Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga11g00219.N1
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, 400
Length: 668
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Found at i:173 original size:26 final size:25
Alignment explanation
Indices: 135--244 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 25
125 TGATACAAAT
135 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
*
161 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATG-GTTAGGTAAATGTTTCA
187 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTTCA
213 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTTCA
239 TGATAA
1 TGATAA
245 GAATATCATG
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 2 0.03
26 76 0.96
27 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTTCA
Found at i:199 original size:52 final size:52
Alignment explanation
Indices: 135--244 Score: 193
Period size: 52 Copynumber: 2.1 Consensus size: 52
125 TGATACAAAT
*
135 TGATAATAGGTTAGGTAAATGTTTCATGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCATGATAATGAGTTAGGTAAATGTTCCA
* *
187 TGATAATGGGTTAGGTAAATGTTTCATGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCATGATAATGAGTTAGGTAAATGTTCCA
239 TGATAA
1 TGATAA
245 GAATATCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTTCATGATAATGAGTTAGGTAAATGTTCCA
Done.