Figure 1

The complete contig alignment and schematic representation of the predicted TNL genes, transposable elements (TE) and other conserved genes in the Rdr1 region in R. multiflora and R. rugosa . Partial gene annotation is indicated by arrows. The TNL genes are represented with green arrows. The transposable elements (TE) are represented with red arrows. Vacuolar protein sorting-associated protein (VPSAP) at the left border of R. multiflora contigs are represented with purple arrow and the highly conserved genes at the right part are represented with blue arrows. Similar sequences are connected by black lines. Similar sequences but in reverse orientation are connected with red lines. Unfilled boxes represent sequence absent in one or another contig. The region around TNL and TE displays copy number changes, inversions and deletions/insertions. The overlapping horizontal black lines represent the respective BAC clones that were sequenced to assemble the contigs. GATAligner with default parameters was used for the alignment. GATAPlotter parameters with min: 1E^-5 were used to plot the graph.