Table 1:

Amino acid substitutions most significantly associated with increased fitness. Significance is defined as posterior mean / posterior standard deviation. Fitness is per 5.5 days (estimated generation time of the Wuhan (A) lineage (1, 19)). Final column: number of PANGO lineages in which each substitution emerged independently.

Rank	Gene	Substitution	Fold Increase in Fitness	Number of Lineages
1	S	H655Y	1.051	33
2	S	T95I	1.046	30
3	ORF1a	P3395H	1.039	5
4	S	N764K	1.040	6
5	ORF1a	K856R	1.039	2
6	S	S371L	1.041	3
7	E	T91	1.040	5
8	S	Q954H	1.040	5
9	ORF9b	P10S	1.039	25
10	S	L981F	1.040	2
11	N	P13L	1.040	25
12	S	G339D	1.039	4
13	S	S375F	1.040	5
14	S	S477N	1.039	47
15	S	N679K	1.040	11
16	S	S373P	1.040	5
17	M	Q19E	1.039	5
18	S	D796Y	1.038	11
19	S	N969K	1.040	5
20	S	T547K	1.038	3