What are WormBase's precomputed BLAST parameters?

These parameters refer to the precomputed BLAST results shown on the gene and protein report pages.

For BLASTP and BLASTX we use WU-BLAST2.0 with the following parameters
Z=10000000 (sets size of database in letters)
V=1000 (sets the number of one line summaries)
B=1000000 (sets number of database hits to report)
E=0.1 (E from the Karlin-Altschul equation - will not report hits with E-value greater than this)
cpus=1 (sets number of processors to use)
hitdist=40 (Max distance between word hits for 2-word seeding algorithm)

No low-complexity filtering is done for BLASTP. DNA sequences are masked with RepeatMasker and TRF before BLASTing.

Question: Can I blast multiple sequences agains the C. elegans genome in one blast run?

Answer: Yes, you can run multiple sequences in a single blast.

• All you need to do is concatenate your sequences together.
• Take a look at the "Sample Nucleotide" for an example.
• The results are separated by your query sequence, each selectable via a drop down menu on the Left side of results page.