Table 1.

Summary statistics of the important amino acids change among the HIV-1 envelope sequences of chronic and transmitted/founder viruses.

HXB2		Env		Amino Acids		CH			TF			Chi2 Test
Position	Amino Acids	Subregion/Domain	Alignment Position	Change	Genetic Signature	YES	NO	Total	YES	NO	Total	OR	95% CI	B-H adjusted p-values
841	R	LLP-1	959	I	R841I	10	95	105	32	63	95	0.2	0.09–0.44	0.00001
6	K	SP	6	I	K6I	83	22	105	52	45	97	3.26	1.76–6.02	0.0001
62	D	C1	81	E	D62E	20	85	105	4	94	98	5.52	1.89–16.04	0.006
514	G	ECD	628	T	G514T	9	22	31	26	12	38	0.18	0.06–0.52	0.006
24	M	SP	40	I	M24I	38	66	104	16	81	97	2.91	1.50–5.64	0.006
743	R	HIR/KE	865	R	743R	45	60	105	62	35	97	0.42	0.24–0.74	0.008
153	E	V1	206	E	153E	93	11	104	71	26	97	3.09	1.44–6.59	0.008
744	R	HIR/KE	862	R	744R	78	27	105	53	44	97	2.39	1.32–4.32	0.008
717	F	HIR/KE	834	F	717F	86	19	105	62	35	97	2.55	1.34–4.85	0.008
717	F	HIR/KE	834	L	F717L	19	86	105	35	62	97	0.39	0.20–0.74	0.008
154	I	V1	207	M	I154M	35	70	105	52	46	98	0.44	0.25–0.77	0.008
744	R	HIR/KE	862	T	R744T	15	90	105	30	67	97	0.37	0.18–0.74	0.008
841	R	LLP-1	959	L	R841L	81	24	105	56	39	95	2.35	1.27–4.31	0.009
621	Q	GP 41 Loop	738	D	Q621D	16	88	104	31	67	98	0.39	0.20–0.77	0.009
464	L	V5	566	N	L464N	24	45	69	42	31	73	0.39	0.20–0.77	0.009
543	Q	FPPR	657	Q	543Q	63	42	105	76	22	98	0.43	0.23–0.79	0.009

Table 1 presents the important HIV-1 envelope sequence polymorphisms of chronically infected individuals compared to TF viruses of individuals infected that are considered as genetic signatures. Bold typeface define the important Env genetic signatures identified and discussed in manuscript. The gray character referred to sequences alignment position of amino acid change. Abbreviations: V1—variable loop 1, CP—cytoplasmic domain/tail, EC—endocytosis domain, SP—Signal peptide, C2—constant domain 2, C3—constant domain 3, ECD-Loop—Ectodomain-loop region, CP-KE—cytoplasmic domain-Kennedy epitope, ECD-CHR—Ectodomain-C-hepta-repeat, CP-LLP-1—Cytoplasmic Tail-Lentivirus Lytic peptide 1. MSD—Membrane-spanning domain.