Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga13g00668.F2
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, 481
Length: 803
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Found at i:155 original size:6 final size:6
Alignment explanation
Indices: 140--178 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
130 AAAATCGGTT
* *
140 CCCT-C CCCTCC CCCTCC CCCTCC CTCTCC CTCTCC CCCT
1 CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCTCC CCCT
179 TCCGCTGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (6 bp):
CCCTCC
Found at i:170 original size:16 final size:18
Alignment explanation
Indices: 140--176 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
130 AAAATCGGTT
140 CCCTCCCCTCCCCCTC-C
1 CCCTCCCCTCCCCCTCTC
*
157 CCCT-CCCTCTCCCTCTC
1 CCCTCCCCTCCCCCTCTC
174 CCC
1 CCC
177 CTTCCGCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22
Consensus pattern (18 bp):
CCCTCCCCTCCCCCTCTC
Found at i:174 original size:18 final size:17
Alignment explanation
Indices: 140--178 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
130 AAAATCGGTT
140 CCCTCCCCTCCCCCTCC
1 CCCTCCCCTCCCCCTCC
*
157 CCCTCCCTCTCCCTCTCC
1 CCCTCCC-CTCCCCCTCC
175 CCCT
1 CCCT
179 TCCGCTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.00, C:0.77, G:0.00, T:0.23
Consensus pattern (17 bp):
CCCTCCCCTCCCCCTCC
Done.