Table 1. HIV-1 nonamers with high similarities to human proteins.

Significant 9-mers consensus 2001	Human Protein sequence	Human protein	HIV database seq. corresponding to human prot. seq.	HIV-I B consensus 2001 position	Identities (Positives)
LHPVHAGPI	LnPVHAGPIV	PTPRE		Gag 215–223	9/10 (10/10)
	LHPGHAEPIV	T cell leukemia Homeobox 1	LHPVHAEPI		8/10
EPFRDYVDRF	VPFRDYVDR	COPINE 5	AAV71076	Gag 291–300	8/9
	PFRDYVDRS		AAV53244		8/9
PDCKTILKA	HPDCKTI	DELTEX 4 homolog	AAV49378	Gag 328–336	7/7
NTPVFAIKKK	SPWNTPVFVIKKK	HERV	PYNTPVFVIKKK	Pol 209–221	11/13
MTKILEPFR	MTKILEPC	Piwi-like 2	AAM74596	Pol 319–327	7/8
	sMTKILDSF	SON DNA Binding P.	AAK35877		6/9 (7/9)
FKNLKTGKY	FKNSKTG	Str Spe Recognition P.	FKNNKT	Pol 501–508	6/7
VNIVTDSQYA	VNIYTDSQYA	HERV	VNIITDSQYA	Pol 648–657	9/10
	VNTVTDDDYA	Thrombospondin 3 precursor	VNIVTDsEYA		7/10
YIEAEVIPA	GYIEAAVIPAG	unnamed P.		Pol 798–806	10/11
	EIEAEV	p53 inducibleP.	AAV49469		6/6
NWRSELYKY	HNWRSELY	peroxysomal acylcoA thioestherase	CAA64162	Env 469–477	7/8
AAG…TVW	35/37	Cancer associated RAK		Env 516–572	35/37
DQGPQREPY	qRP–DQGPQRPP	carcinoma ass. P.	DQGPQRAP	Vpr 7–15	9/13 (10/13)
	DQGPQRPP	proline rich			7/8
PKTACTNCY	SQPKsACGNCY	Zn finger P.	SQPKtACSNCY	Tat 18–26	9/11 (10/11)
LAIVALVVA	ALVALVVAPL	Trypsin-domain P.	ALVALVVAVL	Vpu 7–15	9/10
	LAIVALAV	small inducible cytokine 28			7/8
EELLKTVRL	EELLKEVRL	nucleolar RNA associated P.	EELLKAVRL	Rev10–18	8/9
	LLKTVRLLRLL		LLKTVRLiRLL		10/11
TVRERMRRA	TTVRSRMRRA	Rhomboid P.		Nef 15–23	9/10
IYSQKRQDI	TYSQKFQDI	Ig heavy chain variable region	TYSQKRQDI	Nef 101–109	8/9

The level of similarity to host proteins for these HIV nonamers differed by 3 standard deviations from the level of similarity found with randomized nonamers. Amino acid changes are in bold italics and lower case.