Fig. 3

Comparisons of synteny-based scaffold adjacency predictions from ADseq (AD), Gos-Asm (GA), and OrthoStitch (OS). Bar charts show counts of predicted adjacencies (pairs of neighbouring scaffolds) that are shared amongst all three methods (green), or two methods without (blues) and with (purple) third-method conflicts, or that are unique to a single method and do not conflict (yellow) or do conflict with predictions from one (orange) or both (red) of the other methods. a Results of all adjacencies summed across all 20 anopheline assemblies. b Area-proportional Euler diagrams showing (top) the extent of the agreements amongst the three methods for all 29,418 distinct scaffold adjacencies, and (bottom) the extent of the agreements amongst the three methods for the 17,606 distinct and non-conflicting scaffold adjacencies (the liberal union sets), both summed over all 20 assemblies. c Individual results of adjacencies for representative anopheline assemblies, four with more than 50% agreement (top row), and four with lower levels of agreement (bottom row). Colours for each fraction are the same as in a, y-axes vary for each assembly with maxima of 120 for Anopheles coluzzii to 5000 for Anopheles maculatus. Results for Anopheles stephensi are for the SDA-500 strain