| Â |
Blast parameters | Â |
|---|
Strategy | -r | -q | -G | -e | -E | -W | TF |
|---|
1 | 5 | −4 | 10 | NA | 6 | 7 | 69 % |
2 | 4 | −5 | 3 | NA | 5 | 7 | ? |
3 | 5 | −4 | 25 | NA | 10 | 7 | 69 % |
4 | 4 | −5 | 12 | NA | 8 | 7 | ? |
5(2) | 4 | −5 | 3 | 20 | 5 | 7 | ? |
6(3) | 5 | −4 | 25 | 20 | 10 | 7 | 69 % |
7(2) | 4 | −5 | 3 | 1000 | 5 | 7 | ? |
8(3) | 5 | −4 | 25 | 1000 | 10 | 7 | 69 % |
Default | 1 | -3 | 5 | 10 | 2 | 11 | 99 % |
-
-r: reward for a nucleotide match, -q: penalty for a nucleotide mismatch, -G: Cost to open a gap, -e: Expectation value, -E: Cost to extend a gap, -W: Word size. The Theoretical frequency (TF), is the expected frequency according to the established parameters [31]. The strategies 1, 2, 3 and 4 were suggested by [32], while the others were modifications of the strategies written parentheses, according to [31]. The ‘Default’ strategy represents the predetermined parameters for blastn program
