We also searched for evidence of multiple recombinants. We limited our analysis to rs958883/tsc0260848 in White families, since this SNP gave the largest number of discrepancies between the two platforms. SNP rs958883 is marker 180 on Illumina's chromosome 5 map. The 12 White families with discrepancies for this SNP contained a total of 186 meioses. We used the COUNT REC option in GENEHUNTER version 2.1 [1] to infer the positions of recombination for all of the markers on this chromosome. We first analyzed all 276 markers in the Illumina set using the genetic map provided by the company. We then substituted the tsc0260848 genotypes from the Affymetrix platform for the rs958883 genotypes and repeated the analysis. Finally, we deleted rs958883/tsc0260848 altogether and repeated the analysis a third time. Figure 1 plots the results obtained by subtracting the inferred number of recombinants in each interval (when the inconsistent marker is removed), from the inferred number of recombinants when the Illumina genotypes (blue curve) or the Affymetrix genotypes (red curve) are included. There is an unmistakable region of increased recombination in the
