Table 1 Primers, stacking oligonucleotides, synthetic targets and capture probes used.

Primers

Name

Sequence (5'→3')

PCREX7-F

GCTCTGACTGTACCACCATCCA

PCREX7-R

ACCTGGAGTCTTCCAGTGTGA

PCREX8-F

ACTGGGACGGAACAGCTTTGA

PCREX8-R

GCTCCCCTTTCTTGCGGAGAT

Stacking oligonucleotides

Name

Sequence (5'→3')

LSO108–248

CCTGCATGGGCGGCATG

RSO108–248

GGCCCATCCTCACCATCATC

LSO108–249

GCATGGGCGGCATGAACCG

RSO108–249

ATCCTCACCATCATCACTC

LSO92–273

GGGACGGAACAGCTTTGAGG

RSO92–273

TTGTGCCTGTCCTGGGAGA

Synthetic targets

Name

Sequence (5'→3')

ST-157,158WT

GGTGTGGGGGCGGGCCGTGGGCGCAGGCGCGGTACCGGTAGATGTTCGTC

ST-248,249WT

GTGTGATGATGGTGAGGATGGGCCTCCGGTTCATGCCGCCCATGCAGG

ST-248C→T

GATGATGGTGAGGATGGGCCTCCAGGTCATGCCGCCCATGCAGG

ST-248G₁→T

GATGATGGTGAGGATGGGCCTCAGGTTCATGCCGCCCATGCAGG

ST-248G₁→A

GATGATGGTGAGGATGGGCCTCTGGTTCATGCCGCCCATGCAGG

ST-249G₁→T

TGATGATGGTGAGGATGGGCATCCAGTTCATGCCGCCCATGCAGG

ST-249G₂→T

TGATGATGGTGAGGATGGGACTCAGGTTCATGCCGCCCATGCAGG

ST-249G₂→C

TGATGATGGTGAGGATGGGGCTCTGGTTCATGCCGCCCATGCAGG

ST-273WT

CTCTCCCAGGACAGGCACAAACACGCACCTCAAAGCTGTTCCGTCCC

ST-273G→T

CTCTCCCAGGACAGGCACAAACAAGCACCTCAAAGCTGTTCCGTCCC

ST-273G→A

CTCTCCCAGGACAGGCACAAACATGCACCTCAAAGCTGTTCCGTCCC

ST-273C→T

CTCTCCCAGGACAGGCACAAACACACACCTCAAAGCTGTTCCGTCCC

Capture probes

Name

Sequence (5'→3')

p-157WT

CGCGTCC@

p-158WT

GTCCGCG@

p-248WT

AACCGGA@

p-248C→T

AACTGGA@

p-248G₁→T

AACCTGA@

p-248G₁→A

AACCAGA@

p-249WT

GAGGCCC@

P-249G₁→T

GATGCCC@

P-249G₂→T

GAGTCCC@

P-249G₂→C

GAGCCCC@

P-273WT =

TGCGTGT@

P-273-G→T

TGCTTGT@

P-273G→A

TGCATGT@

P-273C→T

TGTGTGT@