TABLE 1.

Types and effects of identified gene variations compared to the reference strain, Wuhan-Hu-1 (GenBank accession number MN908947.3)

Gene	Nucleotide position	Nucleotide change	Residue change	Effect
ORF1ab	241	c.–25C>T	No change assigned	Upstream gene variant
	913	c.648C>T	p.Ser216Ser	Synonymous variant
	3037	c.2772C>T	p.Phe924Phe	Synonymous variant
	3267	c.3002C>T	p.Thr1001Ile	Missense variant
	5388	c.5123C>A	p.Ala1708Asp	Missense variant
	5986	c.5721C>T	p.Phe1907Phe	Synonymous variant
	6954	c.6689T>C	p.Ile2230Thr	Missense variant
	10277	c.10012C>T	p.Leu3338Phe	Missense variant
	11287	c.11023_11031delTCTGGTTTT	p.Ser3675_Phe3677del	Conservative in-frame deletion
	14408	c.14144C>T	p.Pro4715Leu	Missense variant
	14676	c.14412C>T	p.Pro4804Pro	Synonymous variant
	14925	c.14661C>T	p.Val4887Val	Synonymous variant
	15279	c.15015C>T	p.His5005His	Synonymous variant
	16176	c.15912T>C	p.Thr5304Thr	Synonymous variant
	17615	c.17351A>G	p.Lys5784Arg	Missense variant
S	21764	c.204_209delACATGT	p.His69_Val70del	Disruptive in-frame deletion
	21990	c.432_434delTTA	p.Tyr145del	Disruptive in-frame deletion
	23063	c.1501A>T	p.Asn501Tyr	Missense variant
	23271	c.1709C>A	p.Ala570Asp	Missense variant
	23403	c.1841A>G	p.Asp614Gly	Missense variant
	23604	c.2042C>A	p.Pro681His	Missense variant
	23709	c.2147C>T	p.Thr716Ile	Missense variant
	24506	c.2944T>G	p.Ser982Ala	Missense variant
	24914	c.3352G>C	p.Asp1118His	Missense variant
ORF8	27972	c.79C>T	p.Gln27a	Stop gained
	28048	c.155G>T	p.Arg52Ile	Missense variant
	28111	c.218A>G	p.Tyr73Cys	Missense variant
N	28280	c.7G>C	p.Asp3His	Missense variant
	28281	c.8A>T	p.Asp3Val	Missense variant
	28282	c.9T>A	p.Asp3Glu	Missense variant
	28881	c.608G>A	p.Arg203Lys	Missense variant
	28882	c.609G>A	p.Arg203Arg	Synonymous variant
	28883	c.610G>C	p.Gly204Arg	Missense variant
	28977	c.704C>T	p.Ser235Phe	Missense variant

^aA stop codon.