different e-value from linux standalone VS blast website

Question

[masoud.namini]

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.

[pld]

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

Answer 1

[karl.stamm]

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