Additional file 4.

Domain gains and losses during eukaryote evolution. phyloXML [70] formatted file, which was used to create Figure 2 and Additional file 3, viewable with Archaeopteryx software [71]. Summary of conditions used: protein predictions as listed in Additional file 1, domain models from Pfam 24.0, analyzed with HMMER 3.0b2, Pfam 'gathering' cutoffs.

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Zmasek and Godzik Genome Biology 2011 12:R4   doi:10.1186/gb-2011-12-1-r4