Table 3.

Primers and probe used in this study

Gene	Round	Primer/Probe	Sequence	Ref.
Env	1st	Env-EF	5′-ATGCCYAAAGAACGACGG-3′	[23]
		Env-ER	5′-CGACGGGACTAGGTCTGACCC-3′
	2nd	Env-IF	5′-TCTGTGCCAAGTCTCCCAGATA-3′	[20]
		Env-IR	5′-AACAACAACCTCTGGGAAGGGT-3′
LTR	1st	CoCoMo-F	5′-AATCCMNMYCYKDAGCTGCTGAYYTCACCT-3′	[28]
		CoCoMo-R	5′-TTGCCTTACCTGMCSSCTKSCGGATAGCCGA-3′
		LTR-probe	5′-FAM-CTCAGCTCTCGGTCC-NFQ-MGB-3′	[47]
Gag	1st	Gag-F	5′-ATGGGAAATTCCCCYTATAA-3′	This study
		Gag-R	5′-CTAGTTTAAAGGGAATTAG-3′

Round means the round of PCR reactions