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Default Ncbi Blast+ V. 2.2.25 Parameters

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Hi:

I'd like to compare my own BLAST tool with NCBI blast+ tool but couldn't find the default parameter of this version. I'd like to know the scoring scheme for match, mismatch, opening gap and extended gap.

I've created a NCBI blast+ output and it prints at the end of the file:

Matrix: blastn matrix 1 -2
Gap Penalties: Existence: 0, Extension: 2.5

For the first line assume that for match 1 and for mismatch -2 is used. and for opening gap they used 0 and for extension gap 2.5?

Thanks, Beeth


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