#MEGA !Title HIV; !Format DataType=Nucleotide CodeTable=Standard NSeqs=34 NSites=1921 Identical=. Missing=? Indel=-; !Domain=Data property=Coding CodonStart=1; #AF103818_SIVcpzUS CCA ACG AGA AAC CAA GAA AGG AAA GGC AGG ATA TGT TAC TGA TAG GGG TAG ACA AAA AAT TAT AAC TTT AGA AAA TAC #AF115393_SIVcpzCAM3 TA. CA. ... G.. A.. ... ... ... A.. ... C.. C.. C.. ... ... A.. C.. ... G.. ... AG. ..A C.. ... ... ... #AF382828_SIVcpzGAB2 .A. TA. G.. G.. A.G A.G ... ... A.. ... ... ... ..T .A. ..A T.. A.A ... G.. GG. C.. TT. C.. G.. .G. G.. #AF447763_SIVcpzTAN1 AA. CA. ... C.G T.. A.. G.. ..G A.. ... ... ... A.. AA. C.. A.. C.. .T. C.G GTC A.A GGA C.. ... G.. C.. #AJ006022_HIV-1_N_YBF30 TA. TA. G.. ... A.. ATT G.. ... A.. ... T.T ... G.. A.. ... ... A.. ... G.. .G. GG. CT. .A. T.C .G. C.. #AJ271369_SIVcpzCAM5 TA. CA. ... ... A.. ... ... ... A.. ... T.. CA. ... A.. ... ... C.. ... G.. ... A.. ..A ... ... ... ... #AJ271370_HIV-1_N_YBF106 TA. TAA ... ... A.. ATT ... ... A.. ... T.T ... G.. A.. ... A.. A.. ... G.. .G. GG. CT. .A. T.. G.. C.. #AM296488_SIVgorBQ664 .A. CA. G.. ..G ... ATT ... G.. A.. ... ... ... GT. A.. C.. A.. A.. ... G.. ... A.. T.A AC. ... .G. G.. #AM296489_SIVgorCP684 TA. TA. ... ..G ... AC. ... ... A.. ... ... ... A.. A.. ... ... ... ... G.. G.. A.G ..A AC. ... GGG C.. #AM296491_SIVgorCP1436 .A. CA. ... ..G T.. AC. ... ... A.. G.. G.. ... A.. A.. C.. A.. ... G.. ... G.. C.. ..A G.. ... .GG C.. #AY169968_SIVcpzCAM13 AA. TA. G.. ... A.. ... ... ... A.. ... ... CA. A.. A.. C.A ... A.A ... ... ... A.. C.G .C. ... G.. C.. #DQ370395_SIVcpzMT115 ... CA. ... ... A.. A.G ... ... A.. ... C.. ... A.. A.. C.. ... G.. ... ..G G.. .CA T.G .C. T.. .G. ... #DQ370403_SIVcpzDP206 .A. TA. ... ... T.. A.. ... ... A.. ... ... CA. ... A.. ... ... G.. ... ... G.. C.. ... CC. ... GG. C.. #DQ370405_SIVcpzDP25 .A. T.. ... ... T.. A.. ... ... A.. ... ... CA. .T. A.. ... ... G.. ... G.. G.. C.. ... CC. G.. GG. C.. #DQ370408_SIVcpzEK502 TA. TA. G.. ... T.. ATT ... G.. ... ... ..T ... G.. A.. ... ... ... G.. ... GG. G.C CT. .A. CTC .G. A.. #DQ370411_SIVcpzEK519 TA. TA. G.. ... T.. ATT ... G.. A.. ... ..T ... G.. A.. ... ... ... G.. ... GG. G.C CT. .A. CTC .G. A.. #DQ370413_SIVcpzMB23 TA. TA. ... ... T.. ATT ... G.. A.. ... ... ... G.. ... C.. ... A.. ... ... G.. A.. CT. CC. .AC .G. G.. #DQ370415_SIVcpzMB192 TA. TA. ... ... T.. ATT ... G.. A.. ... ... ... G.. .A. C.. ... A.. ... ... G.. A.. CT. CC. .AC .G. G.. #DQ370416_SIVcpzMB317 TA. CA. G.. ... A.. .TT ... G.. A.. ... C.. ... G.. A.. C.. A.. A.. ... ... GG. GG. ... CC. GAC .G. A.. #DQ370417_SIVcpzMB245 TA. CA. ... ... ... ATT ... G.. A.. ... ... ... A.. A.. C.A A.. A.. ... ... ... C.. CT. ... .AC .G. A.. #DQ370418_SIVcpzLB186 TAG TA. ... ... ... A.T G.. ... A.. ... G.. ... G.. AA. ... ... G.. ... G.. G.. ... CT. C.. .TC .G. A.. #DQ373063_SIVcpzMB66 TA. CA. ... ... ... ATT ... G.. A.. ... ... ... A.. A.. C.A A.. A.. ... ... G.. C.. CT. ... .AC .G. A.. #DQ373064_SIVcpzLB7 TA. CA. ... ... T.. .TT ... ... A.. ... ... ... A.. A.. ... ... G.A G.. G.. ... A.. CC. C.. .AC .G. A.. #DQ373065_SIVcpzEK505 TA. TA. G.. ... T.. ATT ... G.. A.. ... ..T ... G.. A.. ... ... ... G.. ... GG. G.C CT. .A. CTC .G. A.. #DQ373066_SIVcpzMT145 .A. CA. ... ... A.. A.G ... ... A.. ... C.. ... G.. AA. C.. ... G.. ... ... G.. .CA T.G .C. T.. .G. ... #DQ374657_SIVcpzTAN2.69 AA. CA. G.. ..G ... A.. G.. ..G A.. ... G.. ... A.. A.. C.. ... ... .T. T.G G.C A.A GGA C.. ... ... C.. #DQ374658_SIVcpzTAN3.1 AA. CA. ... ..G ... A.. G.. ..G A.. ... G.. ... G.. A.. ... ... ... .T. T.. G.C A.G GGA ... ... ... C.. #K03455_HIV-1_M/B_HXB2 TA. CA. G.. G.. T.. ATT ... ... A.. ... ... ... ... .A. ... A.. A.. ... ... .G. .G. C.. CC. .AC TG. C.. #L20571_HIV-1_O_MVP5180 TA. TA. GA. T.. A.. ACT ... ... ... G.. ... ... ... A.. ACA A.. A.A ... G.. C.. A.. ..A G.. ... .G. G.. #L20587_HIV-1_O_ANT70 TA. TA. ... G.. A.. ACT ... ... ... ... ... ... ... A.. ACA A.. G.A ... G.. G.. A.. ..A A.. ... TG. G.. #M62320_HIV-1_M/A_U455 TA. TA. G.. ... T.. .CT ... ... A.. ... G.. ... C.. ... C.. A.. A.. ... ... GG. .G. TT. CC. .AC TG. G.. #L40990_SIVagm TA. TA. .A. CT. A.. AG. ... ... A.. ... ... CA. ... AC. ATA T.. A.A ... G.G .G. AGA G.A A.. ... GC. G.. #U42720_SIVcpzANT TA. TA. .A. CT. TC. ATT G.. G.. ... ... C.. ... G.. A.. C.. A.. A.. .AG T.G GG. A.A .CA CC. .C. ... G.. #X52154_SIVcpzGAB1 AA. TA. G.. ... A.. A.C T.. G.. A.. ... ... ... A.. A.. C.A A.. G.A ... ... ... C.. T.G C.. ... ... ... #AF103818_SIVcpzUS TAC TAA TCA AAA GGC AGA GCT CAC AGC GGT ATA CTT AGC ATT AAA AGA TTC AGA GAA TAC AGT TAA TGT AGT CAC TGG #AF115393_SIVcpzCAM3 C.. ... ... G.. A.. ... A.. G.. ... T.. T.. TC. ... ... .C. ... .G. ... AC. ..T ... ... .A. ... ... ..A #AF382828_SIVcpzGAB2 C.. ... C.. ... ... ... AT. AGA G.. AC. CAG AA. ... CC. .C. G.. C.. ..G .C. AGA ... A.. ... G.. A.. A.A #AF447763_SIVcpzTAN1 C.. ... ... .C. A.. ... AT. ATG G.. A.. .G. TC. ... C.. ... ... C.. ..G AGC ACA G.. A.. .A. ... ... A.A #AJ006022_HIV-1_N_YBF30 C.. C.. ... ... ... T.. .T. ACA ... TA. CCT TA. G.. C.. .C. ... G.. ..G ACG GGA T.. A.. CA. ... ... ..A #AJ271369_SIVcpzCAM5 ... ... ... G.. A.. ... A.. A.. ... T.. T.. TC. G.. ... GC. G.. .G. ... AC. ..T ... C.. .A. ... T.. ..A #AJ271370_HIV-1_N_YBF106 C.. C.. ... ... ... T.. .T. ACA ... TA. CCT T.. G.. C.. .C. ... G.. ..G AC. GGA ..C A.. CA. ... ... ..A #AM296488_SIVgorBQ664 A.. C.. ... ... A.. ... A.. AGA G.. T.. C.T A.. G.. C.. G.. G.. A.. ..G A.. A.A T.C ... .A. ... A.. A.A #AM296489_SIVgorCP684 A.. ... ... ... A.. ... A.. AGA G.. A.. CCT ... G.. C.. GG. ... A.. ..G ... A.A T.. ... .A. ... G.. A.A #AM296491_SIVgorCP1436 A.. C.. ... ... A.. G.. AT. AGA G.. A.. CCT ... ... GC. G.. G.. A.. ..G A.. A.A T.. ... .A. ... A.. A.A #AY169968_SIVcpzCAM13 C.. ... ... .C. ... ... .T. AGG G.. CT. G.. TC. ... T.. .C. ... C.. T.. AC. ACA ... G.. CA. ... A.. ..A #DQ370395_SIVcpzMT115 C.. ... ... G.G ... ... AT. ACA ... A.. T.T AA. G.. ... GC. G.. C.. ..G AC. GGA ... C.. ... G.. ... A.A #DQ370403_SIVcpzDP206 A.. G.. ... .C. A.. ... .T. ACA ... A.. GC. AA. G.. ... GC. ... ... ... ATC ACA ... ... .A. ... A.. A.A #DQ370405_SIVcpzDP25 A.. A.. ... .C. A.. ... .T. ACA ... A.. .C. AA. G.. ... GC. ... ... ... ATC ACA ... ... .A. ... A.. A.A #DQ370408_SIVcpzEK502 ... C.. C.. .C. A.. T.. AT. ACA G.. T.. CCT .A. G.. C.. .C. ... .G. ..G AC. AGA ... A.. .A. ... ... ..A #DQ370411_SIVcpzEK519 ... C.. C.. ... A.. T.. AT. ACA G.. T.. CCT .A. G.. C.. .C. ... .G. ..G AC. AGA ... A.. .A. ... ... ..A #DQ370413_SIVcpzMB23 C.. C.. ... ... ... T.. .T. ACA G.. TA. TC. GC. ... ... .C. ... C.. ... ATT AGA ... ... .A. ... T.. ..A #DQ370415_SIVcpzMB192 C.. C.. ... ... ... C.. .T. ACA G.. TA. TC. GC. ... ... .C. ... C.. ... ATT AGA ... ... .A. ... T.. ..A #DQ370416_SIVcpzMB317 C.. C.. ... ... ... ... AT. ACA G.. TA. TC. A.. G.. T.. GC. G.. C.. ... ATC AGA G.. A.. .A. ... T.. ..A #DQ370417_SIVcpzMB245 C.. ... ... G.. A.. ... AT. ACA ... TA. .C. A.. G.. T.. .C. ... ... ... AGT AGA ... A.. CA. ... ... ..A #DQ370418_SIVcpzLB186 A.. C.. ... ... ... T.. AT. ACA G.. TA. .C. A.. G.. ... GC. G.. ... ... ATC AGA ... A.. .A. ... ... ..A #DQ373063_SIVcpzMB66 C.. ... ... G.. A.. ... AT. ACA ... TA. .C. A.. G.. T.. .C. ... ... ... AGT AGA ... A.. .A. ... ... ..A #DQ373064_SIVcpzLB7 A.. C.. ... G.. ... T.. .T. ACA ... CA. TC. A.. ... C.. .C. ... C.. ..G ACC .GA G.. A.. .A. ... T.. ..A #DQ373065_SIVcpzEK505 ... C.. C.. .C. A.. T.. AT. ACA G.. T.. CCT .A. G.. C.. .C. ... .G. ..G AC. AGA ... A.. .A. ... ... ..A #DQ373066_SIVcpzMT145 