Sequences in 2005 Subtype Reference Alignments

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COMMON NAME	LOCUS	ACC #	SAMPLE COUNTRY	FIRST AUTHOR	REFERENCE
A1.KE.Q23_17	HIVQ2317	AF004885	KE	Poss, M	J Virol 72(10); 8240-51 (1998)
A1.UG.92UG037	H92UG037	U51190	UG	Gao, F	J Virol 70(3); 1651-67 (1996)
A1.SE.SE7253	ASOSE7253	AF069670	SE	Laukkanen, T	AIDS 13(14); 1819-26 (1999)
A1.UG.98UG57136	AF484509	AF484509	UG	Harris, ME	ARHR 18(17); 1281-90 (2002)
A2.CD.97CDKTB48	97CDKTB48	AF286238	CD	Gao, F	ARHR 17(8); 675-88 (2001)
A2.CY.94CY017_41	94CY017.41	AF286237	CY	Gao, F	ARHR 17(8); 675-88 (2001)
B.FR.HXB2-LAI-IIIB-BRU	HIVHXB2R	K03455	FR	Wong-Staal, F	Nature 313(6000); 277-84 (1985)
B.TH.BK132	AY173951	AY173951	TH	Hierholzer, J	ARHR 18(18):1339-1350 (2002)
B.NL.671_00T36	AY423387	AY423387	NL	Geels, MJ	J Virol 77(23):12430-12440 (2003)
B.US.1058_11	AY331295	AY331295	US	Bernardin, F	J Virol 79(17); 11523-8 (2005)
C.BR.BR025-d	H92BR025	U52953	BR	Gao, F	J Virol 72(7); 5680-98 (1998)
C.ET.ETH2220	HIVETH2220	U46016	ET	Salminen, MO	ARHR 12(14); 1329-39 (1996)
C.IN.95IN21068	CIN21068	AF067155	IN	Lole, KS	J Virol 73(1); 152-60 (1999)
C.ZA.SK164B1	AY772699	AY772699	ZA	Birditt, BA	Unpublished
D.CD.ELI	HIVELICG	K03454	CD	Alizon, M	Cell 46(1); 63-74 (1986)
D.CM.01CM_4412HAL	AY371157	AY371157	CM	Kijak, GH	ARHR 20(5); 521-30 (2004)
D.UG.94UG114	94UG114	U88824	UG	Gao, F	J Virol 72(7); 5680-98 (1998)
D.TZ.A280	AY253311	AY253311	TZ	Arroyo, MA	Unpublished
F1.BE.VI850	VI850	AF077336	BE	Laukkanen, T	Virology 269(1); 95-104 (2000)
F1.BR.93BR020_1	93BR020	AF005494	BR	Gao, F	J Virol 72(7); 5680-98 (1998)
F1.FI.FIN9363	FIN9363	AF075703	FI	Laukkanen, T	Virology 269(1); 95-104 (2000)
F1.FR.MP411	96FRMP411	AJ249238	FR	Peeters, M	ARHR 16(2); 139-51 (2000)
F2.CM.02CM_0016BBY	AY371158	AY371158	CM	Kijak, GH	ARHR 20(5); 521-30 (2004)
F2.CM.MP255	95CMMP255C	AJ249236	CM	Peeters, M	ARHR 16(2); 139-51 (2000)
F2.CM.MP257	95CMMP257C	AJ249237	CM	Peeters, M	ARHR 16(2); 139-51 (2000)
F2.CM.CM53657	CM53657	AF377956	CM	Carr, JK	Virology 286(1); 168-81 (2001)
G.BE.DRCBL	DRCBL	AF084936	BE	Debyser, Z	ARHR 14(5); 453-9 (1998)
G.NG.92NG083	92NG083	U88826	NG	Gao, F	J Virol 72(7); 5680-98 (1998)
G.SE.SE6165	AF061642	AF061642	SE	Laukkanen, T	Virology 247(1); 22-31 (1998)
G.KE.HH8793_12_1	AF061641	AF061641	KE	Salminen, MO	ARHR 8(9); 1733-42 (1992)
H.BE.VI991	VI991	AF190127	BE	Janssens, W	AIDS 14(11); 1533-43 (2000)
H.BE.VI997	VI997	AF190128	BE	Janssens, W	AIDS 14(11); 1533-43 (2000)
H.CF.056	90CF056	AF005496	CF	Murphy, E	ARHR 9(10); 997-1006 (1993)
