Ronald Robertson

Sanjay Singh

Scientist/Writer
  • Emailsanjaysingh765@gmail.com
  • Socail@lampatlex
  • VisitorSince 1982
  • LocationKentucky, USA



Perl Script 4: How to BLAST multiple sequences against NCBI database using PERL script





Have you ever thought about BLASTing your single/multiple sequences against NCBI database without going to their webpage? Sounds good!! OK, there is a PERL script written by NCBI itself to BLAST multiple sequences against NCBI database without going to their BLAST page. You can find that PERL script below 












NCBI PERL Script : 














Script name Download
web_blast.pl



Uses : You can use this NCBI BLAST PERL script by this way






web_blast.pl program database query 






web_blast.pl blastp nr input.fasta
web_blast.pl rpsblast cdd input.fasta
web_blast.pl megablast nt input.fasta


  • web_blast.pl - name of my PERL script that I saved before

  • program - megablast, blastn, blastp, rpsblast, blastx, tblastn, tblastx (any one of them)

  • databases - nr or anyone you want to choose

  • query - name of the file which have your query sequences





    • Hope you will enjoy this PERL script. If you face any problem, you are welcome anytime :)

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