Table 1.

Oligonucleotide sequences

Test	Oligo	Names	Sequences
MutY glycosylase test	Probe	probe_MutY	5′-TAAGAAGAGGAATTGCCTTTCCTACGACCTCAATGCACATGTTTGGCTCCTCTTCCCAGGGGTATGTTGT-3′
	Target	target_MutY	5′-*TCAGCTGACAACATACCCATGGGAAGAGGA-3′
AP test	Probe	probe_AP	5′-TCAGCTGACAACGTACCCATGGGAAGAGGA-3′
	Target	target_AP	5′-*TCCTCTTCCCAGGGGTAUGTTGTCAGCTGA-3′
Ligation after cleavage	Probe	probe_relig	5′-ATCAGTCGACAAAGAGACCCTGGAAGGGTACCGTGCGCCTGGTAGCAAATAGTCCGTCATGTGTTAGATGC-3′
	Tracking probe 1	track_relig1	5′-*CTACCAGGCGCACGGTACC-3′
	Tracking probe 2	track_relig2	5′-ATGACGGAATATTTG-3′
	Ligation probe	lig_relig	5′-TAACACATGACGGAC-3′
Cleavage of blocked end	Padlock probe	plp_cleave	5′-TAAGAAGAGGAATTGCCTTTCCTACGACCTCAATGCACATGTTTGGCTCCTCTTCCCAGGGGTATGTTGT-3′
	Target blocked	target-blocked_cleave	5′-GCAATTCCTCTTCTTAACAACATACCCATGGUUU-3′
	Target non-blocked	target-nonblocked_cleave	5′-CAATTCCTCTTCTTAACAACATACCCATG-3′
	Detection probe	det_cleave	5′-Cy3-CCTCAATGCACATGTTTGGCTCC-3′
In situ detection of mtDNA	Padlock probe	plp_insitu	5′-TAAGAAGAGGAATTGCCTTTCCTACGACCTCAATGCACATGTTTGGCTCCTCTTCCCAGGGGTATGTTGT-3′
	Detection probe	det_insitu	5′-Cy5-CCTCAATGCACATGTTTGGCTCC-3′

Bold letters indicate the site of the mismatch upon oligonucleotide annealing.

*Where the ³²P-label is introduced.

Underlined sequences indicate the target complements of the padlock probes.

Italic letters in padlock probes indicate detection probe sequences.