J.SE.SE7887	SE92809	AF082394	SE	Laukkanen, T	ARHR 15(3); 293-7 (1999)
J.SE.SE7022	SE91733	AF082395	SE	Laukkanen, T	ARHR 15(3); 293-7 (1999)
K.CD.EQTB11C	97EQTB11C	AJ249235	CD	Peeters, M	ARHR 16(2); 139-51 (2000)
K.CM.MP535	96CMMP535C	AJ249239	CM	Peeters, M	ARHR 16(2); 139-51 (2000)
01_AE.TH.CM240	HIV1CM240	U54771	TH	Laukkanen, T	J Virol 70(9); 5935-43 (1996)
02_AG.NG.IBNG	HIVIBNG	L39106	NG	Howard, TM	ARHR 10(12); 1755-7 (1994)
03_AB.RU.KAL153_2	KAL1532	AF193276	RU	Liitsola, K	AIDS 12(14); 1907-19 (1998)
04_cpx.CY.CY032	CY0323	AF049337	CY	Gao, F	J Virol 72(12); 10234-41 (1998)
05_DF.BE.VI1310	VI1310	AF193253	BE	Laukkanen, T	Virology 269(1); 95-104 (2000)
06_cpx.AU.BFP90	BFP90	AF064699	AU	Oelrichs, RB	ARHR 14(16); 1495-500 (1998)
07_BC.CN.CN54	CN54b	AX149771	CN	Shao, Y	Patent: WO 0136614-A 125 25-MAY-2001; Geneart GMBH Gessellschaft fuer angewandte Boitechnologie(DE) ; Shao, Yiming (CN)
08_BC.CN.97CNGX_6F	97CNGX6F	AY008715	CN	Piyasirisilp, S	J Virol 74(23); 11286-95 (2000)
09_cpx.GH.96GH2911	AY093605	AY093605	GH	McCutchan, FE	ARHR 20(8); 819-26 (2004)
10_CD.TZ.96TZ_BF061	96TZBF061	AF289548	TZ	Koulinska, IN	ARHR 17(5); 423-31 (2001)
11_cpx.GR.GR17	GR17	AF179368	GR	Paraskevis, D	ARHR 16(9); 845-55 (2000)
12_BF.AR.ARMA159	ARMA159	AF385936	AR	Carr, JK	AIDS 15(15); F41-7 (2001)
13_cpx.CM.1849	1849	AF460972	CM	Wilbe, K	ARHR 18(12):849-856 (2002)
14_BG.ES.X397	X397	AF423756	ES	Delgado, E	J Acquir Immune Defic Syndr 29(5); 536-43 (2002)
15_01B.TH.99TH_MU2079	01AEB	AF516184	TH	Viputtijul, K	ARHR 18(16); 1235-7 (2002)
16_A2D.KR.97KR004	97KR004	AF286239	KR	Gao, F	ARHR 17(8); 675-88 (2001)
18_cpx.CM.CM53379	CM53379	AF377959	CM	Carr, JK	Virology 286(1); 168-81 (2001)
19_cpx.CU.CU38	AY588970	AY588970	CU	Cuevas, MT	AIDS 16(12):1643-1653 (2002)
N.CM.YBF106	YBF106	AJ271370	CM	Ayouba, A	AIDS 14(16); 2623-5 (2000)
N.CM.DJO0131	AY532635	AY532635	CM	Bodelle, P	ARHR 20(8):902-908 (2004)
N.CM.YBF30	NCMYBF30	AJ006022	CM	Simon, F	Nat Med 4(9); 1032-7 (1998)
O.BE.ANT70	HIVANT70C	L20587	BE	Vanden Haesevelde, M	J Virol 68(3); 1586-96 (1994)
O.SN.SEMP1300	SEMP1300	AJ302647	SN	Vergne, L	J Clin Microbiol 38(11); 3919-25 (2000)
O.CM.MVP5180	HIVMVP5180	L20571	CM	Gurtler, LG	J Virol 68(3); 1581-5 (1994)
O.CM.98CMU2901	AY169812	AY169812	CM	Yamaguchi, J	ARHR 19(11):979-988 (2003)
CPZ.CD.ANT	SIVCPZANT	U42720	CD	Vanden Haesevelde, MM	Virology 221(2); 346-50 (1996)
CPZ.TZ.TAN1	AF447763	AF447763	TZ	Santiago, ML	J Virol 77(3):2233-2242 (2003)
CPZ.CM.CAM5	CAM5	AJ271369	CM	Muller-Trutwin, MC	J Med Primatol 29(3-4); 166-72 (2000)
CPZ.GA.CPZGAB	CPZGAB1	X52154	GA	Huet, T	Nature 345(6273); 356-9 (1990)