Table 2. Probe sequences for the DENV multiplex rRT-PCR.

Channel	5′ Fluor	Probe Sequence (5′→3′)	3′ Quencher
Green	FAM	CGCGATCGCGTTTCAGCATATTGAAAGACGGATCGCG	BHQ-1
Yellow	CAL Fluor Orange 560	CGCGATCGCGTTTCAGCATATTGAAAGGCGGATCGCG	BHQ-1
Orange	CAL Fluor Red 610	CGCGATCCACGCGTTTCAGCATATTGATAGGATCGCG	BHQ-2
Red	Quasar 670	CGCGATCTTTCAGCATATTGAAAGGTGGTCGATCGCG	BHQ-2

Probes are listed by the channel in which signal is detected on the Rotor-Gene Q instrument. Underlined probe segments designate sequences complementary to the DENV consensus; segments on the 5′ and 3′ ends of the probe comprise the beacon stem.