TABLE 3.

Nucleotide sequences of HIV-1 amplicons that failed to be genotyped by OLA, including the region complementary to the ligation oligonucleotides on either side of the ligation site

Patient no.	Direct sequencing (5′→3′)a	Protease amino acid	OLA resultb
azh32	TA TTA GAT ACA GGA GCA GACA ∗ AT ACA GTA TTA GAA GAA GTG GAT	D30N	WT
ays52	AAA CCA AAA ATA ATA GTG GGA A ∗ TT GGA GGT TTT ACC AAA GTA AGA	I50	INDTR
aqu27	AAA CCA AAA CTG ATA GGG GGTA ∗ TT GGA GGT TTT GTC AAA GTA AGA	I50	INDTR
awz34	TA TTA GTA GGA CCT ACA CCT GC ∗ T AAC ATA ATT GGA AGA AAT GTG T	V82A	INDTR
bmy37	TA TTA ATA GGA CCT ACA CCT AT ∗ C AAC ATA GTT GGA AGA AAT CTG T	V82I	INDTR
ajz26	A GGA CCT ACA CCT AGC AAC A ∗ TAGTT GGA AGA AAT CTG TTG ACT	I84	INDTR
bhl34	A GGA CCT ACA CCG AGC AAC A ∗ TA ATT GGA AGA AAT CTG TTG ACT	I84	INDTR
awm29	CCT GTC AAC ATA ATT GGA AGGA ∗ AT CTG ATG ACT CAG ATT GGT TG	N88	INDTR
axh51	CCT ACC AAC GTA GTT GGA AGA A ∗ AT CTG ATG ACT CAA ATT GGC TG	N88	INDTR
awz34	CCT GCC AAC ATA ATT GGA AGA A ∗ ATGTG TTG ACT CAG ATT GGT TG	N88	INDTR
bwo55	CCT ACC AAC GTA ATT GGA AGA A ∗ ATATT TTG ACT CAA ATT GGC TG	N88	INDTR
bwo55	C AAC GTA ATT GGA AGA AAT ATTT ∗ TG ACT CAA ATT GGC TGC ACT TT	L90	INDTR
ays52	C AAC ATA ATT GGA AGA AAT CTG/AT/A ∗ TG ACT CAG CTT GGC TGC AC	L90L/M	WT

^aBoldface type indicates base changes no longer complementary to the ligation oligonucleotides included in our assay. The drug resistance codon tested in the assay is underlined. An asterisk indicates the ligation site.

^bWT, wild type; INDTR, indeterminate genotype with negative reaction for both wild-type and mutant genomes.