Full list of the BLAST Advanced options
-G Cost to open a gap [Integer]
default = 5
-E Cost to extend a gap [Integer]
default = 2
-q Penalty for a mismatch in the blast portion of run [Integer]
default = -3
-r Reward for a match in the blast portion of run [Integer]
default = 1
-e Expectation value (E) [Real]
default = 10.0
-W Word size, default is 11 for blastn, 3 for other programs.
-v Number of one-line descriptions (V) [Integer]
default = 100
-b Number of alignments to show (B) [Integer]
default = 100
-G Cost to open a gap [Integer]
default = 11
-E Cost to extend a gap [Integer]
default = 1
-e Expectation value (E) [Real]
default = 10.0
-W Word size, default is 11 for blastn, 3 for other programs.
-v Number of one-line descriptions (V) [Integer]
default = 100
-b Number of alignments to show (B) [Integer]
default = 100
Limited values for gap existence and extension are supported for these three programs.
Some supported and suggested values are:
Existence Extension
10 1
10 2
11 1
8 2
9 2
Last modified: Mon July 31, 1997