###### August-03-2006, v1.0 (svn: revision 2) ######
## cd /home/lux/MatrixREDUCE/examples

MatrixREDUCE -sequence=../sequences/Y5_600_Bst.fa \
	-output=spellman \
	-p_value=0.001000 \
	-dyad_length=3 \
	-min_counts=5 \
	-min_gap=0 \
	-max_gap=0 \
	-flank=0 \
	-max_motif=20 \
	-max_iteration=1000000 \
	-num_print=50 \
	-single_strand \
	-min_Ka=0.001 \
	-runlog=stderr \
	-expression=../data/Spellman1998Alpha