Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g01075.F1
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: 5821
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Found at i:2112 original size:13 final size:13
Alignment explanation
Indices: 2075--2138 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
2065 TTTTTTATAA
2075 ACTTTAAATTAGG
1 ACTTTAAATTAGG
*
2088 AATTCT--ATTAGG
1 ACTT-TAAATTAGG
2100 ACTTTAAATTAGG
1 ACTTTAAATTAGG
* *
2113 AATTCT--ACTAGG
1 ACTT-TAAATTAGG
2125 ACTTTAAATTAGG
1 ACTTTAAATTAGG
2138 A
1 A
2139 ATTAGATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
11 2 0.05
12 17 0.44
13 18 0.46
14 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (13 bp):
ACTTTAAATTAGG
Found at i:2154 original size:25 final size:25
Alignment explanation
Indices: 2075--2141 Score: 125
Period size: 25 Copynumber: 2.7 Consensus size: 25
2065 TTTTTTATAA
2075 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
2100 ACTTTAAATTAGGAATTCTACTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
2125 ACTTTAAATTAGGAATT
1 ACTTTAAATTAGGAATT
2142 AGATTATGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Done.