Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gohir.A06G047100.2.v1.1
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: 3197
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Found at i:728 original size:3 final size:3
Alignment explanation
Indices: 587--715 Score: 105
Period size: 3 Copynumber: 43.0 Consensus size: 3
577 TCAGCAACAA
* * * * *
587 CAG CAG CAG CAA CAA CAA CAA CAG CAG CAA CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * * * * * *
635 CAG CAG CAG CAA CAA CAG CAA CAG CAG CAG CAG CAA CAA CAA CAA CAA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
* * * *
683 CAG CAA CAG CAA CAA CAG CAG CCG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
716 TCTCCCCAGC
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 110 1.00
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:1533 original size:6 final size:6
Alignment explanation
Indices: 1522--1572 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
1512 TGGCTCAGTT
* *
1522 GCAACA GCAACA G---CA GCAACT GCAACA ACAACA GCAACA GCAACA
1 GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA GCAACA
1567 G-AACA G
1 GCAACA G
1573 TAGCTCACAG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
3 3 0.08
5 5 0.13
6 30 0.79
ACGTcount: A:0.49, C:0.31, G:0.18, T:0.02
Consensus pattern (6 bp):
GCAACA
Done.