Table 3: Primers and probes for RQ-PCR analysis of BKV, JCV and SV40 target sequences

Target	bp	5'label	Oligonucleotide sequence (5'-3')	3'label	μM
BKV LT forw			TGTAAGGAATTTCACCCTGACAAAG		400
BKV LT rev			TGAGCTACCTTTACATCCTGCTCC		400
BKV LT probe1	98	FAM	AAAGTATTCATTCTCTTCATTTTATCCTCGTCGCCC	TAMRA	200
BKV VP1 forw			TCCAGGGGCAGCTCCC		400
BKV VP1 rev			GATCCCCCATTTCTGGGTTTAG		400
BKV VP1 probe2	146	FAM	AGGAGGAGTAGAAGTTCTAGAAG	NFQ	200
BKV NCCR forw			CCAGCCAGTGGCAGTTAATAGTG		400
BKV NCCR rev			GGGACAAGGCCAAGATTCCT		400
BKV NCCR probe1	137	FAM	CATGTCTGTCTGGCTGCTTTCCACTCCTT	TAMRA	200
JCV LT forw			AATAGGGAGGAATCCATGGAGC		400
JCV LT rev			GTCCCCACCTTTATCAGGGTG		400
JCV LT probe2	129	FAM	TCTCATGACAGGAATGTT	NFQ	200
JCV VP1 forw			AAATGTTCCTCCAGTTCTTCATATAACAA		400
JCV VP1 rev			GTCACCTTTGCAAAGTGGCC		400
JCV VP1 probe2	88	FAM	ACACCAAATTCATCAAGCA	NFQ	200
SV40 LT forw			GGAATATTCCTCTGATGAGAAAGGC		400
SV40 LT rev			CTCCATCTTCCATTTTCTTGTACAGAG		400
SV40 LT probe1	123	FAM	ATCTCCTCCTTTATCAGGATGAAACTCCTTGCATTT	TAMRA	200
SV40 VP1 forw			ACCAGTGCAAGTGCCAAAGC		400
SV40 VP1 rev			ATCAGGATTGCCCATTTGAGG		400
SV40 VP1 probe1	121	FAM	AAGCACTCCACCTCAGTGAAGCTGTCTACTCC	TAMRA	200

¹TaqMan probes are labelled with FAM: 6-carboxyfluorescein and TAMRA: 6-carboxytetramethylrhodamine
²minor groove binding probes are labelled with FAM: 6-carboxyfluorescein and NFQ: Non-Fluorescence Quencher, LT: Large T Antigen, NCCR: Non-Coding Control Region, VP1: Virus Protein1.