blastp -db $2 -query $1 -evalue 1E-6 -num_threads 60 -outfmt 11 Output was converted to XML format using blast_formatter. BLASTP 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402.