Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga06g01215.F3
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: 4645
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Found at i:243 original size:12 final size:12
Alignment explanation
Indices: 226--251 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
216 TTTTCCGTTG
226 TTTTGTTTTTTC
1 TTTTGTTTTTTC
238 TTTTGTTTTTTC
1 TTTTGTTTTTTC
250 TT
1 TT
252 GGCCTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTC
Found at i:652 original size:24 final size:24
Alignment explanation
Indices: 598--652 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
588 ATGTGTTTAT
598 TTATTT-ATTTTTTATTATTTTCA
1 TTATTTAATTTTTTATTATTTTCA
* *
621 TCTCTTTAATTTTTATTTTATTTTC-
1 T-TATTTAATTTTT-TATTATTTTCA
646 TTATTTA
1 TTATTTA
653 CTTGCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 9 0.35
25 7 0.27
26 9 0.35
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (24 bp):
TTATTTAATTTTTTATTATTTTCA
Found at i:4539 original size:2 final size:2
Alignment explanation
Indices: 4534--4565 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4524 TAATATATAT
4534 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
4566 TAAGCAGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.