Additional File 3.
Average consensus supertrees for WGD specific clade. For each of the 1,368 underlying gene families, fast evolving sites were categorised into 8 classes. Different site classes were systematically removed and phylogenies were reconstructed based on reduced alignments. (A) Fastest evolving sites (class 8) were removed. (B) The two fastest evolving site classes (classes 7 and 8) were removed. (C) The three fastest evolving site classes (classes 6, 7 and 8) were removed. Supertrees A and B group S. castelli and C. glabrata together, supertree C places C. glabrata at the base of the WGD clade.
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Fitzpatrick et al. BMC Evolutionary Biology 2006 6:99 doi:10.1186/1471-2148-6-99