Comparison of mapping accuracy of RMAPM criterion under different parameter combinations. Comparison of mapping accuracy for reads of different lengths, and allowing different numbers of mismatches without using quality scores. Both the target (BAC) region coverage (a) and the mapping selectivity (b) are displayed. The mean of these two measures is presented in (c) as mapping accuracy. Standard error of displayed values was always ≤ 1.0% and usually < 0.1%, as estimated by mapping reads obtained from the second lane of the same sequencing run of the same BAC regions (this applies also to values in Figure 2).