Table 3.

Primers for recombinant-specific polymerase chain reaction

	Sequence* (5′-3′)	Nucleotide position
Primer set A
Forward A	TAGTCATACATTaTTCATTTtTAcAg	7814–7839
Reverse A	TTCCATACAAACTATAACAATAATG	335–359
Primer set B
Forward B	TAGTCATACATTGTTCATTTGTAAAA	7814–7839
Reverse B	TTGTTTGCAGCTCTGTGCATAAa	145–167

^*Letters highlighted in gray indicate positions where the nucleotides differ between the HPV16 prototype and Af2 variant: capital letters, identical to the prototype; small letters, identical to the Af2 variant.

Primer set A and B were designed to target recombinants 1 and 3 and recombinants 2 and 4, respectively.