TABLE 4.

Examples of the silent-copy breakdown by number of reads

Donor copy	No. of reads for:
	Parent 1	recA9 mutant	recO mutant	Avd-1	Avd92
Unknown nonparental	108	571	286	737	916
pilS1c1	100	95	75	127	195
pilS 1c2	7	2	3	10	14
pilS 1c3	3	2	2	3	8
pilS 1c4	0	1	0	3	1
pilS 1c5	7	2	0	254	2
pilS 2c1	21	0	3	4	0
pilS 2c1/6c1	157	11	9	81	34
pilS 2c2	3	0	0	0	1
pilS 2c3	5	0	0	1	2
pilS 2c4	3	0	0	1	0
pilS 2c5	0	0	0	0	0
pilS 2c6	10	0	0	0	0
pilS 3c1	198	68	59	171	155
pilS 3c2	21	2	4	5	16
pilS 3c3	22	23	13	30	41
pilS 6c1	26	13	9	37	43
pilS 6c2	3	16	19	40	25
pilS 6c3	0	0	0	0	0
pilS 7c1	87	1,041	1	1,396	2,089
Multiple events	26	13	3	22	33
Parental	5,645	95,041	41,594	123,903	115,392
uss	2	2	0	3	3
Unassigned variant	41	90	27	140	109
Totala	6,495	96,993	42,107	126,968	119,079

^aNumber of reads counted, excluding short or truncated reads.