Table 3.

IS-related events common to at least ten of the 168 E. faecalis isolates from the Raven et al. dataset [11]

Isolates (n)	IS	Position		Protein potentially affected by the IS insertion
		Genomic	In relation to the closest gene	Function	GeneID
10	ISEnfa4	499 863	In	Hypothetical protein	gene540
10	ISEfa10	2 594 127	Upstream	HAD superfamily hydrolase	gene2620
			Downstream	Hypothetical protein	gene2621
10	IS6770	1 627 490	In	ABC transporter ATP-binding protein	gene1652
10	ISEnfa4	705 382	Downstream	cell wall surface anchor family protein	gene733
11	ISEnfa4	491 272	Upstream	Hypothetical protein	gene530
11	IS1062	991 057	In	Phosphorylase	gene1006
11	ISEnfa4	2 443 962	Downstream	Conjugal transfer protein	gene2462
12	ISChh1	1 337 504	Upstream	Hypothetical protein	gene1348
			Downstream	hydroxymethylglutaryl-CoA synthase	gene1349
13	ISEnfa3	1 224 046	Downstream	ABC transporter ATP-binding protein	gene1240
14	ISEfa10	218 868	Upstream	Hypothetical protein	gene222
14	IS6770	832 847	Upstream	Potassium uptake protein	gene850
19	ISEfa10	2 650 256	Upstream	Lipoate-protein ligase A	gene2676
21	ISEfa10	2 594 120	Downstream	HAD superfamily hydrolase	gene2620
			Upstream	Hypothetical protein	gene2621
21	ISEfa10	2 809 601	Downstream	Hypothetical protein	gene2863
			Upstream	Valyl-tRNA synthetase	gene2864
29	ISApl3	352 544	In	DadA family oxidoreductase	gene418
31	ISEfa10	2 404 627	Upstream	Hypothetical protein	gene2430
32	ISEfm1	1 317 331	In	Hypothetical protein	gene1332
34	ISEfa10	2 594 130	Downstream	HAD superfamily hydrolase	gene2620
			Upstream	Hypothetical protein	gene2621
37	ISEnfa4	1 954 670	In	Hypothetical protein	gene1987
39	IS1485	1 805 579	In	3-methyl-2-oxobutanoate hydroxymethyltransferase	gene1826
43	ISEfa4	608 941	In	DeoR family transcriptional regulator	gene644
43	IS6770	641 514	Upstream	Rotamase	gene672

The second and third columns give the name of the IS and the position of its insertion in the reference genome E. faecalis V583. The fourth column gives the position of the IS insertion in relation to the gene potentially affected, and the fifth column gives the function of the protein and the gene ID of the gene potentially affected by the IS. More detailed information are given in Data S5.