGTATATTTATGTATA
131 TCTTCATAAATATGTATATTTATGTATA
3520 CTAGTCTTCA
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
164 109 0.74
165 39 0.26
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (165 bp):
CATTTTGTCTTTTTTTGTCTTTTCTCACTTGCCGGATTACTAAAGAAGCCCCTCAATCAGACTCC
TGCACTTCCTTTTCTCCCTGTCTTTTTTGGTAATTGACTCTTTGGCCACTTAAAAGCGTTCTCTT
TCTTCATAAATATGTATATTTATGTATATTCTCAT
Done.