Figure 4

Backbone DNA sequence, GSS bpisac and GSS. Backbone DNA sequence (BB), GSS bpisac and GSS blocks repartition along CMS-C and Zea perennis mitogenomes. In CMS-C, dashed lines between GSS bpisac and GSS indicate the condensation of tandem duplicated synteny anchors (after the "collapsing" step). Vertical lines indicate each duplicated part. In CMS-C GSS, synteny anchors 35a and 35b are virtually added compared to GSS bpisac because synteny anchor 35 is duplicated in Zea perennis GSS bpisac and it is possible to distinguish them with their neighborhood. Conversely, 27 virtually duplicated (i.e. 27a and 27b are left side by side) in Zea perennis GSS is in two distinct copies in CMS-C GSS. For synteny anchor 40 duplicated in Zea perennis GSS bpisac, ortholog and paralog cannot be distinguished with their neighborhood. Consequently, synteny anchor 60, 61, 62 and 2 are deleted in GSS for all mitogenomes. Synteny anchors 27, 27a, 27b, 35, 35a and 35b are indicated by arrows. We applied the following color code: orange for deleted blocks, green for blocks for which paralogous from orthologous were distinguished, blue for tandemly duplicated blocks: dark blue when duplicates were conserved, light blue when one copy was lost.