Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015709.1 Corchorus olitorius cultivar O-4 contig15742, 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, 885
Length: 1476
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Found at i:471 original size:31 final size:31
Alignment explanation
Indices: 434--512 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
424 CTAACTGATT
*
434 ATATCCTTAATTGCTTGAAATCAAAAACGTC
1 ATATCCTTAATTGCTTGAAATAAAAAACGTC
* *
465 ATATCCTTAATTGCTTAAAATAAAAAACGTT
1 ATATCCTTAATTGCTTGAAATAAAAAACGTC
496 ATATCCTTAATTGCTTG
1 ATATCCTTAATTGCTTG
513 TTTTGTAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (31 bp):
ATATCCTTAATTGCTTGAAATAAAAAACGTC
Found at i:557 original size:31 final size:31
Alignment explanation
Indices: 488--573 Score: 113
Period size: 29 Copynumber: 2.8 Consensus size: 31
478 CTTAAAATAA
***
488 AAAACGTTATATCCTTAATTGCTTG-TTTTG
1 AAAACGTTATATCCTTAATTGCTTGCGGCTG
*
518 -TAACGTTATATCCTTAATTGCTTGCGGCTG
1 AAAACGTTATATCCTTAATTGCTTGCGGCTG
*
548 AAAACGTTATATCCTAAATTGCTTGC
1 AAAACGTTATATCCTTAATTGCTTGC
574 TTATCATCTA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
29 23 0.48
30 2 0.04
31 23 0.48
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (31 bp):
AAAACGTTATATCCTTAATTGCTTGCGGCTG
Done.