Neighbour-Net tree of all PTP type domains detected in the model genomes. The coloured wedges indicate the distinct clusters defined by the Markov clustering algorithm, which are labelled according to the consensus of annotations available in Swiss-Prot/Trembl. P. falciparum sequences appearing in the tree are labelled by capital letters: A, PF14_0525 & PF14_0524; B, PFC0380w; C, PF11_0139; D, PF11_0281. Red dots indicate characterised mammalian MAPK phosphatases. A high-resolution version of this Figure is available as a PNG file (see Additional file 9). We recommend viewing this file using a graphics programme enabling magnification, such as Microsoft Office Picture Manager.