Table 1.

NAA assays – primer and probe details.

Type	Target	Sequence names	Sequence details
qPCR	C. trachomatis	CRYPTIC_MGB_FWD1	5′-TCCGTAAAATGTCCTGATTAGTGAAAT-3′
	Cryptic plasmid	CRYPTIC_MGB_REV1	5′-TTCGGAACGAGTTTTCATGTTTATAT-3′
	(#X07547)	CRYPTIC_MGB_PROBE1	5′-FAM-AGGATAGCACGCTCGGTA-MGB-NFQ-3′
	M. genitalium	MGPA_TM_FWD2	5′-GGCGAGCCTATCTTTGATCCT-3′
	MgPa gene	MGPA_TM_REV2	5′-AACTTTACCTTTGATCTCATTCCAATC-3′
	(#X91072)	MGPA_TM_PROBE2	5′-FAM-AAGGCTTTGGTTTAACTGGTAATGCCCCT-TAMRA-3′
qLAMP	C. trachomatis	Cryptic F3(3)	5′-ACTTAAAAGACAATGGATTACCT-3′
	Cryptic plasmid	Cryptic B3(3)	5′-AATTACTCAAATTTTCTTCAGCG-3′
	(#X07547)	Cryptic FIP(3)	5′-CCGAGATACGATTTGTCCATATCTTATAACTGTAGACTCGGCTTG-3′
		Cryptic BIP(3)	5′-TGTTGCATGATGCTTTATCAAATGACACACGCTCAAATCATCGA-3′
		Cryptic LF(3)	5′-CGCCGCAAAAGCTCTTCC-3′
		Cryptic LB(3)	5′-CTTAGATCCGTTTCTCATACGGTTT-3′
	M. genitalium	PA F3(5)	5′-GAAAACCCCTCAACGGTG-3′
	MgPa gene	PA B3(5)	5′-CTTGGTTATTCAGGTTGTGAT-3′
	(#X91072)	PA FIP(5)	5′-AGGGGCATTACCAGTTAAACCAAAAAAGGGGTTTAAATGGCGA-3′
		PA BIP(5)	5′-ATGAGATCAAAGGTAAAGTTCCAGTCACTAGTAACAGAAAATAGAGGTT-3′
		PA LF(5)	5′-GCCTTTAAAAGGATCAAAGATAGGC-3′
		PA BF(5)	5′-AGAAGTAGTTCAATCCCCCCAT-3′

# denotes GenBank accession number.