Table 1. Information on samples and genomic data.

Scientific name	Common name	Sample ID	NCBI accession No.	Sex	Sample origin	Sequencing platform	No. of bases (Gb)	Depth*
For individual macaque genome samples, scientific name, common name, sample ID, NCBI accession No., sex, sample origin, sequencing platform, No. of bases, and sequencing depth are shown. New whole-genome sequences of this study are marked in bold. *: Calculations were based on total length of M. mulatta genome assembly Mmul_8.0.1, 3 236 224 332 bp.
M. arctoides	Stump-tailed macaque	Marc_R02	This study, SAMN15194901	Male	Yunnan, China	Illumina	152.0	~47.0×
		Marc_R19	This study, SAMN15194902	Female	Guangxi, China	Illumina	112.2	~34.7×
M. assamensis	Assamese macaque	Mass	SRR2981114	Male	Yunnan, China	Illumina	154.0	~47.6×
M. fascicularis	Crab-eating macaque	Mfas_1	SRR8194877	Female	Unknown (in captivity in China)	Illumina	92.1	~28.5×
		Mfas_Mau	ERS629711	Male	Mauritius	Illumina	61.6	~19.0×
M. fuscata	Japanese macaque	Mfus	DRR002234	Unknown	Japan	Illumina	142.5	~44.0×
M. mulatta	Rhesus macaque	Mmul_Chi	SRR1944102	Female	China	Illumina	144.5	~44.7×
		Mmul_Ind	SRR1952166	Female	India	Illumina	131.3	~40.6×
M. nemestrina	Southern pig-tailed macaque	Mnem_1	SRR1698391, SRR1698394, SRR1698403, SRR1698405	Female	Unknown	Illumina	152.7	~47.2×
		Mnem_2	SRR5947292	Male	Borneo, Malaysia	Illumina	140.7	~43.5×
M. nigra	Black crested macaque	Mnig	SRR5947294	Female	Sulawesi, Indonesia	Illumina	135.8	~42.0×
M. thibetana	Tibetan macaque	Mthi_HT1	This study, SAMN15194903	Female	Anhui, China	Illumina	93.7	~29.0×
		Mthi_R25	This study, SAMN15194904	Female	Guangxi, China	Illumina	113.9	~35.2×
M. tonkeana	Tonkean macaque	Mton	SRR5947293	Male	Sulawesi, Indonesia	Illumina	135.4	~41.8×
P. anubis	Olive baboon	Panu	SRR8723580	Female	Unknown	Illumina	137.9	~42.6×