Accuracy of the mHG method constrained to at most 300 positive sequences. The ability of three variants of the mHG method to correctly rank the known TF motif in 237 yeast ChIP-chip experiments is shown. Each bar represents the mean PRA of versions of an MEA method. The bar labeled mHG-YDRIM shows accuracy using partition maximization, limited to partitions with a maximum of 300 "positive" sequences. The other two bars show accuracy using the fixed partition method with t
= 0.001 (mHG-YFP) and and unconstrained partition maximisation (mHG-YUPM), respectively.