Table 2.

SYBR GREEN qRT-PCR results of EBOV Assays (all except the last two are SYBR green assays).

Assay #	Assay Name	Gene	Forward Primer	Reverse Primer	Amplicon	Kikwit SNPs		Kikwit Assay Metrics		Makona SNPs		Makona Assay Metrics
			nts	nts	bps	Primer 1	Primer 2	Cq	LoD	Primer 1	Primer 2	Cq	LoD
1	Sig 1	NP	21	22	124	None	None	31.17 ± 0.51	100	None	None	29.96 ± 0.47	100
2	Ebola Zaire-MGB	NP	24	23	76	None	None	27.11 ± 0.09	100	None	None	26.77 ± 0.08	100
3	Sig 3	NP	24	17	49	None	None	26.98 ± 0.08	100	None	None	26.63 ± 0.06	100
4	EboZNP	NP	27	21	80	None	None	26.82 ± 0.10	100	A4G,A6G	A8G	26.91 ± 0.07	100
5	ZAI-NP	NP	26	22	268	None	A3G	28.91 ± 0.11	100	None	None	28.32 ± 0.18	100
6	Ebola MGB-EBOV	NP	20	23	80	None	None	23.72 ± 0.10	1000	A1G, A13T	C23A	24.66 ± 0.02	1000
7	ENZ	NP	18	20	70	None	None	23.43 ± 0.01	1000	A9G	None	24.07 ± 0.09	1000
8	EBO1/2	GP	20	20	479	None *	None *	29.50 ± 0.49	1000	None *	None *	25.74 ± 0.65	10,000
11	EBO-GP-2	GP	21	20	112	None *	None *	27.88 ± 0.07	100	None *	None *	27.50 ± 0.07	100
12	ZebovGP	GP	19	22	64	None	A16G	24.59 ± 0.05	1000	G10A	G7T, T10C	25.17 ± 0.12	1000
13	Ebola Zaire-TM	GP	23	20	80	None	G14A	27.29 ± 0.03	100	None	G14A	27.5 ± 0.05	100
14	KGH	VP24	20	20	122	None	R15A	25.50 ± 0.03	100	None	R15G	25.02 ± 0.05	100
16	Filo AB	L	22	30	419	T8C	G10A	30.96 ± 0.17	100	None	T4C, G10A	30.34 ± 0.14	100
17	GAB-1	L	21	21	353	None	None	26.84 ± 0.07	100	C16T	None	26.87 ± 0.11	100
13+	Ebola Zaire-TM	GP	23	20	80	None	G14A	34.12 ± 0.14	10	None	G14A	34.05 ± 0.42	10
2++	Ebola Zaire-MGB	NP	24	23	76	None	None	33.57 ± 0.18	10	None	None	36.91 ± 0.54	1
+ TaqMan assay- probe mismatch in Makona G9A
++ MGB probe assay- probe is fine in both templates

LoD (putative): (pfu/mL); * degenerate primers