Figure 2

Log-odds scores of weight array matrices Null model influence on log-odds scores based on weight array matrices (WAMs). The plots show the log-odds scores of random sequences as a function of their GC content. In each plot, a horizontal line indicates the 0 log-odds score (used as classification threshold) and a vertical line indicates the average GC content of the training sequences. WAMs inferred by low, medium and high GC training sequences were used in the plots at lines 1, 2 and 3, respectively. 5%GC, 50%GC, 95%GC and target null models were used in the plots at columns 1, 2, 3 and 4, respectively. Note: the three bands visible in the plots are generated by the WAM models, and not by the use of any particular null model.