Genome organisation of the region between cox1 and nad1 for eight PAC species. Genome organisation for 8 PAC species between cox1 and nad1 covering the duplication, which includes the atp9 ORF. Boxes represent ORFs and tRNA genes. Thick lines represent the position of the duplicated region and indels (black: duplicated regions upstream and downstream the atp9 open reading frame; maroon: region of the atp9 ORF; white: deletions; grey: inserts). The duplication including the atp9 open reading frame was present in all species at the nucleotide level, although some species included inserts (e.g. Acephala applanata) or deletions (e.g. Phialocephala turicensis). ORF_01 of Phialocephala fortinii s.s. includes a premature stop codon indicated by an asterisk. An example of an alignment for the duplicated region in P. subalpina is given below the overview. The intron is removed and its length was indicated in brackets. Start and stop positions of atp9 and ORF_01 are indicated by arrows. Numbers beside the alignment represent the mt genome coordinates for P. subalpina.