Figure 1

Sample intensities and intensity distributions of varying center bases. A) Distribution of raw probe intensities. Dotted lines indicate global mean intensity values for T (black) and G (green) center position alleles. B) Average raw intensities of a single SNP for 24 field samples. Dotted lines indicate area of low contrast where points between the lines would not be distinguishable. Black points were called a T allele by genome sequencing and green diamonds were called a G allele. C) Average intensities after global mean adjustment, all sequenced calls match microarray calls after running through algorithm.