Most parsimonious trees obtained from Sclerotinia sclerotiorum MAT1-1-1, MAT1-1-5, MAT1-2-1 and MAT1-2-4 single locus datasets (Alignments S6, S7, S8, S9).

The trees were rooted with B. cinerea which is not shown, numbers refer to alignment positions. Nucleotide substitutions along the branches are given for S. sclerotiorum. Accession numbers are shown for all sequences following the strain identifiers, for B. cinerea the sequence accession numbers are BC1G_15148 (MAT1-1-1), BC1G_15147 (MAT1-1-5), FQ790352 (MAT1-2-1), FQ790352 (MAT1-2-4).