Table 1.

PD-sites, PNAs, and circularizable ODN probes.

PD-sites*	PNAs**	Circularizable linear oligonucleotide (ODN) padlock probes***
LMP-1:   GGAAGAAGGCTAGGAAGAAG	PNA1: H-Lys2-JJTTJTTJ-   (eg1)3-CTTCTTCC-Lys-NH2	5′-pTAGGAAGAAG-TCACGGAATGGTTACTTGCACAGCCAGCCAGCC   TCACGGAATGGTTACTTGCACAGC-GGAAGAAGGC-3′
EBNA-3:   AAGAGGAACACAGAAAGAAG (type 1)	PNA2: H-Lys2-TTJTJJTT-   (eg1)3-TTCCTCTT-Lys-NH2	5′-pCAGAAAGAAG-TCACGGAATGGTTACTTGCACAGCCAGCCAGCC   TCACGGAATGGTTACTTGCACAGC-AAGAGGAACA-3′
AAGATGAACACAGAAAGAAG (type 2)	PNA3: H-Lys-CTTCTTTC-   (eg1)3-JTTTJTTJ-Lys2-NH2
EBNA-2 IR:   GAAGGAGAGGCCAGGGGAGAGGGAAG   (multiple copy, N = 7 – 13)	PNA4: H-Lys-TCTCCTTC-   (eg1)3-JTTJJTJT-Lys2-NH2	5′-pGGGGAGAGGGAAG-TCACGGAATGGTTACTTGCACAGCCAGC   CAGCCTCACGGAATGGTTACTTGCACAGC-GAAGGAGAGGCCA-3′
	PNA5: H-Lys-CTTCCCTC-   (eg1)3-JTJJJTTJ-Lys2-NH2
RCA primer		5′-GTGAGGCTGCTGGCTG-3′
Decorator probe		CY3-TCACGGAATGGTTACTTGCACAGC-biotin

^*Binding sites are underlined;

^**eg1, Lys, and J denote the bis-PNA linker segment, the amino acid lysine, and the nucleobase pseudoisocytosine;

^***terminal sequences covering PD-site are bolded; decorator binding sites are underlined; primer-binding sites are bolded and italicized.