Fig. 5

Position class (Pcl) information of cox1 genes. Introns in cox1 genes of 17 mitogenomes from Agaricomycotina, Pucciniomycotina and Ustilaginomycotina were classified into different position classes (Pcls) using the cox1 gene of Ganoderma calidophilum as the reference. Each Pcl was constituted by introns inserted at the same position of corresponding cox1 gene and named according to its insertion site in the aligned corresponding reference sequence (nt). The Pcls present in more than 1/5 of the 17 mitogenomes were considered as common Pcls, while introns detected in less than 1/5 of species were considered to be rare introns. Phylogenetic positions of the 17 species were established using the Bayesian inference (BI) method and Maximum Likelihood (ML) method based on concatenated mitochondrial genes. Species information is shown in Additional file 1: Table S7