TABLE 3.

Analysis of overrepresented DNA regions in VZV

Primer set ID	PCR standardization			Analysis of 2-fold diluted VZV DNAa			CT value for 6,000 copies of VZV DNAa				ΔΔ analysis of area:
											Ab		C/C′c
	Efficiency	R2	n	Δd	SD	n	Trial 1	Trial 2	Trial 3	Trial 4	Avg	n	Avg	n
5k	93.13	1.00	3	1.02	0.19	2	25.96	26.70		26.93	−0.79	4	−1.51	4
							25.87	26.53		26.92
20k	90.54	1.00	3	1.19	0.06	2	26.88	26.38		26.16	−1.04	4	−1.76	4
							26.80	26.58		26.36
40k	91.29	1.00	3	1.02	0.08	3	26.30	25.20	26.59	26.88	−0.77	6	−2.20	6
							26.28	25.75	26.82	26.60
									26.89
60k	94.61	0.98	3	1.00	0.06	3	26.38	26.46	25.54	25.98	−1.58	6	−3.01	6
							26.10	26.50	26.27	24.46
									22.67
80k	98.39	1.00	3	0.99	0.14	2	25.41	25.24		26.25	−1.44	4	−2.16	4
							25.20	24.92		26.02
100k	93.61	0.99	3	0.97	0.06	2	25.00	26.41		26.00	−1.29	4	−2.01	4
							24.34	26.39		25.76
Area A	86.82	1.00	3	0.97	0.31	3	23.21	26.32	26.64	25.13
							22.90	26.11	26.98	24.52	0	6
									26.08
Area C	95.84	1.00	3	1.34	0.65	3	26.92	24.47	21.66	23.82			0	6
							26.51	24.66	22.55	23.92
									22.43
Avg	93.03	0.99	3	1.06			25.62				−1.15		−2.11
SD	3.53	0.01	0	0.13			1.31				0.34		0.51
n	8	8	8	8			60				6		6
Fold differencee (avg)				2.09							2.22		4.32
Fold difference (SD)				0.91							0.79		0.70
N				8							6		6

^aVZV DNA extracted from VZV BAC grown in E. coli.

^b[C_T(area A) − C_T(6,000 VZV DNA copies)] − [C_T(background primer set) − C_T(6,000 VZV DNA copies)].

^c[C_T(area C/C′) − C_T(6,000 VZV DNA copies)] − [C_T(background primer set) −C_T(6,000 VZV DNA copies)].

^dDifference in C_T values from 2-fold dilutions of VZV DNA.

^eTwo raised to the power of the absolute value Δ or ΔΔ.