BDV-f3 (4)

V1

G right nucleotide in position 7; CU or A-U in position 17; G:Y, GG or AG in position 18

V2

UA in position 2

V3

UU or UC in position 7

BDV-f4 (4, 7)

V1

G right nucleotide in position 7; CU or CC in position 17; Y:G in position 18

V2

Y:G or C U bulge in position 2

V3

U U or U C bulges in position 7

BDV-g1 (TU)

V1

G:Y in position 1

V2

U-A, C-G or U*G in position 3

V3

A-U or CU in position 6 (CU all strains from Sicily; shared only with B V60 and D2 AV only)

BDV-g2 (TU)

V1

A-U in position 1

V2

A-U or AC in position 3

V3

AC, UU or CC in position 6

BDV-i1

V1

C C bulge in position 8; A-U in position 19

V3

C A bulge in position 8

BDV-i2

V1

A G bulge in position 8; A G bulge in position 19

V3

A A bulge in position 8

BDV-j1 (3)

V1

A-U in position 3; A-U in position 14; CC in position 19

V3

Y:G in position 8

BDV-j2 (3)

V1

G:Y in position 3; GC in position 14; UA or UG in position 19

V3

G:Y, U C or A A bulges in position 8

BDV-j3 (3)

V1

G:Y in position 3; GC in position 14; UC in position 19

V3

Y:G in position 8; V3/9 A

CSFV genotypes

Locus

Characteristic PNS markers

CSFV-a

V1

A C bulge in position 15 (exception G:Y and A-U)

V2

U-A in position 5; G:Y in position 7

V3

A-U in position 1 (exception A G bulge)

CSFV-b

V1

G:Y in position 15; A G bulge in position 19; U-A in position 20

V2

A-U in position 5; A C bulge in position 7

V3

A-U in position 1; U C bulge in position 6

CSFV-c

V1

A-U in position 15

V2

U-A in position 5; G:Y in position 7

V3

A G bulge in position 1

CSFV-d

V1

A C bulge in position 15

V2

U-A in position 5; G:Y in position 7

V3

U U bulge in position 1

CSFV genotype variants

Locus

Characteristic PNS markers

CSFV-a1

V1

AC in position 15

V2

A-U in position 1; A-U in position 6