Figure 5

BAC contigs of homoeologous regions of interest. The order of 52 SNP assays as found in the Brassica rapa genome is indicated at the top. Assays labelled in grey font indicate that a particular assay and/or assay nucleotide did not reveal any BAC that was confirmed to carry sequences corresponding to this assay. BACs that were confirmed to carry sequences corresponding to the SNP assays are displayed as rectangles. Red and dark blue boxes stand for SNP scores that were validated by analyses with PCR amplicons. Pink or pale blue boxes represent false negative SNP scores. Scores corresponding to the A subgenome are shown in red or pink, dark or pale blue boxes are indicative of the C subgenome. Coordinates that belong to the 738 BACs that had been selected initially for the validation studies are labelled in plain black font. BAC contigs are shown as filled rectangles below the names of the assays. Arrows indicate that assay order cannot be determined based on BAC contig data. Coordinates labelled in bold and italics highlight additional BACs that had been integrated at the end of the BAC contigs for the refinements of the contigs. Clear rectangles indicate that BAC contigs were bridged by such additional BACs.