Question: different e-value from linux standalone VS blast website
gravatar for masoud.namini
4.5 years ago by
masoud.namini0 wrote:

Hi everybody. I am using blast standalone 2.2.28+ in westgrid with linux for comparing two sequences (one short) and I do my best to use the same settings as blast website so:

blastn -query Spacers.HTBN.txt -db human.gut.fasta -gapopen 2 -gapextend 1 -penalty -3 -reward 1 -dust no -evalue 10 -word_size 10

but the results I get from the website VS linux have different e-values?! what can be the reason? i do really appreciate your help.


linux blast • 1.3k views
ADD COMMENTlink modified 7 months ago by Biostar ♦♦ 20 • written 4.5 years ago by masoud.namini0

Can you post your results? Did you tell the web version to use BLASTN or megablast?

ADD REPLYlink written 4.5 years ago by pld4.8k
gravatar for karl.stamm
4.5 years ago by
United States
karl.stamm3.6k wrote:

The Expectation value depends on the database searched. Perhaps you're searching different databases.

ADD COMMENTlink written 4.5 years ago by karl.stamm3.6k
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