-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
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Department of Biology | University of North Carolina at Chapel Hill
Comments / Questions |