TABLE 3.

Evolution of HC-TN polyprotein in CH1581

Wka	Amino acid sequenceb
	E2			p7		NS2				NS3			NS4B			NS5A										NS5B
	401S	433L	461P	767S	793M	834Y	837R	841W	861I	1405A	1406K	1583F	1746V	1747A	1751Q	2064A	2116V	2118S	2220D	2223D	2227I	2278S	2341P	2358S	2414K	2664D	3005I
1																T
8	S	L	P	S	M	Y	R	W	I	A	K	F	V	A	Q	T	V	S	D/g	D	I	S	P	S	K	D	I
11	S	L	P	S	M	Y	R	W	I	A	K	F	V	A	Q	T	V	S	D/G	D	I	S	P	S	K	D	I
13						Y/h	R/H	W/r	I				V	A	Q	T	V	S	G/d*	D	I	S
14	S	L	P	S	V*	Y/h	R/H	W	I	A	K	F	V	A/t	H/q*	A/t*	V	S	G/d*	D	I	S	P	S	K/E	D	I
18	S	L	P	S	V*	Y	L*	W	I	A	K	F	V	T/a*	Q/h	T/a	V	S	D/g	D	I	P*	P	S	E*	G*	I
26						Y/h	L*	W	V/i*								V	P*	D	N*	I	P*
27	S	L	S*	S	T*	H/y*	L*	W	V/i*	A	K	F	V	T*	Q	T	V	P*	D	N*	I	P*	P	S	E*	G*	I
31										T/a*	K
32	S	L/F	S*	S	T*	H/Y*	L*	W/R	V*	T*	K	F	V	T*	Q	T	V	P*	D	D/n	I	P*	P	S	E*	G*	I
36	S	F*	S*	S/p	T*	Y	L*	R*	V*	A	K	F	V/i	T*	Q	T	V	P*	D	D	V/i*	P*	P	S	E*	G*	T*
45	G/s*	F*	S*	P/s*	T*	Y	L*	R*	V*	A/v/t/i	K/R	L/f*	I/v*	T*	Q	T	V/i	P/S*	D	D	V*	P*	P	P/s*	E*	G*	T*
51																						P*	S/p*	P*	E*
52	G*	F*	S*	P*	T*	Y	L*	R*	V*	A/t	R/k*	L*	V/i	T*	Q	T/a	I/v*	P*	D	D	V*	P*	S/p*	P*	E*	G*	T*

^aThe entire ORF sequence of HC-TN was determined at weeks 8, 11, 14, 18, 27, 32, 36, 45, and 52. Only subdomains were analyzed at weeks 1, 13, 26, 31, and 51.

^bAmino acid positions correspond to those of pHC-TN. The consensus sequence of viruses recovered from a CH1422 acute-phase plasma pool is shown at the top. Dominant sequences recovered from the chimpanzee are shown in capital letters. Minor sequences recovered from the chimpanzee are shown in lowercase letters. Dominant amino acid changes are marked with an asterisk. Note that two consecutive changes occurred at aa 793.