Figure 5.

Alignment of the T. cacao cv. Matina 1-6 physical map to the T. cacao cv. Criollo draft genome sequence. A. A SyMAP dot plot alignment of the anchored contigs of the T. cacao cv. Matina 1-6 physical map and the T. cacao cv. Criollo genome assembly [11]. Purple boxes highlight synteny blocks. The red shaded box is a dot plot view of alignments detailed in 5B. B. A 2D view of T. cacao cv. Matina 1-6 chromosome 5 aligned to T. cacao cv. Criollo chromosome 5. Purple lines represent BES matches to respective locations. Markers from the T. cacao cv. Matina 1-6 chromosome 5 linkage group are designated on the left. C. A SyMAP 3D view illustrating duplications of regions of T. cacao cvv. Matina 1-6 pseudomolecule ten and matches for those regions on various T. cacao cv. Criollo chromosomes. Green shade indicates direct orientation and red shade is inverted orientation.

Saski et al. BMC Genomics 2011 12:413   doi:10.1186/1471-2164-12-413
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