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Old 10-19-2016, 08:17 AM   #2
maubp
Peter (Biopython etc)
 
Location: Dundee, Scotland, UK

Join Date: Jul 2009
Posts: 1,543
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My guess is this line has an extra slash:

Code:
blastn -query HPV2-C2_E1.fasta -db MV1SDB_a/ -out testblastout.txt

Try:

Code:
blastn -query HPV2-C2_E1.fasta -db MV1SDB_a -out testblastout.txt
The database argument is the filename stem - everything up to but excluding the .nai or .nhr etc extension.
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