C.. ... ... ... A.. ... AT. ACA ... A.. T.T AA. G.. C.. .C. G.. C.. ..G AC. GGA ... C.. ... G.. ... ..A #DQ374657_SIVcpzTAN2.69 ... A.. C.. .C. A.. ... A.. ATG G.. AA. .G. T.. G.. T.. ..G ... ... ..G AGC ACA G.. G.. CA. ... T.. A.A #DQ374658_SIVcpzTAN3.1 ... A.. ... .C. A.. ... A.. ATG G.. AA. .G. .C. G.. ... ..G ... ... ..G AGC ACA G.. G.. CA. ... ... A.A #K03455_HIV-1_M/B_HXB2 A.. A.. ... G.. .A. T.. .T. ACA ... AA. T.. TC. ... T.. GC. G.. ... G.G ATT AGA ... A.. CA. ... A.. A.A #L20571_HIV-1_O_MVP5180 A.. C.. ... ... ... T.. AT. A.T G.. T.. ..T AA. ... C.. GC. G.. ... CA. .G. GCA ... A.. CA. ... A.. A.A #L20587_HIV-1_O_ANT70 C.. C.. ... ... A.. T.. AT. A.T G.. .A. ..T AC. ... C.. .C. G.. ... CA. AG. A.. ... A.. .A. ... A.. A.A #M62320_HIV-1_M/A_U455 A.. A.. ... ... .A. T.. AT. ACA T.. AA. CC. TC. ... C.. GC. G.. ... ..G ATC AGA ... A.. .A. ... A.. A.A #L40990_SIVagm ... A.. C.. GC. A.. ... AT. GGT ... CA. .A. AA. G.. C.. GG. G.. .AG T.G AG. A.A ... A.. CA. ... A.. A.A #U42720_SIVcpzANT C.. C.. ... .C. A.. ... AT. ACA G.. .A. TCT TA. G.. TC. .G. G.. ... .AC AGG CC. ... C.. .A. ... ... A.A #X52154_SIVcpzGAB1 C.. ... ... GC. A.. ... AT. A.A G.. TT. GCT TC. G.. C.. GC. G.. ... ... TC. ACA G.. ... CA. ... G.. ..A #AF103818_SIVcpzUS CTC CCA ATA TGT CTT AGG AAT CAT CCA CTC TCA GCC AGA CCA AAG TGA ATC AGA ATT GGT CAA TCA GAT AAT AGA AGA #AF115393_SIVcpzCAM3 T.. ... ... ... G.. ... G.. A.. T.. ... C.. ... ... T.. ... ... G.. ... ... ... T.. ..T A.. ... ... ... #AF382828_SIVcpzGAB2 ... ... ... ... G.. G.. ... ... AA. T.. C.. A.. ... ... ... ... G.. ... .A. A.. G.. ... A.. ... ... ... #AF447763_SIVcpzTAN1 T.. ... ... ... TA. G.. .G. TT. A.. GGG ATT A.. ... T.. ... ... C.. CCC CA. A.. AG. G.. A.. T.. TC. .A. #AJ006022_HIV-1_N_YBF30 ... T.. G.. ..C TA. G.. ... A.. T.. T.. A.. ... ... TA. ... ... ... ... ... ... G.G C.. A.. ... ... ... #AJ271369_SIVcpzCAM5 T.. T.. ... ... GC. ... ... A.. T.. ... ... ... ... T.. ... ... ... ... ... A.. AGG GTC T.. ... ... ... #AJ271370_HIV-1_N_YBF106 ... T.. G.. ..C TA. G.. ... A.. T.. ... A.. A.. ... TA. ... ... ... ... C.. ... GGG C.. A.. ... ... ... #AM296488_SIVgorBQ664 T.. A.. G.. ... G.. ... ... T.. .TC AG. ATC C.. T.. T.. ... ... C.. CCC CC. A.. AC. AGC A.. ... ... G.. #AM296489_SIVgorCP684 ... ... G.. ... GC. G.. G.. T.. TGC AG. AAG T.. T.. T.. ... ... C.. CCC C.. A.. AC. GA. A.. ... ... G.. #AM296491_SIVgorCP1436 T.. T.. G.. ... AC. ... T.. T.. .TC AG. AAG T.. T.. T.. G.. ... C.. CCC CC. A.. GC. GA. A.. ... ..G ... #AY169968_SIVcpzCAM13 ... T.. ... ... G.. ... G.. T.. T.. G.. A.. A.. ... T.. C.. ... ... ... ... A.. A.. ... A.. ... ... ... #DQ370395_SIVcpzMT115 T.. ... G.. ... GC. G.. ... .T. A.. A.. A.. C.. ... ... C.. ... ... ... .A. A.. A.. C.. ... ... ... ... #DQ370403_SIVcpzDP206 T.. ... G.. ... ... G.. ... T.. T.. G.. A.. ... ... ... T.. ... .G. ..C .C. A.. A.C C.. A.. T.. ... G.. #DQ370405_SIVcpzDP25 T.. ... G.. ... ... G.. ... T.. T.. G.. A.. ... ... ... T.. ... GG. ..C .C. A.. A.C C.. A.. T.. ... ... #DQ370408_SIVcpzEK502 ... T.. G.. ... .C. ... ... A.. T.. ... A.. A.. ... TA. ... ... ... ... ... A.. A.. ... ... ... ... ... #DQ370411_SIVcpzEK519 ... T.. G.. ... .C. ... ... A.. T.. ... A.. A.. ... TA. ... ... ... ... ... A.. A.. ... ... ... ... ... #DQ370413_SIVcpzMB23 T.. A.. ... ..C TC. ... ... ... ... AG. C.. A.. ... TA. G.. ... ... ... ... A.. A.. ... ... C.. ... .A. #DQ370415_SIVcpzMB192 T.. A.. ... ..C .C. ... ... ... ... AG. C.. A.. ... TA. G.. ... ... ... ... A.. G.. ... ... C.. ... .A. #DQ370416_SIVcpzMB317 T.. A.. ... ..C A.. ... ... T.. T.. AG. ... ... T.. .A. G.. ... ... ... .A. A.. A.. ... A.. ... ... GA. #DQ370417_SIVcpzMB245 T.. A.. ... ..C AC. G.. ... A.. T.. AGG C.. A.. T.. TAC ... ... ... ... .A. A.. A.. ... ... ... T.. G.. #DQ370418_SIVcpzLB186 T.. A.. ... ..C TC. ... ... T.. T.. GG. C.. ... ... TA. ... ... C.. ... .A. A.. A.. C.. ... ... ... ... #DQ373063_SIVcpzMB66 T.. A.. ... ..C AC. G.. ... A.. T.. AGG ... A.. T.. TAC ... ... ... ... .A. A.. A.. ... ... ... ... G.. #DQ373064_SIVcpzLB7 T.. A.. ... ..C A.. ... ... .C. T.. AG. C.. A.. G.. T.. G.. ... T.. ... ... ... G.. ... A.. C.. ... .A. #DQ373065_SIVcpzEK505 ... T.. G.. ... .C. ... ... A.. T.. ... A.. A.. ... TA. ... ... ... ... ... A.. A.. ... ... ... ... ... #DQ373066_SIVcpzMT145 ... ... ... ... GC. G.. ... .T. A.. A.. A.. C.. ... ... C.. ... ... ... TA. A.. A.. ... ... ... ... ... #DQ374657_SIVcpzTAN2.69 T.. T.. ... ... TA. ... .G. .C. A.. AGG ATT ... T.. T.. G.. ... C.. CCC CA. A.. AG. G.. A.. T.. TC. .C. #DQ374658_SIVcpzTAN3.1 T.. T.. ... ... .A. G.. .G. .T. A.. AGG A.T ... T.. ... ... ... C.. CCC CA. A.. AG. G.. A.. T.. TC. .C. #K03455_HIV-1_M/B_HXB2 ... A.. ... ..C A.. ... ... ... T.. AG. A.. A.. ... T.. ... ... ... ... G.. A.. ... ... A.. ... ... GC. #L20571_HIV-1_O_MVP5180 ... A.. ... ... A.. G.. C.. ... ATC ... C.. A.. .AC A.. G.. ... C.. CCC TA. A.. TC. G.. ... ... ... G.. #L20587_HIV-1_O_ANT70 T.. A.. ... ..C A.. G.. CG. ... .TC ... C.. A.. TAC A.. G.. ... ... CCC TA. A.. TC. G.. A.. ... ... G.. #M62320_HIV-1_M/A_U455 ... A.. G.. ..C A.. ... G.. ... T.. GG. A.. A.. ... .AG G.. ... ... ... .A. A.. ... ... A.. ... ... GA. #L40990_SIVagm T.. A.. ... ..C .A. G.. ... AT. GAC AG. A.. ... CAC A.. ... ... C.. CCC ... A.. AG. A.. ... C.. ..C .TT #U42720_SIVcpzANT T.. A.. ... ..C A.. G.. .G. .T. G.. AGG .AC C.. ... T.. ... ... ... .CC CC. A.. GG. AG. A.. ... CC. GA. #X52154_SIVcpzGAB1 ... A.. ... ... G.. ... G.. T.. T.. G.. A.. ... ... T.. C.. ... ... ... ... A.. ... ... ... ... ... ... #AF103818_SIVcpzUS ATT AAT AAA GAA AGA AAA AAG TTA TAT CTC ATG GGT ACC AGC ACA TAA AGG AAT TGG AGG AAA TGA ACA AAT AGA TAA #AF115393_SIVcpzCAM3 G.. ... ... ... G.. ... ... ... CC. T.. ... ... G.. ... ... ... ... .G. ... ... ... ... ... .G. ... ... #AF382828_SIVcpzGAB2 GC. ... ... ... ... G.. GGT C.. .T. GA. ... ... ... ... ... C.. ... ... A.. ... ... ... ... GG. ... ... #AF447763_SIVcpzTAN1 G.. ..C .C. A.. GAC .GC ..T ... .C. AG. ... ... ... ... C.. ... ... T.. A.. G.. T.. ... .G. .G. ... C.. #AJ006022_HIV-1_N_YBF30 GC. C.. ... A.. G.. ..G .GT ... .C. ... T.. ... ... T.. ... ... ... T.. ... ... ... ... G.. GG. ... C.. #AJ271369_SIVcpzCAM5 G.. ... ... A.. G.. ... ... ... CC. ... ... ... G.. ... ... C.. ... ... ... ... ... ... ... .G. ... ... #AJ271370_HIV-1_N_YBF106 .C. C.. ... A.. G.. ..G .GT C.. .C. ... T.. ... ... T.. ... ... ... T.. ... ... ... ... G.. GG. ... ... #AM296488_SIVgorBQ664 .A. G.C ... A.. G.. ... GGT G.. CT. AG. C.. ... ... ... ... ... ... C.. A.. G.. T.. ... TG. ... ... ... #AM296489_SIVgorCP684 .A. G.C ..C A.. ... ... .GT C.. .T. AG. C.. ... ... ... T.. C.. ... T.. A.. G.. ... ... GG. ... ... C.. #AM296491_SIVgorCP1436 .A. G.C .GC T.. G.. C.. ..T ... .T. A.. T.. ... ... ... ... ... ... C.. A.. ... ... ... .G. ... ... C.. #AY169968_SIVcpzCAM13 ... ... T.. A.. G.. C.. GGT ... CC. T.. C.. ... ... T.. ... ... G.. C.. A.. ... ... ... ... .G. ... ... #DQ370395_SIVcpzMT115 G.. ... ... A.. G.. ... G.T ... .C. A.. ... ... ... ... ... ... ... T.. A.. ... ... ... G.. GG. ... C.. #DQ370403_SIVcpzDP206 G.. .G. ... A.. G.. ... ..T ... ... ... C.. ... G.. ... ... ... G.. ... ... T.. ... ... ... .G. ... ... #DQ370405_SIVcpzDP25 G.. .G. ... A.. G.. ... ..T ... ... ... C.. ... G.. ... ... ... G.. ... ... T.. ... ... ... .G. ... ... #DQ370408_SIVcpzEK502 .C. T.. ... A.. G.. ..G ..T A.. .C. T.. C.. ... ... T.. ... ... ... T.. ... ... ... ... ... G.. ... C.. #DQ370411_SIVcpzEK519 .C. T.. ... A.. G.. ..G ..T