You might try disperse:
Clifford R, Mackey AJ.
Disperse: a simple and efficient approach to parallel database searching.
Bioinformatics. 2000 Jun;16(6):564-5.
PMID: 10980156 [PubMed - indexed for MEDLINE]
It is available from:
www.people.virginia.edu/~ajm6q/disperse
Bill Pearson