Fig. 3

Effects of RSE capture primer spacing on capture effectiveness. a 46 RSE primers were designed to capture ≈ 700 kbp of genomic sequence for four gene regions. b To examine the effect of RSE primer spacing on capture efficiency, we assumed that the midpoint between the RSE primers would produce the least amount of signal on the array. Each midpoint in the bins shown above was averaged across 20 array primers to account for array probe capture variability. The distance between RSE primers and the averaged array value is presented. c The distances between RSE primers were segregated into bins to show the collective effect of similar RSE primer spacing. As seen in the graph, capture of the material as used here at the midpoint between primers drops rapidly beyond ≈ 15 kbp with little to no capture evident at 25 kbp or greater for the type of genomic DNA used in this study (average length ≈ 20 kbp)