A.. .C. T.. C.. ... ... T.. ... ... ... T.. ... ... ... ... ... G.. ... C.. #DQ370413_SIVcpzMB23 T.. ... ... ... ... ..G .GT ... CTC A.. ... ... ... T.. ... ... ... ... ... ... ... ... ... .G. T.. ... #DQ370415_SIVcpzMB192 T.. ... ... ... ... ..G .GT ... CT. A.. ... ... ... T.. ... ... ... G.. ... G.. ... ... ... .G. T.. C.. #DQ370416_SIVcpzMB317 C.. ... ... ... ... ..G ..T C.. .T. G.. ... ... ... T.. ... C.. ... ... A.. ... ... ... ... .G. ... C.. #DQ370417_SIVcpzMB245 .C. G.. C.. A.. G.. G.. .GT G.. .C. ... ... ... ... T.. ... C.. ... ... ... ... ... ... ... ... ... ... #DQ370418_SIVcpzLB186 ... ... ... A.. G.. C.. ..T ... CT. G.. ... ... ... T.. ... ... ... ... ... ... ... ... G.. GG. ... ... #DQ373063_SIVcpzMB66 .C. G.. C.. A.. ... G.. .GT G.. .C. ... ... ... ... T.. ... C.. ... ... ... ... ... ... ... ... ... ... #DQ373064_SIVcpzLB7 TC. ... ... A.. G.. ... .GT ... CT. AA. ... ... ... T.. ... ... G.. ... A.. ... ... ... ... .G. ... C.. #DQ373065_SIVcpzEK505 .C. T.. ... A.. G.. ..G ..T A.. .C. T.. C.. ... ... T.. ... ... ... T.. ... ... ... ... ... G.. ... C.. #DQ373066_SIVcpzMT145 G.. ... ... A.. G.. ... ..T ... .C. A.. ... ... ... ... ... C.G ... T.. A.. ... ... ... ... GG. ... ... #DQ374657_SIVcpzTAN2.69 ... G.C CC. ... GAC .GC ..T A.. .C. GG. ... ... ... ... C.. ... ... C.. A.. G.. C.. ... GG. .G. ... C.. #DQ374658_SIVcpzTAN3.1 ... G.C TC. ... ..C .GC ..T A.. .C. GG. ... ... ... ... C.. ... ... C.. A.. G.. C.. ... .G. .G. ... C.. #K03455_HIV-1_M/B_HXB2 G.. ... ... A.. G.. ... GGT C.. .C. GG. ... ... ... ... ... C.. ... ... ... ... ... ... ... .G. ... ... #L20571_HIV-1_O_MVP5180 .C. ..C ... A.. G.. .CG .GT G.. .C. TA. ... ... T.. T.. T.. C.. ... C.. A.. ... ... ... .A. ... ... ... #L20587_HIV-1_O_ANT70 .C. ..C ... A.. G.. .C. GGT G.. .C. TA. ... ... T.. T.. C.. ... ... C.. A.. ... ... ... .A. ... ... ... #M62320_HIV-1_M/A_U455 GC. ... .G. A.. G.. ... .GT C.. CC. G.. ... ... ... ... G.. C.. ... G.. ... ... ... ... G.. .G. ... ... #L40990_SIVagm .A. GG. ... ... .AG GGC ..T A.. CC. ACA ... ... G.. T.. ... C.. ... T.. A.. G.. ... ... .G. ... ... C.. #U42720_SIVcpzANT ... ... ... A.G ... .C. G.T ... CC. ... C.. ... ... ... ... ... ... C.. A.. ... ... ... ... GG. ... C.. #X52154_SIVcpzGAB1 G.. ... T.. A.. ... ... ..T C.. CC. ... C.. ... ... ... ... C.. ... T.. A.. ... ... ... G.. .G. G.. ... #AF103818_SIVcpzUS ACT AGT CAG TTC -AG GGA TCA GAA AAG TTC TTT TCC TAG ATG GCA TAG ATA AAG CAC AG- GAA GAC CAT GA- CAA ATA #AF115393_SIVcpzCAM3 .T. ... T.. ... TG. .A. ... ... ... ... .C. .TT ... ... .T. ... ..T ... ... .AG ... ..A ... ..G G.. ... #AF382828_SIVcpzGAB2 GT. ... ... .AG -T. .C. ... ... .G. .G. .A. .TT ... ... .T. ... ... .G. ... .A- ... ... ... ..- G.G ... #AF447763_SIVcpzTAN1 .T. G.. T.. .AA -.A AT. .T. ... ..A .AT .A. ... .G. ... .A. .TA ..G ... ... ..- ... ... ... ..- T.. ... #AJ006022_HIV-1_N_YBF30 .T. ... T.. C.. -.. .A. .T. ... ..A .AT .A. ... ... ... .T. ... .A. ... .C. .A- ... ..T ... ..- ..G ... #AJ271369_SIVcpzCAM5 ... ... T.. ... -.. .C. .T. ... ... .C. .C. ..T ... ... .T. .C. ... .G. ... ..- ... ..A ... ..- A.. G.. #AJ271370_HIV-1_N_YBF106 WT. ... T.. C.. -.. .A. .T. ... R.. .AT .A. ... ... ... .T. ... .A. ... .C. .A- ... ..A ... ..- A.G ... #AM296488_SIVgorBQ664 .T. G.. ... CAA -.A AT. ... ... G.. .GT .A. ... .G. .A. .T. ... ..C ... .C. ..- ... ..T ... ..- A.. G.. #AM296489_SIVgorCP684 .T. ... ... .AA -.. AT. ... ... G.. .CT .A. ... ... .A. ... ... ..C ... ... ..- ... ..T ... ..- A.. ... #AM296491_SIVgorCP1436 ... ... ... .AA -G. AC. ... ... G.. ..T .A. ... ... .A. .T. ... ..C .G. ... .A- ... ..T ... ..- A.. ... #AY169968_SIVcpzCAM13 GT. ... ... ... -T. .A. ... .G. ... .A. .A. ... .G. ... .A. ... ... ... ... ..- ... ..A ... ..- A.G ... #DQ370395_SIVcpzMT115 .T. G.. T.. ... -.. ... ... ... ... ... ... ..T ... ... .A. ... .A. .G. .T. .A- ... ..A ... ..- A.G G.. #DQ370403_SIVcpzDP206 .T. G.. T.. .A. -.. ..G .A. ... ... .A. .C. ... .G. ... .G. ... ... .G. ... ..- ... ..G ... ..- A.G ... #DQ370405_SIVcpzDP25 .T. G.. T.. CA. -.. ..G .A. ... ... .A. .C. ... .G. ... .G. ... ... .G. ... ..- ... ..G ... ..- A.G ... #DQ370408_SIVcpzEK502 .T. ... ... CA. -.. .A. ... .G. ... .CT .A. ... ... ... .T. ... ... .G. .T. .A- ... ..A ... ..- A.G ... #DQ370411_SIVcpzEK519 .T. ... ... CA. -.. .A. ... .G. ... .CT .A. ... ... ... .T. ... ... .G. .T. .A- ..G ..A ... ..- A.G ... #DQ370413_SIVcpzMB23 .T. ... T.. ... -.. .A. .T. .G. ... ... .C. ... .G. ... .A. ... ... ... .C. .A- ... ..A ... ..- G.G ... #DQ370415_SIVcpzMB192 .T. ... ... ... -.. .A. .T. .G. ... ... .C. ... .G. .C. .A. ... ... ... .C. .A- ... ..A ... ..- G.G ... #DQ370416_SIVcpzMB317 .T. ... T.. ... -.. .AG ... .G. ... .C. ... ... .G. ... .A. ... ... ... .C. ..- ... ..G ... ..- A.. ... #DQ370417_SIVcpzMB245 GT. ... ... CA. -.. .A. .T. ... ... .C. .C. ... .G. ... .G. ... ... .G. .C. ..- ... ..G ... ..- A.. ... #DQ370418_SIVcpzLB186 ... G.. A.. ... -.. .A. .T. ... ... .C. .C. ... .G. ... .G. ... ... ... .C. ..- ... ..G ... ..- A.G ... #DQ373063_SIVcpzMB66 .T. ... ... C.. -.. .A. .T. .G. ... .C. .C. ... .G. ... .G. ... ... .G. .C. ..- ... ..G ... ..- A.. ... #DQ373064_SIVcpzLB7 .T. ... ... ... -.. .A. .T. .G. ... .C. ... .T. .G. ... .A. ... ..C G.. .C. ..- ... ..G ... ..- A.. ... #DQ373065_SIVcpzEK505 .T. ... ... CA. -.. .A. ... .G. ... .CT .A. ... ... ... .T. ... ... .G. .T. .A- ... ..A ... ..- A.G ... #DQ373066_SIVcpzMT145 ... ... T.. ... -.. ... ... ... ... ... ... ..T ... ... .A. ... .A. ... .T. .A- ... ..A ... ..- A.G ... #DQ374657_SIVcpzTAN2.69 .T. ... T.. .AA -.A AT. .T. ... ..A .AT .A. ... ... ... .A. .TA ..G .G. .C. ..- ..G ... ... ..- ... ... #DQ374658_SIVcpzTAN3.1 ... ... T.. .AA -.A AT. .T. ... G.. .A. .A. ... ... ... .A. .TA ..G .G. .C. ..- ... ... ... ..- ... ... #K03455_HIV-1_M/B_HXB2 .T. ... ... .G. -T. .A. ... .G. ... .A. .A. .TT ... ... .A. ... ... .G. .C. .A- ..T ..A ... ..- G.. ... #L20571_HIV-1_O_MVP5180 .T. ... A.. CAA -.. AC. .T. ... G.. .C. .G. ... .G. .A. .A. ... ..C .G. ... .A- ... ..T ... ..- A.. ... #L20587_HIV-1_O_ANT70 .T. ... A.. CAA -G. AT. .T. ... G.. .C. .G. ... ... .A. .A. ... .CC .G. ... .A- ... ..T ... ..- A.. ... #M62320_HIV-1_M/A_U455 .T. ... ... ... -T. .A. ... .G. .G. .G. .A. .TT ... ... .G. ... ... .G. .T. .A- ..G ... ... ..- A.. ... #L40990_SIVagm .T. ... A.. .CA -.. .A. .A. ... G.. ... .A. .TA ... GAA .A. ... .AG ... .T. .A- ... ..A ... ..- ..G ... #U42720_SIVcpzANT .T. ... ... .CA -.. ... ... ..C ... .C. .C. .T. .G. .A. ... ... ... ... .T. .A- ..G ... ... ..- T.. ... #X52154_SIVcpzGAB1 .T. ... ... .G. -.. .A. ... .G. ... .G. .A. ... ... ... .A. ... .C. GG. .C. .A- ... ..A ... ..