TABLE 1.

Detailed description and frequency of mutations found in the P.1 lineage and sublineage sequences^a

Genomic position	Effect	Gene/region	Amino acid change	Frequency (%)
C241T	Intergenic	5’UTR	-b	106 (100.0)
T733C	Synonymous	ORF1ab	-	104 (98.1)
C2749T	Synonymous		-	105 (99.0)
C3037T	Synonymous		-	106 (100.0)
C3828T	Missense		S1188L	104 (98.1)
A5648C	Missense	nsp3	K1795Q	106 (100.0)
del11288-11296	NA		-	106 (100.0)
C12778T	Synonymous	nsp9	-	44 (41.5)
C13860T	Synonymous		-	105 (99.0)
C14408T	Missense	RdRp	P314L	106 (100.0)
G17259T	Missense	Helicase	E1264D	105 (99.0)
C21614T	Missense	Spike	L18F	99 (93.4)
C21621A	Missense		T20N	105 (99.0)
C21638T	Missense		P26S	104 (98.1)
G21974T	Missense		D138Y	106 (100.0)
G22132T	Missense		R190S	79 (74.5)
A22812C	Missense		K417T	106 (100.0)
G23012A	Missense		E484K	106 (100.0)
A23063T	Missense		N501Y	104 (98.1)
A23403G	Missense		D614G	41 (38.7)
C23525T	Missense		H655Y	105 (99.0)
C24642T	Missense		T1027I	103 (97.2)
G28167A	Missense	ORF8	E92K	105 (99.0)
ins28263-28266	NA		-	106 (100.0)
C28512G	Missense	Nucleocapsid	P80R	106 (100.0)
A28877T	Synonymous		-	106 (100.0)
G28878C	Synonymous		-	106 (100.0)
GGG2888128883AAC	Missense		R203K/G204R	106 (100.0)

^aMutations found in P.1 (n = 98), P.1.1 (n = 2) and P.1.2 (n = 6) sequences. P.1 lineage-defining mutations are highlighted in bold. Only mutations observed in more than 40 genomes from this study are shown. del: nucleotide deletion; ins: nucleotide insertion; NA: not applicable; ORF: open reading frame; nsp: nonstructural protein; RdRp: RNA-dependent RNA polymerase; UTR: untranslated region. The proteins nsp3, nsp9, RdRp, and helicase belong to the ORF1ab. Mutations shared with the B.1.1.28 lineage are not described. All the amino acid mutations are based on Nextclade (https://clades.nextstrain.org).

^b-, non-amino acid change.