I am new to biopython and I am not sure if it is a stupid question.
I would like to perform the same task as the one can be done on the web based blast. I am trying to align two protein by providing their GIs and receive the e-value. But I can only find examples to blast one protein in the biopython tutorial.
How can I align two protein using the qblast function?
I have tried the command
result_handle = NCBIWWW.qblast("blastp", "pat", "330186","118881")
But it returns me a lot of alignments and a lot of e-values.
I also found that it takes a few minutes for my computer to complete the query, where if I use the web based blast only takes a few seconds.
Is my query anything wrong?