Sequences detected by the arrays. The detected sequence windows were ranked according to the number of probes that defined them and the four highest ranked windows with non-overlapping hits to the T-DNA sequences are shown (for a complete list of positive windows, [see Additional file 2]. The scale for the detected windows is 4× the scale for the T-DNA constructs. Hatch marks correspond to point mutations. The bar diagram showing signal/noise ratio for matching probes (averaged across sets of 10 probes) has been included for the ida dataset as an example. The 1,239 bp vector backbone fragment in ida has been described previously . NOS – nopaline synthase. oct – octopine synthase. nptII – neomycin phosphotransferase II. CaMV 35S – cauliflower mosaic virus 35S promoter. uidA – beta glucuronidase. CaMV polyA – cauliflower mosaic virus 3' UTR polyadenylation signal. hptII – hygromycin phosphotransferase. CaMV 35S (double enhancer) – cauliflower mosaic virus 35S promoter, double enhancer version. Ubi – maize ubiquitin. CecA – cecropin A.