Table 4.

Variant analysis of environmental samples obtained using PCR IDs 980, 973, and 975.

Sample ID	Sampling location	PCR ID 980			PCR ID 973			PCR ID 975
		result	mutations	variant likely present	result	mutations	variant likely present	result	mutations	variant likely present
Archive samples
3716	Rome East	–			–			+	none
3732	Rome North	–			+	none		+	none
3737	Rome East	–			–			+	none
3738	Rome East	–			+	none		+	none
3740	Rome East	–			–			+	none
3742	Rome Ostia	–			+	none		+	none
3750	Rome North	–			–			+	none
3798	Rome East	–			+	none		+	none
3801	Rome East	–			+	none		–
3802	Rome East	–			–			+	none
3805	Rome East	–			+	none		–
3808	Rome South	–			+	none		–
3809	Rome Ostia	–			+	none		+	none
Ad-hoc samples from outbreak locations
3862	Guardiagrele	–			+	none		+	none
3863	Guardiagrele	+	A222V	20E (EU1)	+	none		+	none
3865	Guardiagrele	+	A222V	20E (EU1)	+	none		–
3944	Perugia	–			+	D138Y	20 J/501Y.V3	+	E484K, N501Y	20 J/501Y.V3
3945	Perugia	–			+	D138Y	20 J/501Y.V3	+	E484K, N501Y	20 J/501Y.V3
3947	Perugia	+	D138Y, R190S, K417T, E484K, and N501Y	20 J/501Y.V3	+	D138Y	20 J/501Y.V3	+	E484K, N501Y	20 J/501Y.V3
3949	Perugia	–			+	E96G		+	N501Y, A570D	20I/501Y.V1

Samples IDs 3702, 3714, 3720, 3739, 3744, 3797, 3815, 3864, 3868, 3869, 3946 and 3948 did not provide amplification in any of the assays and were not included in the table.