Table 2.

Predicted drug resistance by portable Nanopore sequencing.

Specimen	Predicted drug resistancea	Linked cross-resistanceb	ART
EM2045	NNRTI: EFV (h), NVP (h) INSTI: BIC (i), CAB (i), DTG (i), EVG (i), RAL (l)	3: NNRTI: EFV (h), NVP (h) and INSTI: BIC (i), CAB (i), DTG (i), EVG (i), RAL (l) 5: NNRTI: EFV (h), NVP (h) and INSTI: BIC (l), CAB (l), DTG (l), EVG (l), RAL (p)	NRTI: FTC and TAF INSTI: BIC and DTG
	NNRTI: EFV (h) and NVP (h) INSTI: BIC (l), CAB (i), DTG (i), EVG (i), RAL (i)	3: NNRTI: EFV (h), NVP (h) and INSTI: BIC (l), CAB (i), DTG (i), EVG (i), RAL (i) 2: NNRTI: EFV (h), NVP (h) and INSTI: BIC (l), CAB (l), DTG (l), EVG (l), RAL (p)
KI6633	NRTI: ABC (l), 3TC (p), D4T (l), DDI (l), FTC (p), TDF (l) NNRTI: ETR (p), RPV (l)	2: NRTI: ABC (l), 3TC (p), D4T (l), DDI (l), FTC (p), TDF (l) 5: NNRTI: ETR (p), RPV (l)	PI: ATV NRTI: 3TC, FTC, TDF, ZDV (AZT) NNRTI: EFV
ZI9923	NNRTI: ETR (p), RPV (l)	29: NNRTI: ETR (p), RPV (l)	PI: DRV RTV NRTI: FTC, TDF
	NNRTI: ETR (p), RPV (l)	10: NNRTI: ETR (p), RPV (l)
MP7985	NRTI: AZT (i), D4T (l), DDI (p)	1: NRTI: AZT (i), D4T (l), DDI (p)	NRTI: 3TC, ABC, ZDV
	none	none
701010222-1	INSTI: EVG (p), RAL (p)	6: INSTI: EVG (p), RAL (p)	naive
	INSTI: EVG (p), RAL (p)	10: INSTI: EVG (p), RAL (p)
701010222-2	INSTI: EVG (p), RAL (p)	3: INSTI: EVG (p), RAL (p)	naive
703010863-2	NRTI: 3TC (h), DDI (p), FTC (h), ABC (l) NNRTI: NVP (h), EFV (h)	1: NRTI: 3TC (h), DDI (p), FTC (h), ABC (l) and NNRTI: NVP (h), EFV (h)	naive
	NRTI: 3TC (h), DDI (p), FTC (h), ABC (l) NNRTI: NVP (h), EFV (h)	9: NRTI: 3TC (h), DDI (p), FTC (h), ABC (l) and NNRTI: NVP (h), EFV (h)
703011231-2	INSTI: EVG (p), RAL (p)	10: INSTI: EVG (p), RAL (p)	naive

^aThe resistance levels are denoted by high-level resistance (h), intermediate-level resistance (i), low-level resistance (l), and potential low-level resistance (p).

^bNumber of consensus sequences with a particular linkage is presented.