Table 1.

Orthogroup categories used by BUSCO

Category	One-letter abbreviation	Meaning
Single-copy	S	Orthogroups that have a single completely assembled gene in the studied genome. A gene is considered completely assembled if its protein passed two criteria: (a) The criterion for sequence similarity to reference BUSCO proteins (b) The criterion for minimum length
Duplicated	D	Orthogroups that have more than one completely assembled gene in the studied genome. Criteria for completeness are the same as for "S"
Fragmented	F	Orthogroups that contain only genes that do not pass the criterion "(b)" but pass the criterion "(a)". Presence of such genes may be indicative of misassemblies that have led to gene fragmentation. Genes that were assembled correctly (i.e. were not fragmented) but are much shorter than reference genes also belong to this category
Missing	M	Orthogroups for which no genes passing the criterion "a)" were found
Complete	C	A compound category that is composed of orthogroups from the category "S" and orthogroups from the category "D" together