TABLE 2.

Numbers and percentages of X4 variants predicted by using the Geno2pheno_[CORECEPTOR] algorithm on sequences assessed by both NGS and SGA

Sample	No. of C2/V3 sequences		No. (%) of X4 variants predicted by Geno2pheno[CORECEPTOR]
	NGSa	SGA	FPR of ≤2.0%		FPR of ≤5.0%
			NGS	SGA	NGS	SGA
C01	1,116	20	0	0	0	0
C02	381	17	0	0	0	0
C03	1,031	23	154 (15)	1 (4)	155 (15)	1 (4)
C04	502	15	102 (20)	2 (13)	424 (85)	12 (87)
C05	1,438	17	670 (47)	8 (47)	672 (47)	8 (47)
C06	616	29	170 (28)	12 (41)	170 (28)	12 (41)
C07	1,248	19	152 (12)	4 (21)	962 (77)	17 (89)
C08	1,610	38	217 (13)	3 (8)	217 (13)	3 (8)
C09	2,108	38	401 (19)	3(8)	579 (28)	6 (16)
C10	808	24	66 (8)	10 (42)	66 (8)	10 (42)
C11	900		266 (30)		267(30)
C12	1,353	14	0	0	13 (1)	0
C13	2,230		200 (9)		201 (9)
C14	2,334		523 (22)		524 (22)
C15	988		178 (18)		178 (18)
C16	855	36	657 (77)	28 (78)	670 (78)	28 (78)
C17	635		111 (17)		111 (17)
C18	1,361		74 (5)		164 (12)
C19	787		0		2 (0.3)
C20	2,626		154 (6)		161 (6)
C21	1,141	12	30 (3)	0	1,102 (97)	8 (67)
C22	1,418		203 (14)		207 (15)
C23	1,247		0		0
C24	2,019		92 (5)		92 (5)
C25	1,431	18	228 (16)	2 (11)	1,381 (17)	2 (11)
C26	2,166		333 (15)		336 (16)
C27	1,791	19	304 (5)	1 (5)	1,790 (100)	19 (100)
C28	1,868	19	1,585 (85)	17 (89)	1,869 (100)	19 (100)
C29	2,856		0		0
C30	3,103		841 (27)		841 (27)
P01	2,732	19	0	0	8 (0.1)	0
P02	1,464	17	0	0	4 (0.3)	0
P03	1,963	20	0	0	0	0
P04	669	11	0	0	1 (0.1)	0
P05	1,552	9	0	0	4 (0.3)	0
P06	1,277	10	0	0	2 (0.2)	0

^aNumber of template consensus sequences.