- A.G G.. #AF103818_SIVcpzUS TCA TAG TAA TTG GAC AGC TAT GGC CAG TGA TTT TAA CCT GCC ACC AGT GGT CGC TAA GGA GAT AGT GGC CAG CTG TGA #AF115393_SIVcpzCAM3 ... ..A C.. ... ..G ... ... ... A.. ... ... C.. TA. A.. ..A TA. A.. G.. C.. A.. AC. ... A.. .C. T.. ... #AF382828_SIVcpzGAB2 ... ... C.. C.. ..G ... C.. ... TGA ... A.. CC. A.. C.. ... G.. A.. A.. C.. A.. A.. ... A.. ..C A.. ... #AF447763_SIVcpzTAN1 ... C.. ... ... ..A ... .T. A.. TGA ... A.A ... T.. ... C.. ... T.. G.. ... A.. A.. TA. T.. TCA G.. .CC #AJ006022_HIV-1_N_YBF30 ... C.. C.. ... ..A ... A.. ... ... ... ... ... .T. A.. C.. CA. A.. G.. A.. A.. A.. ... A.. ... ... ... #AJ271369_SIVcpzCAM5 ... ..A C.. C.. ..A ... ... ... ... ... ... C.. T.. A.. ... T.. A.. G.. C.. A.. A.. ... A.. ... T.. ... #AJ271370_HIV-1_N_YBF106 ... C.. ... ... ..A ... A.. ... ... ... ... ... .T. A.. C.. CA. A.. A.. A.. A.. A.. ... A.. ... ... ... #AM296488_SIVgorBQ664 ... C.. ... C.. ..G ... .C. A.. T.. ... A.A .GG G.. A.. ... ... A.. A.. ... A.. A.. CA. AAA ..A T.. CCC #AM296489_SIVgorCP684 ... C.. ... ... ..G ... AC. A.. ... ... C.. .GG T.. ... ... ... ... A.. C.. A.. A.. CA. CAA T.. ... CCC #AM296491_SIVgorCP1436 ... ... C.. C.. ..G ... AC. A.. ... ... C.. .GG A.. A.. ... ... ... A.. ... ... A.. TA. AAA ... T.. CCC #AY169968_SIVcpzCAM13 ... ... C.. ... ..A ... .T. ... GG. ... A.. ... .T. A.. ... CA. A.. A.. A.. A.. ... ... ... T.A ... ... #DQ370395_SIVcpzMT115 C.. .TC ... ... ..G G.. A.. ... TCA G.. A.. ... .T. A.. ... .A. A.. G.. ... A.. A.. ... A.. TCA A.. ... #DQ370403_SIVcpzDP206 ... ... C.. ... ..G ... C.. ... A.. ... ... .C. ... ... ... .A. A.. A.. C.. A.. A.. ... A.. ..C T.. ... #DQ370405_SIVcpzDP25 ... ... C.. ... ..G ... C.. ... A.. ... ... .C. ... ... ... .A. A.. A.. C.. ... A.. ... A.. ..C T.. ... #DQ370408_SIVcpzEK502 ... ... ... ... ..G G.. A.. ... ... ... G.. ... T.. A.. C.. CA. A.. A.. ... A.. A.. ... A.. ... ... ... #DQ370411_SIVcpzEK519 ... ... ... ... ..A G.. A.. ... ... ... ... ... T.. A.. C.. CA. A.. A.. ... A.. A.. ... A.. ... ... ... #DQ370413_SIVcpzMB23 C.. ..A ... ... ..G ... ... ... ... ... ... C.. TA. C.. ... .A. A.. A.. C.. A.. A.. T.. A.. T.. T.. ... #DQ370415_SIVcpzMB192 C.. C.A ... ... ..G ... ... ... ... ... ... ... TA. C.. ... .A. A.. A.. C.. A.. A.. T.. A.. T.. T.. ... #DQ370416_SIVcpzMB317 C.. C.A C.. ... ..A ... ... ... ... ... C.. C.. TA. C.. G.. TA. A.. A.. A.. A.. A.. ... A.. ... T.. ... #DQ370417_SIVcpzMB245 C.. ..A ... ... ..G G.. C.. ... ... ... ... ... T.. ... ... CA. A.. A.. A.. A.. ... ... ... A.A T.. ... #DQ370418_SIVcpzLB186 ... ..A C.. ... ..G G.. C.. ... ... ... ... ... TA. A.. ... CA. A.. A.. A.. A.. ... T.. A.. A.. ... C.. #DQ373063_SIVcpzMB66 C.. ..A ... ... ..G G.. C.. ... ... ... ... ... T.. ... ... CA. A.. A.. A.. A.. ... ... A.. A.A T.. ... #DQ373064_SIVcpzLB7 C.. ..A ... ... ..G ... ... ... ... ... ... C.. T.. ... ... CA. T.. A.. A.. A.. ... ... A.. T.. T.. ... #DQ373065_SIVcpzEK505 ... ... ... ... ..A G.. A.. ... ... ... ... ... T.. A.. C.. CA. A.. A.. ... A.. A.. ... A.. ... T.. ... #DQ373066_SIVcpzMT145 C.. CTC ... ... ..A G.. A.. ... TCA G.. C.. ... .T. A.. ... .A. A.. G.. ... A.. A.. ... A.. .CA A.. ... #DQ374657_SIVcpzTAN2.69 ... ... C.. ... ..A G.. CT. A.. TGA ... G.A .C. T.. C.. C.. .A. T.. A.. C.. A.. A.. TA. T.. TCA A.. CCC #DQ374658_SIVcpzTAN3.1 ... C.. C.. C.. ..G G.. CT. A.. TGA ... G.A ... T.. C.. T.. .A. T.. A.. C.. A.. A.. TA. T.. .CA A.. CCC #K03455_HIV-1_M/B_HXB2 ... C.. ... ... ..G ... A.. ... T.. ... ... ... ... ... ... T.. A.. A.. A.. A.. A.. ... A.. ... ... ... #L20571_HIV-1_O_MVP5180 ... ... ... ... ..G ... AT. A.. T.. ... C.. .GG AT. A.. ... .A. A.. A.. C.. ... A.. CA. T.. T.. T.. .CC #L20587_HIV-1_O_ANT70 ... ... ... ... ..A ... AC. A.. T.. ... A.. .GG A.. A.. ... ... ... G.. C.. ... A.. CA. T.. T.. ... .CC #M62320_HIV-1_M/A_U455 ... CT. C.. C.. ..G ... A.. ... T.. ... ... ... T.. ... ... T.. ... A.. G.. ... A.. ... A.. ... ... .A. #L40990_SIVagm ... ... ... ... ..A .AA .T. A.. GGA CAC A.. .GG AT. A.. ..A GA. A.. T.. C.. A.. ... ... A.. A.T G.. .-C #U42720_SIVcpzANT ... ... C.. ... ..G .T. AT. A.. AGA ... A.A C.. T.. T.. C.. TA. T.. G.. ... A.. A.. TA. A.. ACA G.. ... #X52154_SIVcpzGAB1 ... ... ... ... ..A ... ... ... T.. ... ... ... TT. A.. ... CA. A.. A.. A.. A.. A.. ... ... .CA T.. ... #AF103818_SIVcpzUS TAA ATG TC- AGC CAA AAG GAG AGG CCA TAC ATG GGC AGG TAG ATT GCA GTC CAG GTA TCT GGC AGC TAG ATT GTA CAC #AF115393_SIVcpzCAM3 ... ... C.- .A. T.. ... ... ... ... .G. ... ... .A. ... .C. ... .C. ... .C. .A. ... .AT ... .C. .C. ... #AF382828_SIVcpzGAB2 ... ... ..- ... TT. ... ... .A. .A. ... ... .A. .A. .G. ... ... ... ... .G. ... ... ... .G. .C. .C. .C. #AF447763_SIVcpzTAN1 A.. ... C.- .TA T.. ... ... ... .T. ... ... .A. ... .G. .C. A.. ... ... AA. ... ... .AA ... .C. ... .C. #AJ006022_HIV-1_N_YBF30 C.. ... C.- ... T.. ... .G. .A. ... .G. ... .A. ... .CA ... .T. ... ... .AG .G. ... .AT ... ... ... ... #AJ271369_SIVcpzCAM5 C.. G.. C.- ..T T.. ... .G. .A. ... .G. ... .A. .A. ... .C. .T. ... ... .C. .T. ... .AT ... .C. ... ... #AJ271370_HIV-1_N_YBF106 C.. ... C.- ... T.. ... .G. .A. ... .G. ... ... ..A .CA ... .T. ... ... .AG .G. ... ..T ... ... ... ... #AM296488_SIVgorBQ664 ... ... ..- .TG T.. ... .G. .A. ... .G. ... .A. .A. .T. ... ... .C. ... .G. .T. ... .AT ... .C. ... .C. #AM296489_SIVgorCP684 ... G.. ..- .TG T.. ... .G. .A. .T. GG. ... .A. .A. ... ... ... .C. ... ... ... ... ..T .G. ... .C. .T. #AM296491_SIVgorCP1436 C.. ... ..- .TG TG. ... ... .A. .T. GG. ... .A. ... ... ... ... ... ... .C. ... ... .A. .G. .C. .C. .C. #AY169968_SIVcpzCAM13 ... ... ..- ..G T.. ... ... ... .TC .G. ... ... ... .T. ... .T. .C. ... .A. CA. ... ..A .G. ... .C. ... #DQ370395_SIVcpzMT115 C.. ... ..- ... T.. ... ... .A. .A. .G. ... .A. .A. .T. ... .T. .C. ... .A. .A. ... .AA .T. ... .C. .C. #DQ370403_SIVcpzDP206 ... ... ..- .AT T.. ... ... .A. .T. GG. ... .A. ... ... .C. .T. ... ... .A. .A. ... ... ... .C. .C. ... #DQ370405_SIVcpzDP25 ... ... ..- .AT TG. ... ... .A. .T. GG. ... .A. .A. ... .C. .T. ... ... .A. .A. ... ..T ... .C. .C. ... #DQ370408_SIVcpzEK502 ... G.. ..- .AT TG. ... ... .A. ... ... ... ... .AA .CA .C. .T. ... ... .GG .A. ... .AT ... ... .C. ... #DQ370411_SIVcpzEK519 .-. G.. ..- .AT TG. ... ... .A. ... ... ... ... .AA .CA .C. .T. ... ... .GG .A. ... .AT ... ... .C. ... #DQ370413_SIVcpzMB23 C.. ... ..- .A. T.. ... ... .A. .T. ... ... .T. ... ... ... ... ... ... .A. .A. ... ..T ... .C. .C. .T. #DQ370415_SIVcpzMB192 C.. ... ..- .A. T.. ... ... .A. .T. ... ... .T. ... ... ... ... ... ... .A. .A. ... ..T ... ... ... .T. #DQ370416_SIVcpzMB317 ... ... ..- .AT T.. ... ... .A. .A. .G. ... .A. ... ... .C. ... ... ... .A. .A. ... ... ... ... .C. ... #DQ370417_SIVcpzMB245 ... ... ..- .AT T.. ... ... ... ... ... ... .A. ... ... .C. .T. ... ... .A. .A. ... .AT ... .C. .C. ... #DQ370418_SIVcpzLB186 C.. G.. C.- .AT T.. ... ... .A. ... .G. ... .A. .A. ... ... ... .C. ... .A. .A. ... ... ... ... ... ... #DQ373063_SIVcpzMB66 ... G.. ..- .AT T.. ... ... ... ... ... ... .A. ... ... .C. .T. ... ... .A. .A. ... .AT ... .C. .C. ... #DQ373064_SIVcpzLB7 ... ... ..- ... T.. .G. ... ... .A. .G. ... .A. ... ... .C. .T. .C. ... .A. .A. ... ..T ... ... ... ... #DQ373065_SIVcpzEK505 ... G.. ..- .AT TG. ... ... .A. ... ... ... ... .AA .CA .C. .T. ... ... .GG .A. ... .AT ... ... .C. ... #DQ373066_SIVcpzMT145 ... ... ..- ... T.. ... ... .A. .A. .G. ... .A. .A. .T. .C. .T. .C. ... .A. .A. ... ..A .T. ... .C. .C. #DQ374657_SIVcpzTAN2.69 ... ... C.- .CA T.. ... ... .A. ... ... ... ... .A. ... .C. AT. ... ... AG. .A. ... .AA ... .C. .C. .C. #DQ374658_SIVcpzTAN3.1 ... ... ..- .CA T.. ... ... ... ... ... ... ... .A. .G. .C. AT. ... ... AA. .A. ... ..A ... .C. .C. .C. #K03455_HIV-1_M/B_HXB2 ... ... ..- ... T.. ... ... .A. ... .G. ... .A. .A. ... .C. .T. ... ... .A. .A. ... .A. ... ... ... ... #L20571_HIV-1_O_MVP5180 ... ... C.- .TA T.. ... .G. .A. .A. CG. ... .T. .A. ... .C. A.. .C. ... AG. .A. ... .AA .G. ... ... ... #L20587_HIV-1_O_ANT70 ... ... ..- .TA T.. ... .G. .A. .A. .T. ... .T. ... ... .C. ... ... ... AAG .A. ... .AA ... ... .C. ... #M62320_HIV-1_M/A_U455 ... ... ..- .A. T.. ... .G. .A. ... .G. ... .A. .A. ... .C. .T. ... ... .G. .A. ... .AT ... ... .C. ... #L40990_SIVagm C.. ... C.A .AA T.. ... .G. .AC .A. ... ... ... .A. ... .CG C.T CC. ... .GG .A. ... .AA .G. .C. .C. .G. #U42720_SIVcpzANT ... ... ..