Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01015249.1 Corchorus olitorius cultivar O-4 contig15282, 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: 3857
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Found at i:428 original size:17 final size:17
Alignment explanation
Indices: 403--437 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
393 TGCATAATGT
403 TAATATACCAACAAGAA
1 TAATATACCAACAAGAA
*
420 TAATGTACCAACAAGAA
1 TAATATACCAACAAGAA
437 T
1 T
438 GCACTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (17 bp):
TAATATACCAACAAGAA
Found at i:1278 original size:27 final size:27
Alignment explanation
Indices: 1240--1364 Score: 241
Period size: 27 Copynumber: 4.6 Consensus size: 27
1230 ACTCGAGGCA
1240 AAGTGGGAGGATCCACTGCTGGGGTCG
1 AAGTGGGAGGATCCACTGCTGGGGTCG
*
1267 AAGTGTGAGGATCCACTGCTGGGGTCG
1 AAGTGGGAGGATCCACTGCTGGGGTCG
1294 AAGTGGGAGGATCCACTGCTGGGGTCG
1 AAGTGGGAGGATCCACTGCTGGGGTCG
1321 AAGTGGGAGGATCCACTGCTGGGGTCG
1 AAGTGGGAGGATCCACTGCTGGGGTCG
1348 AAGTGGGAGGATCCACT
1 AAGTGGGAGGATCCACT
1365 ACGGCAACAG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.20, C:0.18, G:0.42, T:0.19
Consensus pattern (27 bp):
AAGTGGGAGGATCCACTGCTGGGGTCG
Done.