Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01002243.1 Corchorus olitorius cultivar O-4 contig02243, 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: 4126
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Found at i:1317 original size:176 final size:176
Alignment explanation
Indices: 1023--1377 Score: 710
Period size: 176 Copynumber: 2.0 Consensus size: 176
1013 TTCTGCCAAT
1023 TGAAGAAGATAATGTTATGATACACACAAAATGGAGGAAAAGAAATATGGAATGATTTGATGAGT
1 TGAAGAAGATAATGTTATGATACACACAAAATGGAGGAAAAGAAATATGGAATGATTTGATGAGT
1088 TAAAGAGTTTGGGAGGAGGAAGAGGAGTTTGTTTTCTGTATTTCCTTAGATAATAATCGAATGGA
66 TAAAGAGTTTGGGAGGAGGAAGAGGAGTTTGTTTTCTGTATTTCCTTAGATAATAATCGAATGGA
1153 AAAGTTCAGTACAAAATAAGTCTGTTGCTCGCACAAGATGAGCACG
131 AAAGTTCAGTACAAAATAAGTCTGTTGCTCGCACAAGATGAGCACG
1199 TGAAGAAGATAATGTTATGATACACACAAAATGGAGGAAAAGAAATATGGAATGATTTGATGAGT
1 TGAAGAAGATAATGTTATGATACACACAAAATGGAGGAAAAGAAATATGGAATGATTTGATGAGT
1264 TAAAGAGTTTGGGAGGAGGAAGAGGAGTTTGTTTTCTGTATTTCCTTAGATAATAATCGAATGGA
66 TAAAGAGTTTGGGAGGAGGAAGAGGAGTTTGTTTTCTGTATTTCCTTAGATAATAATCGAATGGA
1329 AAAGTTCAGTACAAAATAAGTCTGTTGCTCGCACAAGATGAGCACG
131 AAAGTTCAGTACAAAATAAGTCTGTTGCTCGCACAAGATGAGCACG
1375 TGA
1 TGA
1378 CAAGGCAATA
Statistics
Matches: 179, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 179 1.00
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.27
Consensus pattern (176 bp):
TGAAGAAGATAATGTTATGATACACACAAAATGGAGGAAAAGAAATATGGAATGATTTGATGAGT
TAAAGAGTTTGGGAGGAGGAAGAGGAGTTTGTTTTCTGTATTTCCTTAGATAATAATCGAATGGA
AAAGTTCAGTACAAAATAAGTCTGTTGCTCGCACAAGATGAGCACG
Done.