Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01021995.1 Corchorus olitorius cultivar O-4 contig22028, 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: 11552
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Found at i:3142 original size:45 final size:45
Alignment explanation
Indices: 3081--3210 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
3071 TGAAATTGAA
3081 GAAAATAATGCTCTGCAAAGTGGAAGGAATCTCTGCAAAAATATT
1 GAAAATAATGCTCTGCAAAGTGGAAGGAATCTCTGCAAAAATATT
* * * *
3126 GAAAATAATGTTCTGCAAAGTGGGAGGAATATCTGCAAAAATGTT
1 GAAAATAATGCTCTGCAAAGTGGAAGGAATCTCTGCAAAAATATT
* * *
3171 GAAAATAATGCTCAGCAAAGAGGAAAGAATCTCTGCAAAA
1 GAAAATAATGCTCTGCAAAGTGGAAGGAATCTCTGCAAAA
3211 GTTTTTCCAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (45 bp):
GAAAATAATGCTCTGCAAAGTGGAAGGAATCTCTGCAAAAATATT
Found at i:11058 original size:22 final size:22
Alignment explanation
Indices: 11033--11085 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11023 AAATCAAACT
**
11033 AACAATTAAGACTATCT-AAGAA
1 AACAATTAAGAAAAT-TAAAGAA
*
11055 AACAATCAAGAAAATTAAAGAA
1 AACAATTAAGAAAATTAAAGAA
11077 AACAATTAA
1 AACAATTAA
11086 TCAGAAAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 1 0.04
22 25 0.96
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (22 bp):
AACAATTAAGAAAATTAAAGAA
Done.