TABLE 1.

Summary of mutations in evolved E. coli strains^a

Mutation	No. of mutations
	CB1000	CB1012	CB1013	CB1014	CB1015	CB1024	CB1025	CB2000	CB3000	Combined
Transitions
C→T	19	20	5	10	15	6	9	13	14	111
G→A	18	9	11	16	11	11	12	17	17	122
T→C	7	7	6	4	6	13	4	11	11	69
A→G	15	16	7	8	8	14	11	10	6	95
Transversions			1							1
G→T	4	4	1	1	1	3	5	3	5	27
C→A	1	1	2	1	1	5	6	5	2	24
A→C	1	1	2					1	1	6
T→G			1	1	1	1	1		1	6
G→C	2	1	1	2	2		1	1		10
C→G		1					2	3		6
A→T			1		2			1	3	7
T→A		1		1		1		1	1	5
Insertions								3	1	4
767-bp IS1	2	1	1	1	1	1	1			8
Deletions	1									1
e14 prophage	1	1	1	1	1	1	1	1	1	9
93-bp deletion									1	1
Totals	71	63	40	46	49	56	53	70	64	503
In genesa	56	51	28	38	39	50	40	57	53	412
Synonymous	13	9	5	17	13	12	14	16	23	122
Nonsynonymous	43	42	23	21	26	38	26	41	30	290
Intergenic	11	10	5	3	7	4	8	11	9	68

^aTabulations in the final four rows include all mutations tabulated in Table S4 in the supplemental material, including short insertions and deletions (≤3 bp).