Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga02g00054.F7
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: 3780
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Found at i:270 original size:2 final size:2
Alignment explanation
Indices: 265--290 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
255 TTTTTTTTTT
265 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
291 CGCTTTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:3617 original size:4 final size:4
Alignment explanation
Indices: 3608--3658 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
3598 TGGGCGTCGT
3608 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
3656 TGT
1 TGT
3659 CTGTGCAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:3697 original size:20 final size:20
Alignment explanation
Indices: 3655--3699 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3645 GTATGTATGT
* *
3655 ATGTCTGTGCAAGTGTGTAC
1 ATGTGTGTGCAAGTGTGCAC
3675 ATGTGTGTG-AAGTGTGCATC
1 ATGTGTGTGCAAGTGTGCA-C
3695 ATGTG
1 ATGTG
3700 GCTAGTTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.36
Consensus pattern (20 bp):
ATGTGTGTGCAAGTGTGCAC
Done.