- .CG T.. .G. ... .A. ... GG. ... .A. .A. ... .C. ... ... ... .A. .A. ... .AG ... ... .C. .C. #X52154_SIVcpzGAB1 ... G.. C.- ..G T.. ... ... .A. ... .G. ... ... ... ... .C. .T. .C. ... .G. .T. ... .AG ... ... ... .C. #AF103818_SIVcpzUS ATT TAG AAG GGA AAA TCA TTA TAG TGG CAG TAC ATG TGG CCA GTG GAT ACC TAG AAG CAG AGG TCA TTC CTG CAG AAA #AF115393_SIVcpzCAM3 .CC ... ... .A. ..G .T. .CC .G. ... ... ... ... .A. ... ... .G. ... ... .G. ... ... ... ... ... ... .G. #AF382828_SIVcpzGAB2 .C. ... ... ... ... .A. .CC .G. ... ... .C. ... ... .A. ... ... ..T ... ... ... .A. .A. ... .A. .T. .G. #AF447763_SIVcpzTAN1 .CC ... ... .A. .GG ... .C. ... .A. ... .G. ... .A. .T. ... .T. T.A ... ... ... .A. ... .A. .A. A.. ... #AJ006022_HIV-1_N_YBF30 .C. ... .G. .A. ... ... .CC .T. ... .G. .C. ... ... ... ... .C. ..T ... ... ... .A. .T. ... ... ... .G. #AJ271369_SIVcpzCAM5 ..C ... ... .A. ... ... .CC ... ... ... ... ... ... ... ... ... ... ... .G. ... ... ... ... ... ... ... #AJ271370_HIV-1_N_YBF106 .C. ... ... .A. ... ... ..C .T. .A. ... .C. ... ... ... ... .C. ..T ... ... ... .A. .T. ... ... ... ... #AM296488_SIVgorBQ664 ..G C.. ... .A. ... ... .AC ... ... ... .C. ... ... ... ... .C. T.T .G. ... .T. .A. .A. .C. .A. ... ... #AM296489_SIVgorCP684 .C. ... ... ... ... ... ..C ... .A. ... .C. ... .A. .T. ... .C. T.A ... ... .T. .A. .T. ... .A. ... ... #AM296491_SIVgorCP1436 ... ... ... .A. ... .A. ..C ... .A. ... .G. ... .A. .A. ... .C. T.A ... ... .T. .A. ... .C. .A. ... ... #AY169968_SIVcpzCAM13 ... ... ... .C. ... ... .C. ... .A. ... .T. ..A .A. ... ... ... ..A ... ... ... .A. .T. .C. .A. ... ... #DQ370395_SIVcpzMT115 ... ... ... .A. ... .A. .C. ... .A. ... .C. ... ... ... ... ... ..A ... ... ... .A. ... .C. ... .T. .G. #DQ370403_SIVcpzDP206 ... ... .G. ... ... ... .A. ... .A. ... .C. ... .A. ... ... .C. .TA ... ... ... ... ... ... ... ... ... #DQ370405_SIVcpzDP25 ... ... .G. ... ... ... .A. ... .A. ... .C. ... .A. ... ... .C. .TA ... ... ... ... ... ... ... ... ... #DQ370408_SIVcpzEK502 ... .G. .G. .A. ... .T. .CC .T. .A. ... .C. ... ... ... ... .C. ..T ... ... ... .A. ... .C. ... ... ... #DQ370411_SIVcpzEK519 ... .G. .G. .A. ... .T. .CC .T. .A. ... .C. ... ... .T. ... .C. ..T ... ... ... .A. ... ... ... ... ... #DQ370413_SIVcpzMB23 .CC ... ... ... ..G .T. .CC ... ... ... ... ... .T. ... ... ... ..A ... ... ... ... .T. .A. .A. ... ... #DQ370415_SIVcpzMB192 .CC ... ... ... ..G ... .CC ... .A. ... ... ... ... ... ... ... ..A ... ... ... ... .T. .A. .A. .G. ... #DQ370416_SIVcpzMB317 ..C ... ... .A. .G. ... ... ... .A. ... ... ... .T. ... ... .C. ..A ... ... ... .A. ... .A. ... ... ... #DQ370417_SIVcpzMB245 ... .G. ... .A. .G. ... .CC ... ... ... ... ... .A. ... ... .G. .TA .G. ... ... .A. .A. .A. ... .T. ... #DQ370418_SIVcpzLB186 ..C ... ... .A. .G. ... .C. ... .A. ... .C. ... .A. ... ... ... ..A .G. .G. .G. .A. .A. .A. ... ... ... #DQ373063_SIVcpzMB66 .C. .G. ... .A. .G. ... .CC ... ... ... ... ... .A. ... ... .G. .TA .G. ... ... .A. .A. .A. ... .T. ... #DQ373064_SIVcpzLB7 .CC ... ... .A. ..G ... .CT ... .A. ... .G. ... .A. .T. ... .C. .TA .G. ... ... .A. ... .A. ... ... ... #DQ373065_SIVcpzEK505 ... .G. .G. .A. ... .T. .CC .T. .A. ... .C. ... ... ... ... .C. ..T ... ... ... .A. ... ... ... ... ... #DQ373066_SIVcpzMT145 ... ... ... .A. ... .A. ... ... ... ... .C. ... ... ... ... ... ..A ... ... ... .A. ... .C. ... .T. ... #DQ374657_SIVcpzTAN2.69 .CC ... .G. .A. ..G ... .C. ... .A. ... ... ... .A. ... ... .T. T.. ... ... ... ... ... .A. .A. A.. ... #DQ374658_SIVcpzTAN3.1 .CC ... ... .A. ..G ... .C. ... .A. ... C.. ... .A. ... ... .T. T.. ... ... ... ... ... .A. .A. A.. ... #K03455_HIV-1_M/B_HXB2 ... ... ... .A. ..G .T. .CC .G. .A. ... .T. ... .A. ... ... ... .TA ... ... ... .A. .T. ... .A. ... ... #L20571_HIV-1_O_MVP5180 ... ... ... .C. ... ... .A. ... .T. .T. .C. ... .A. .A. ... AC. TTA ... ... ... ... .G. .A. .A. ... ... #L20587_HIV-1_O_ANT70 ..A .G. ... .C. ... ... .A. ... .T. .T. .C. ... ... .A. ... .G. T.A ... ... ... .A. .G. .A. .A. ... ... #M62320_HIV-1_M/A_U455 ..C ... ... .A. ..G .A. .CC ... .A. ... .C. ... .A. ... ... .C. ..A ... ... ... .A. .T. .C. .A. ... ... #L40990_SIVagm ..G ... ... .A. ... .AG .C. ... .A. ... .T. ... ... ... .C. ... T.A ... ... ... .A. ... .A. ..A GG. ... #U42720_SIVcpzANT ... ... ... .T. ..G .A. .C. ... .A. ... .G. ... .AT .T. ... .C. T.A ... ... .T. .A. .A. .GG .A. AT. .G. #X52154_SIVcpzGAB1 .CC ... ... .C. ..G .G. .C. ... ... ... .T. .C. .A. ... ... .C. .TA ... ... ... .A. .T. .C. .A. .T. .G. #AF103818_SIVcpzUS CAG GAC AAG AGA CAG CCT ATT TTA TCT TAA AAT TAG CAG GAA GAT GGC CTG TAA AAG TGA TTC ATA CTG ATA ATG GAT #AF115393_SIVcpzCAM3 .T. ... .G. .A. ... .T. ... ... .TC ... ... ... ... ... ... ... ... ... ... .A. .C. .C. ... ... ... .GC #AF382828_SIVcpzGAB2 .T. ... .G. .A. .T. .A. ... ... ... ... ... ... ... .G. ... ... .A. ... .GA A.. .A. .C. .A. ... ... ..A #AF447763_SIVcpzTAN1 ... ..A G.. .A. .C. .T. .C. .C. ..C ... ... .G. ... ... ... ... ... ... .GA AA. .A. ... .A. ... ... ..C #AJ006022_HIV-1_N_YBF30 ... ... .G. .A. ... .A. ... ... .T. ... .G. ... .T. ... ... ... .A. ... ... .T. .A. .C. ... ... ... ... #AJ271369_SIVcpzCAM5 ... ... ... .A. ... .T. ... ... .T. ... ... ... ... ... ... ... ... ... ... .A. .A. ... ... ... ... .GC #AJ271370_HIV-1_N_YBF106 ... ... .G. .A. ... .A. ... ... .T. ... .G. ... .T. ... ... ... .A. ... ... .T. .A. .C. ... ... ... ..C #AM296488_SIVgorBQ664 ... .G. .G. .A. .T. ... .C. .CC .GC .T. ... ... ... CC. ... ... ... ... .G. ... .A. .C. .C. .C. ... ..C #AM296489_SIVgorCP684 ... .G. .G. .A. ... .T. .C. .CC .GC .C. .G. ... ... CC. .G. ... .A. ... ... .A. .A. .C. .A. ... ... .GC #AM296491_SIVgorCP1436 ... .G. .G. .A. .C. .A. ... .CC .GC .T. ... ... ... C.. .G. ... ... .G. ... .A. .A. .C. .A. ... ... .GC #AY169968_SIVcpzCAM13 ... ... ... .A. .T. .A. .C. .C. .A. ... ... ... ..A .C. ... ... .A. .G. ... .CT .A. .C. .A. ... ... .GA #DQ370395_SIVcpzMT115 ... ... .G. .A. ... .A. .C. ..G ..C .T. .G. ... ... ... ... ... .A. ... G.A CT. .A. .C. .A. .C. ... .GC #DQ370403_SIVcpzDP206 ... ... .G. .A. ... .T. ... ..C .T. ... ... ... ... ... ... ... .A. ... ..A .T. .C. .C. .A. ... ... ..A #DQ370405_SIVcpzDP25 ... ... .G. .A. ... .T. .C. ..C .T. ... ... ... ... ... ... ... .A. ... ..A .T. .C. .C. .A. ... ... ..A #DQ370408_SIVcpzEK502 ... ... .G. .A. .T. .A. ... ... ..C ... .G. ... .T. ... ... ... .A. ... ... .C. .A. ... ... .C. ... .GA #DQ370411_SIVcpzEK519 ... ... .G. .A. .T. .A. ... ... ..C ... GG. ... .T. ... ... ... .A. ... ... .C. .A. ... ... ... ... .GA #DQ370413_SIVcpzMB23 ... .G. .G. .A. ... .T. TC. .C. ... .G. ..C ... ... ... ... ... .A. ... ... .C. .A. ... ... ... ... .CA #DQ370415_SIVcpzMB192 ... ... ... .A. ... .T. TC. .C. ... ... ..C ... ... .G. ... ... .A. ... ... .C. .A. ... ... .C. ... .CA #DQ370416_SIVcpzMB317 ... ... .G. .A. ... .T. .C. .C. .A. ... ... .G. ... ... ... ... ... ... ... ... .A. ... ... ... ... .CA #DQ370417_SIVcpzMB245 ... ... .G. .A. ... .A. .C. ... ... ... ... .G. ... .C. ... ... .A. ... ... .C. .A. ... ... ... ... ..A #DQ370418_SIVcpzLB186 ... ... ... .A. ... .A. .C. ..G .G. ... ..C ... ... ... ... ... .A. ... .G. .T. .A. .C. ... .C. ... .CA #DQ373063_SIVcpzMB66 ... ... ... .A. ... .A. .C. ... ... ... ... .G. ... .C. ... ... .A. ... ... .C. .A. ... ... ... ... ..A #DQ373064_SIVcpzLB7 ... ... .G. .A. ... .T. ... ... ... ... ... ... ..T CG. ... ... .A. ... ..A .T. .A. ... ... ... ... .TA #DQ373065_SIVcpzEK505 ... ... .G. .A. .T. .A. ... ... ..C ... .G. ... .T. ... ... ... .A. ... ... .C. .A. ... ... ... ... .GA #DQ373066_SIVcpzMT145 ... ... .G. .A. ... .A. ... ..G ..C .T. .G. ... ... ... ... ... .A. ... .GA CT. .A. .C. .A. .C. ... .GC #DQ374657_SIVcpzTAN2.69 ... ..A GG. .A. ... .T. ... .C. ... ... ... .G. .T. ... ... ... ... ... .GA AA. .A. ... .A. ... ... .GC #DQ374658_SIVcpzTAN3.1 ... ..A .G. .A. ... .T. ... .C. ..C ... ..C .G. ... ... ... ... .A. ... .GA AA. .A. ... .A. .C. ... .GC #K03455_HIV-1_M/B_HXB2 ... .G. .G. .A. ... .A. ... ..C .T. ... ... ... ... ... ... ... .A. ... ..A CA. .A. ... ... .C. ... .CA #L20571_HIV-1_O_MVP5180 ... ... .G. .A. .T. ... ... .CC .G. ... ... ... ... C.. ... ... ... .C. ... .A. .A. ... .A. .C. ... ..C #L20587_HIV-1_O_ANT70 ... ... ... .A. .T. ... .C. .CC .G. ... ..C .G. .T. C.. ... ... ... .T. ... .A. .A. ... .A. .C. .C. .GC #M62320_HIV-1_M/A_U455 ... ... .G. ... ... .A. .C. ... .AC ... ... ... ... ... ... ... .A. ... ... .A. .A. .C. .A. .C. ... .CA #L40990_SIVagm ... ..A G.. ... ... ..A .A. .CC .TC ... ..A ..T TGA .T. ... ... .AA ..G TCC A.T .A. .C. .A. ... ... ..C #U42720_SIVcpzANT ... .GA ..A GT. ... .A. .C. .CC .G. ... ... ... .CA .C. ... ... .A. ... ..A CA. .A. .C. ... .C. ... ..G #X52154_SIVcpzGAB1 ... ... ... .A. ... .T. ... .CC .G. ... ... ... ... .T. ... ... .A. ... ..A CT. ... .C. .A. ... ... .GC #AF103818_SIVcpzUS CTA ACT TTA CAA GTA GTA CAG TTA GAG CAG CTT GCT GGT GGG CAG GCA TAC AAC AAG AGT TTG GAA TTC CAT ACA ATC #AF115393_SIVcpzCAM3 ... ... ... .C. ... A.. ... ... AG. ... .C. ... ... ... ... ... .C. ... .G. .A. ... ... ... .C. .T. ... #AF382828_SIVcpzGAB2 .A. .T. .C. .C. ..G CAG ... .A. A.. ... .C. .T. ... ... ... ... ..A ... ... .A. ... ... .A. .T. .T. ... #AF447763_SIVcpzTAN1 .A. .T. ... .T. ... CAG ... .G. AG. ... .C. ... ... ... ..C AA. .T. ... .T. .A. ... .G. ... ... .T. ... #AJ006022_HIV-1_N_YBF30 .C. .T. .C. .T. ..G CC. .T. .A. A.. ... .C. .T. ... ... ..A AT. .CA ... .G. .A. ... .G. .A. .C. ... ... #AJ271369_SIVcpzCAM5 ... ... ... .T. ... AC. ... .C. A.. ... .C. .T. ... ... .T. ... .C. ... .G. ... ... ... .C. .C. ... ... #AJ271370_HIV-1_N_YBF106 .C. .T. ... TT. ..G CC. .T. .A. A.. ... .C. .T. ... ... ... .T. .CA ... .G. .A. .C. .G. .A. .C. ... ... #AM296488_SIVgorBQ664 ... .T. .C. .T. .CG C.G ... .A. A.. .C. .C. ... ... ..C TTA ATG ..A CT. .T. .A. ... ... .C. ... .T. ... #AM296489_SIVgorCP684 ... ... ... .T. ..G CC. ... ... AG. .T. .C. .T. ... ..C TCA ATG ..A C.. .T. ... ... ... ... .C. .T. ... #AM296491_SIVgorCP1436 ... ... ... .T. ..G C.G TG. .A. A.. .T. .C. ... ... ..C TTA ATG ..A C.. .T. ... ... ... ... .C. ... ... #AY169968_SIVcpzCAM13 .A. .T. ... ... ... A.G ... ... A.. ... .A. .T. ... ... .CA A.. .CA ... ..A ... ... ... ... .C. ... .C. #DQ370395_SIVcpzMT115 ... .T. .C. .T. ... ..G ... .A. A.. ... .A. .T. ... ... ..A AT. .TA G.. .G. .A. ... .G. ... ... .T. .C. #DQ370403_SIVcpzDP206 ... .T. .C. ... ... .C. ... ... A.. .T. .C. ... ... ... ... ... ... .G. ... ... ... .G. .C. .C. ... ... #DQ370405_SIVcpzDP25 ... .T. .C. ... ... .C. ... ... A.. .T. .C. ... ... ... ... ... ... .G. ... .A. ... .G. .C. .C. ... ... #DQ370408_SIVcpzEK502 GC. ... .C. .C. ..G CC. .T. .A. A.. ... .C. .T. ... ... ..A AT. .C. ... .G. ... ... ... .A. .C. ... ... #DQ370411_SIVcpzEK519 GC. ... .C. .C. ..G CCG .T. .A. A.. ... .C. .T. ... ... ..A AT. .C. ... .G. ... ... ... .A. .C. ... ... #DQ370413_SIVcpzMB23 GC. ... ... .T. .C. ..G .T. .C. AG. .T. .A. .T. ... ... ..C AA. .C. .G. .G. .T. ... .G. ... .C. ... ... #DQ370415_SIVcpzMB192 GC. ... .C. .T. .C. ..G .T. .C. AG. .T. .A. .T. ... ... ..C AA. .C. .G. .G. .T. ... .G. ... .C. ... ... #DQ370416_SIVcpzMB317 G.. .T. ... .C. .C. ..G .T. ... AG. .T. .A. .T. ... ... ..C AG. .C. ... .G. .A. .C. ... .C. .C. ... ... #DQ370417_SIVcpzMB245 G.. ... ... .C. ... ... .T. .C. AG. ... .C. .T. ... ... .G. .T. .C. ... ... .A. ... ... ... .C. ... ... #DQ370418_SIVcpzLB186 G.. .T. .C. ... .C. ..G .T. ... A.. .T. .C. .T. ... ... ..A A.. .C. ... .G. .A. ... .G. ... .C. ... ... #DQ373063_SIVcpzMB66 G.. ... ... .C. ... ... .T. .C. AG. ... ... .T. ... ... .G. .T. .C. ... ... .A. ... ... ... .C. ... ... #DQ373064_SIVcpzLB7 GC. .T. ... .T. .C. C.G ... .C. AG. .T. .A. .T. ... ... .GC AG. .C. .G. .G. .A. ... ... ... .C. ... ... #DQ373065_SIVcpzEK505 GC. ... .C. .C. ..G CC. .T. .A. A.. ... .C. .T. ... ... ..A AT. .C. ... .G. ... ... ... .A. .C. ... ... #DQ373066_SIVcpzMT145 ... .T. .C. .T. ... A.G ... .A. AG. ... .A. .T. ... ... ... .T. .TA G.. .G. .A. ... ... ... ... ... .C. #DQ374657_SIVcpzTAN2.69 .A. ... ... .T. ..G CAG ... .A. A.. ... .C. .T. ... ... ..C AA. .C. ... .T. .A. ... .G. ... ... .T. ... #DQ374658_SIVcpzTAN3.1 .A. .T. ... .T. ..G CAG ... .A. A.. ... .C. .T. ... ... .GC AA. .T. ... .T. ... ... .G. ... ... .T. ... #K03455_HIV-1_M/B_HXB2 GC. .T. .C. .CG ..G C.. .G. ... .G. .C. .C. .T. ... ... .G. .A. .CA .G. .G. .A. ... ... ... .C. ... ... #L20571_HIV-1_O_MVP5180 ... .T. ... ... ..G CAG .CA .G. A.. .T. .A. .T. ... ..A ... ... ... ... .T. ... ... .G. .A. ... .T. ... #L20587_HIV-1_O_ANT70 ... .T. ... ... ... CA. .TA .G. AG. .T. .A. .T. ... ... .CA A.. ... ... .T. ... ... ... .A. ... .T. ... #M62320_HIV-1_M/A_U455 GC. .T. .C. .C. .CG C.G ... ... A.. ... TC. .T. ... ... ..A AT. .C. ... .G. .A. ... .G. .C. .C. ... ... #L40990_SIVagm .A. .T. ... .TT CCC AAG AG. .AG CG. ..A TC. .T. ... ... G.A AG. ..G .G. .CA CCA CA. ..G .G. ... ... ... #U42720_SIVcpzANT ... .T. .C. ... ..G CAG ... .A. A.. .G. .A. .T. ... ... .TA AT. .C. ... .G. .A. ... ... .A. ... ... ... #X52154_SIVcpzGAB1 .A. .T. ... ... ..G C.G ... .C. AG. .T. .C. .T. ... ... ... A.. .CA .G. .G. .A. ... ... .A. .C. .T. ... #AF103818_SIVcpzUS CAC AAA GTC AAG GAG TGG TAG AAT CCA TGA ATA AAG AAT TAA AGA AAA TCA TAG GAC AAA TCA GGG ATC AAG CAG AGC #AF115393_SIVcpzCAM3 ... ... ... ... ... ... ... ... .A. ... ... .G. ... ... .A. .G. ... ... ... ... .T. .A. .A. ... ... .A. #AF382828_SIVcpzGAB2 ... ... ... ... .G. .A. ... ... ... ... .C. ... ... ... .A. .G. .T. ... .G. ..G .T. .A. .C. ... ... .A. #AF447763_SIVcpzTAN1 .T. ... ... ... ... .A. ... ... .T. ... ... ..C ... ... ..C ... .T. ... AG. ..G ... ... .C. ... ... ... #AJ006022_HIV-1_N_YBF30 .T. ... ... .G. ... CA. ... .G. ... ... ... ... ... ... ... ... .T. ... ... ... ... .A. ... ... ... .A. #AJ271369_SIVcpzCAM5 ... ... ... ... ... .A. .G. ... ... ... ... ... ... ... ... ... ... ... ... .G. .T. .A. .C. ... ... ... #AJ271370_HIV-1_N_YBF106 .T. ... ... .G. ... CA. ... .G. ... ... ... ... ... ... ... ... .T. ... ... ... ... ... ... ... ... .A. #AM296488_SIVgorBQ664 ... ... ... ... ... .A. ... ... ... ... ... ... ... ... ... ... .A. ..C A.. ..G .G. .A. ... .G. ... ... #AM296489_SIVgorCP684 .C. ... ... ... ... .A. .G. ... .T. ... .C. ... ... ... .A. .G. .T. ..C A.. ..G .G. .A. ... ... ... .A. #AM296491_SIVgorCP1436 .C. ... ... ... ... .A. .G. ... .T. ... ... ... ... .G. ... ... .T. .CC A.. ..G .A. .A. ... ... ... .A. #AY169968_SIVcpzCAM13 ... ... ... ... ... ... ... ... ... ... .C. ... ... ... ... ... ... .T. A.. ..G .T. .A. ... .G. ... .A. #DQ370395_SIVcpzMT115 ... ... ... ... ... .A. .G. ... .T. ... ... ... ... ... .A. .G. ... ... AG. ..G .T. .A. .C. ... .T. .A. #DQ370403_SIVcpzDP206 .T. .G. ... ... ... .A. ... ... ... ... ... ... ... ... ... .G. .T. ... ... ... .A. .A. .C. ... ... .A. #DQ370405_SIVcpzDP25 .C. .G. ... ... ... .A. ... ... ... ... ... ... ... ... ... .G. .T. ... ... ... .A. .A. .C. ... ... .A. #DQ370408_SIVcpzEK502 .T. ... ... .G. .T. CA. ... ... ... ... ... ... ... ... ... ... .T. ... ... ... .T. .A. ... ... ... .A. #DQ370411_SIVcpzEK519 .T. ... ... .G. .T. CA. ... ... ... ... ... ... ... ... ... ... .T. ... ... ... .T. .A. ... ... ..A .A. #DQ370413_SIVcpzMB23 .T. ... ... ... ... .A. ... ... .A. ... ... ... ... ... ... ... .A. ... .G. ... .A. ... .C. ... ... .A. #DQ370415_SIVcpzMB192 .T. ... ... ... ... .A. ... ... .A. ... ... ... ... ... ... ... .A. ... .G. ... .A. ... ... ... ... .A. #DQ370416_SIVcpzMB317 ... ... ... .G. ... .A. ... ... ... .A. ... ... .GC ... ... .G. .T. ... ... ... .A. .A. .C. ... ... .A. #DQ370417_SIVcpzMB245 .T. ... ... ... .G. .A. ... ... ... ... ... ... ... ... ... ... .A. ... .T. .G. .A. .A. ... ... ... .A. #DQ370418_SIVcpzLB186 .C. ... ... ... ... .A. .G. .G. .A. .C. ... ... ... ... ... ... .A. ... .C. ..G .A. .A. ... ... ... ... #DQ373063_SIVcpzMB66 .T. ... ... ... .G. .A. ... ... .T. ... ... ... ... ... ... ... .A. ... .T. .G. .A. .A. ... ... ... .A. #DQ373064_SIVcpzLB7 .C. .G. ... ... ... ... ... ... .A. ... .C. ... ..C .T. ... ... .A. ... .G. .GG .A. .A. ... .G. ... ... #DQ373065_SIVcpzEK505 .T. ... ... .G. .T. CA. ... ... ... ... ... ... ... ... ... ... .T. ... ... ... .T. .A. ... ... ... .A. #DQ373066_SIVcpzMT145 ... ... ... ... ... .A. .G. ... .T. ... ... ... ... ... .A. .G. ... ... AG. ..G ... .A. ... .G. .T. .A. #DQ374657_SIVcpzTAN2.69 .T. ... ... ... ... .A. ... ... ... ... ... ..C ... ... ..C ... .T. ... A.. ... .T. ... .A. ... ... ... #DQ374658_SIVcpzTAN3.1 .T. ... ... ... ... .A. ... ... ... ... ... ..C ... ... ..C ... ... ... ... ... .T. ... .A. ... ... ... #K03455_HIV-1_M/B_HXB2 .C. ... ... ... ... .A. ... ... .T. ... ... ... ... ... ... ... .T. ... ... .GG .A. .A. ... .G. .T. .A. #L20571_HIV-1_O_MVP5180 ... ... ... ... ... .A. ... ..G ... ... ... ... ... ... .AT CT. .T. ..C AG. .GG .G. ... .C. ... ... ... #L20587_HIV-1_O_ANT70 ... ... ... ... ... .A. ... ..G ... ... ... .G. ... ... .AT C.. .T. ..C AG. .GG .G. ... .C. ... ... .A. #M62320_HIV-1_M/A_U455 .C. ... ... ... ... .A. .G. ... ... ... .C. .G. ... ... ... ... ... ... .G. .GG .A. .A. .G. ... .T. .A. #L40990_SIVagm ... .GT CA. .G. ..T CA. ... ..A G.. ... .C. ..C ..C .C. .AG ... .A. .T. ..A ... .A. .A. ..G .TT GTC ..T #U42720_SIVcpzANT ... ... ... ... ... .A. .G. ... ... ... ... ..C ... .G. ..C ... .T. ... ... ... .T. .A. .C. ... ... .A. #X52154_SIVcpzGAB1 ... .G. ... ... ... ... ... ... ..T .A. ... ... .GC ... ... ... .A. ... ... .GG .T. ... ... ... ... .A. #AF103818_SIVcpzUS ATT TAA AGA CAG CTG TAC AGA TG- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 .C. .G. G.. ... .A. .C. ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 .C. ... ... ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 .AC .G. G.. ... .A. ..A TC. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 ..C ... ... ... .A. .G. .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 .GC ... ... ... ... .C. .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 ..C ... .A. ... .A. .G. .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 ... ... ... ... .A. .G. .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 ... ... ... ... .A. .G. ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 ... ... 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GA. ... .A. .GA TT. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 .C. .G. G.. ... .A. ..A CT. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 ..C .T. ... ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 ... ... .A. ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 .C. ... GA. ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 .CC .T. ... ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm ..A C.G .A. ... .A. ... TT. ..G CAT GCC ACA TCC ACA ATT TTA AAA GAA AGG GAG GAA TAG GGG GGT TAA CAC CAG #U42720_SIVcpzANT .A. ... ... ... .A. ..G TA. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 ... ... .A. ... .A. ... .A. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- 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--- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm CAG AAA GAC TAA TTA ATA TGA TAA CAA CAC AAT TAG AAC TAC AAA CAT TAC AAA CCA AAA TTC AAA AAA TTT TAA ATT #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --G CAG #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. .T. #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. .G. #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. .G. #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #L40990_SIVagm TTA GAG TCT ACT ACA GAG AAG GGA GAG ATC CAG TGT GGA AGG GAC CAG CAC AAT TAA TCT GGA AAG GGG AAG GT. ... #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --. ... #AF103818_SIVcpzUS TAT TCA TTG AAT AAT CTG CTA AGA GCA ATA GAG GCC CAA CAG CAT TTA TTG CAA CTA TCA GTT TGG GGC ATT AAA CAG #AF115393_SIVcpzCAM3 .G. ... ... ..C ..C ... ..G C.. ... ... ... ..G ... ... ... ..G ... ... ..C ... ... ... ... ... ... ... #AF382828_SIVcpzGAB2 ... ... ..A ... ..C T.. ..G C.. ..C ... ..A ..T ..G ..A ..C C.G C.. ..G ... ... ..C ... ... ..A ... ... #AF447763_SIVcpzTAN1 .G. AT. .CA C.A ..C ... ..T CAG ..C ... ..A ..G ... ..A ..C ..G ... ..G ..C ..T ..A ... ... ... ..G ... #AJ006022_HIV-1_N_YBF30 .T. ... ... ... .T. ... T.G ... ... ... ... ..G ... ..A ... ..G ... ... ..C ... A.C ... ... ... ... ... #AJ271369_SIVcpzCAM5 .C. ... ... ..C ..C ... ..G C.. ... ... ... ..G ... ..A ... ..G ... ... ..C ... ... ... ... ..C ... ... #AJ271370_HIV-1_N_YBF106 .T. ... ... ... ... ... T.G ... ... ... ... ..G ... ..A ... ..G ... ... ..C ... A.C ... ... ... ... ... #AM296488_SIVgorBQ664 ... .TG .C. ... ... ... ... ... ..T ... .CA ..T ..G ... G.A C.G C.. AG. ..G ..T ..A ... ... ..A .G. ... #AM296489_SIVgorCP684 ... .TG .CA ..C ..C A.. ..G ... ..T ... .CA ..T ..G ..A G.A ..G C.. AG. ..C ..T ... ... ... ..A .G. ... #AM296491_SIVgorCP1436 .C. .TG .C. ... .C. A.. ..G ... ..T ... ..A ..T ..G ... G.A ..G C.. AG. ..T ..T ..C ... ... ..A .G. ..A #AY169968_SIVcpzCAM13 .G. ... G.. ..C ..C ... T.G ... ... ... ... ... ... ... ... C.. ... ... ... A.. ..C ... ..A G.A ... ..A #DQ370395_SIVcpzMT115 .C. ... ... ... ... ... ... ... ... ... ..A ..T ... ..A ... C.G ... ..G ..T ... ..C ... ..A ... ... ..A #DQ370403_SIVcpzDP206 ... ... ... ... ... ... T.G ... ... ... ... ... ... ... ... C.. ... ..G ..G ..T A.C ... ..T ..C ... ..A #DQ370405_SIVcpzDP25 ... ... ... ... ... ... T.G ... ... ... ... ... ... ... ... C.. ... ..G ..G ..T A.C ... ..T ..C ... ..A #DQ370408_SIVcpzEK502 .C. ... ... ... ... ... ..G ... ... ... ... ..G ... ..A ..C ..G C.. ... ..C ... ... ... ... ... ... ... #DQ370411_SIVcpzEK519 .C. ... ... ... ... ... ..G ... ... ... ... ..G ... ..A ..C ..G C.. ... ..C ... ... ... ... ... ... ... #DQ370413_SIVcpzMB23 ... ... ..A .GC ... T.. ..G ... ..T ... ... ..G ... ..A ... C.G ... ... ..C ... ..C ... ... ... ..G ... #DQ370415_SIVcpzMB192 ... ... ..A .GC ... T.. ..G ... ..T ... ... ..G ... ..A ... C.G ... ... ..C ... ..C ... ... ... ..G ... #DQ370416_SIVcpzMB317 ... ... ..A ... ... T.. ..G ... ..T ... ... ..G ... ..A ... ..G ... ... ..C ... ..C ... ... ... ... ... #DQ370417_SIVcpzMB245 ... ... ... .GC ... ... ..G ... ..C ... ... ..G ... ... ... C.G ... ... ..C ... ..C ... ... ... ... ... #DQ370418_SIVcpzLB186 ... ... ... .GC ... ... ..G ... ..C ... ... ..G ... ... ... C.G ... ... ..C ... ..C ... ... ... ... ... #DQ373063_SIVcpzMB66 ... ... ... .GC ... ... ..G ... ..C ... ... ..G ... ... ... C.G ... ... ..C ... ..C ... ... ... ... ... #DQ373064_SIVcpzLB7 ... ... ... .G. ... T.. ..G ... ..T ... ... ..G ..G ..A ..C ..G C.. ... ..C ... ..C ... ... ..C ... ... #DQ373065_SIVcpzEK505 .C. ... ... ... ... ... ..G ... ... ... ... ..G ... ..A ..C ..G C.. ... ..C ... ... ... ... ... ... ... #DQ373066_SIVcpzMT145 .C. ... ... ... ... ... ... ... ... ... ..A ..T ... ..A ... C.G ... ..G ..T ..T ..C ... ..A ..C ... ... #DQ374657_SIVcpzTAN2.69 .G. AT. .CA C.A ..C ... ..G CAG ..C ... ... ..G ... ..A ... C.G ... ..G ..C ..T ..G ... ... ..C ... ... #DQ374658_SIVcpzTAN3.1 .G. AT. .CA C.A ..C ... ..G CAG ..C ... ... ..G ... ..A ... C.G ... ..G ..C ..T ..G ... ... ..C ... ... #K03455_HIV-1_M/B_HXB2 ... ... .C. ..C ... T.. ..G ..G ..T ..T ... ..G ... ... ... C.G ... ... ..C A.. ..C ... ... ..C ..G ... #L20571_HIV-1_O_MVP5180 .C. .TG ... G.C ..C ... ..G ... ..G ... C.. ... ..G ..A ..C ..G C.. AGG T.. ..T ..A ... ..T ... .G. ..A #L20587_HIV-1_O_ANT70 ... .TG ... G.C ..C ... ... ... ... ... C.. ... ..G ... ..A ..G C.. AGG ... ..T R.A ... ..T ..C .G. ..A #M62320_HIV-1_M/A_U455 ... ... ... .GC ... ... ..G ..G ..T ... ... ..T ... ... ... C.G ... A.. ..C A.T ..C ... ... ... ... ... #L40990_SIVagm .GG ... .C. ..A ... ... ..G GCG ..T G.G ... ..T ... ... ..A A.G ... A.G ..G A.C A.. ... ..T G.G ... A.C #U42720_SIVcpzANT .GC A.. ... GCC ... ... ..G CA. ..C ... ... A.A ..G ..A ... C.G C.A ..G ..C ..G ..C ... ..A G.A ... ..A #X52154_SIVcpzGAB1 .G. ... ... ... ... ... T.G .A. ... ... ... ..T ... ... ..C C.. ... ... ... ... A.C ... ..A G.A ... ..A #AF103818_SIVcpzUS CTT CAA GCC AGA GTA CTT GCT GTG GAA AGA TAC CTT AAG GAT CAG CAG ATC CTA GGT CTG TGG GGC TGC TCA GGA AAA #AF115393_SIVcpzCAM3 ..C ... ..A ... ..T ... ... ..A ... ... ... ..C .GA ... ... ..A ... ... ..C ..A ... ... ... ... ... ... #AF382828_SIVcpzGAB2 ..C ..G ..G ..G ..C ... ... ... ... ... ..T ..A ... ... ... ..A G.. ... .CA ..A ... ... ... ..T ... ... #AF447763_SIVcpzTAN1 ..C ..G ... ... A.G ... ..A ..A ..G .A. ... A.A .GA ..C ..A ... C.. ... A.C ..C ... ..A ..T G.T AAC ... #AJ006022_HIV-1_N_YBF30 ..C ..G ..A .A. ..C ... ... A.A ... ... ... ... .G. ... ... ..A ... ... A.. ..A ... ... ... ... ... ... #AJ271369_SIVcpzCAM5 ..C ... ..A ... ..T ... ... ..A ... ... ... ..A ... ... ... ... ... ... A.. ..A ... ... ... ... ... ... #AJ271370_HIV-1_N_YBF106 ..C .G. ..A .A. ..C ... ..G A.A ... ... ... ... .GA ... ... ..A ... ... A.. ..A ... ... ... ... ... ... #AM296488_SIVgorBQ664 ..C .G. ..T C.C C.G ..G ..C A.A ..G .CC ... ..A .G. ... ... ..A C.. ..G ..A ... ... ..T ..T A.. ... ... #AM296489_SIVgorCP684 ..C .G. ..T C.C C.G ..A ..C A.A ... .CT ... ..A .GA ..C ... ... C.. ... ..A ... ... ..A ... A.. ..G ... #AM296491_SIVgorCP1436 ..C AG. ..T C.C C.G ... ..C A.A ... .CC ... ..A .GA ... ... ... C.. ... ..A ... ... ... ..T A.. ... ... #AY169968_SIVcpzCAM13 ..C ... ... ... T.. ... ... ..A ... ... ... ..A C.. ... ... ... ..T ... ..C ..T ... ... ... ..T ... ..G #DQ370395_SIVcpzMT115 ..C ..G ..A ... ..T ... ... ... ... ..G ... ..A .GA ... ..A ..A C.. ..G ... ..A ... ... ... A.. ... ... #DQ370403_SIVcpzDP206 ..C ..G ..A ... C.. ... ... ..A ... ... ..T ..A ... ... ... ..A ... ... ..C ..T ... ... ... ..T ... ..G #DQ370405_SIVcpzDP25 ..C ..G ..A ... C.. ... ... ..A ... ... ..T ..A ... ... ... ..A ... ... ..C ..T ... ... ... ..T ... ..G #DQ370408_SIVcpzEK502 ..C ... ..A ... ..C ... ... A.A ... ... ... ..G .G. ..C ... ..A ... ... ..C ..A ... ... ... ... ... ... #DQ370411_SIVcpzEK519 ..C ... ..A ... ..C ... ... A.A ... ... ... ..G .G. ..C ... ..A ... ... ..C ..A ... ... ... ... ... ... #DQ370413_SIVcpzMB23 ..C ..G ..A ... ..C ... ..C M.C ... ... ... ..G ... ... ..A ... C.. ... ..A ..A ... ..A ... ... ... ... #DQ370415_SIVcpzMB192 ..C ..G ..A ... ..C ... ..C A.C ... ... ... ..G ... ... ..A ... C.. T.. ..A ..A ... ..A ... ... ... ... #DQ370416_SIVcpzMB317 ..C ..G ..A ... ..C ... ... A.C ... ... ... ..G .G. ... ..A ... C.. ... ..A ..A ... ..A ... ... ... ... #DQ370417_SIVcpzMB245 ... ..G ..A C.G ..T ... ... ... ..G ... ... ..A ... ... ..A ... C.. T.. ..A ..A ... ... ... ..T ... ... #DQ370418_SIVcpzLB186 ... ..G ..A C.G ..T ... ... ... ..G ... ... ..A ... ... ..A ... C.. T.. ..G ..A ... ... ... ..T ... ... #DQ373063_SIVcpzMB66 ... ..G ..A C.G ..T ... ... ... ..G ... ... ..A ... ... ..A ... C.. T.. ..A ..A ... ... ... ..T ... ... #DQ373064_SIVcpzLB7 ..C ... ..A ... ..C ... ... A.C ... ... ... ..A ... ... ..A ..A C.. ... ..A A.A ... ..T ... ... ... ... #DQ373065_SIVcpzEK505 ..C ... ..A ... ..C ... ... A.A ... ... ... ..G .G. ..C ... ..A ... ... ..C ..A ... ... ... ... ... ... #DQ373066_SIVcpzMT145 ..C ..G ..G ... ..T ... ... ... ... ..G ... ..A .G. ... ... ..A C.. ... ... ..A ... ... ..T A.. ... ... #DQ374657_SIVcpzTAN2.69 ..C ..G ... ... A.G ... ..A ..A ..G .A. ... A.A .GA ... ..A ... TA. ... A.C A.T ... ..A ..T G.C AAC ... #DQ374658_SIVcpzTAN3.1 ..C ... ... ... A.G ... ..A ..A ..G .A. ... A.A .GA ... ..A ... TA. T.. A.C A.T ... ..A ..T G.C AAC ... #K03455_HIV-1_M/B_HXB2 ..C ..G ..A ... A.C ..G ... ... ... ... ... ..A ... ... ..A ... C.. ..G ..G A.T ... ..T ... ..T ... ... #L20571_HIV-1_O_MVP5180 ..C .G. ..T C.C C.G .AA ..C T.A ... .CC CTT A.A C.. A.. ... ..A CG. ... AAC ..A ... ... ..T AA. ... ... #L20587_HIV-1_O_ANT70 ..C .G. ..T C.C C.G ..A ..C T.A ... .CC .TA ..A C.. A.. ... ..A C.. ... A.C ..A ... ... ..T AA. ... ..G #M62320_HIV-1_M/A_U455 ..C ..G ..A ... ..C ..G ... ... ... ... ... ..A C.. ... ..A ... C.. ... ..A A.T ... ... ... ..T ... ..G #L40990_SIVagm ..C A.T ... C.C ..C ACA ... C.T ..G .AG ... ..A G.. ... ... GCA CGA T.G AAC G.C ... ..G ... G.. T.G ... #U42720_SIVcpzANT ..C ..G ..A ... A.G ... ..A ..C ..G .AG ... ..A .GA ... ..A ..A C.A T.G A.C ..C ... ..T ..T G.T .AC ..G #X52154_SIVcpzGAB1 ..A ... ... ... T.G ... ... ..A ... ..G ... ..G C.. ... ... ... ..T ..G ..C ... ... ... ... ..T ... ..G #AF103818_SIVcpzUS ACA ATT TGT TAT ACC ACT GTG CCT TGG AAT GAT ACC TGG A-- --- --- --- --- --- --- --- --- -GT AAC AAC CTC #AF115393_SIVcpzCAM3 G.C ... ... ... ..T ... ... ... ... ... A.. ..T ... .-- --- --- --- --- --- --- --- --- -.. GCT ..T ACA #AF382828_SIVcpzGAB2 ..T G.G ..C ..C T.T ... ..A ..C ... ... AC. T.. ... .-- --- --- --- --- --- --- --- --- -AC .GT ... AAA #AF447763_SIVcpzTAN1 TTG G.G ... C.C .GT .G. ... ..A ... ..C CTC ... ... GCT GAA GAT TCT ACA AAG TGC AAT CAC A.. G.T GCA AAG #AJ006022_HIV-1_N_YBF30 ... ..A ..C ... ... ... ... ... ... ... ..G ..T ... .-- --- --- --- --- --- --- --- --- -.C ... ..T AC. #AJ271369_SIVcpzCAM5 G.C ..C ... ... ... ..G ... ... ... ... .C. ..T ... .-- --- --- --- --- --- --- --- --- -.. GCT ... ACA #AJ271370_HIV-1_N_YBF106 ..T ..A ..C ... ... ... ... ... ... ... ... ..Y ... .-- --- --- --- --- --- --- --- --- -.C .GT ..T AC. #AM296488_SIVgorBQ664 TT. ..C ... ..C ..T .A. ... ..A ... ... ACC T.T ... .-- --- --- --- --- --- --- --- --- --- -C. C.. AAA #AM296489_SIVgorCP684 TTG ... ... ..C ..T .AC ... ..A ... ..C AC. ... ... .-- --- --- --- --- --- -CC GGG AAA A.. G.T .GT GA- #AM296491_SIVgorCP1436 CTT G.. ..C ... ..T .G. ..A ..A ... ..C A.. ... ... G-- --- --- --- --- --- --- --- --- -CC ..T T.. AGT #AY169968_SIVcpzCAM13 T.T ..C ... ... ... ... ... ... ... ..C A.A ..A ... T-- --- --- --- --- --- --- --- --- --- --. .GG .AA #DQ370395_SIVcpzMT115 ..T ... ... CCC ..T G.. ..A .AC ... ... A.G ..A ... G-- --- --- --- --- --- --- --- --- -.A ..T .TT AG. #DQ370403_SIVcpzDP206 ... ... ..C ..C ... ..A ... ... ... ... ACA .G. ... T-- --- --- --- --- --- --- --- --- --- -CA ..T .G. #DQ370405_SIVcpzDP25 ... ... ... ..C ... ..A ... ... ... ... A.A .G. ... T-- --- --- --- --- --- --- --- --- --- --. .C. AGA #DQ370408_SIVcpzEK502 T.T G.G ... ..C ... .A. ... ... ... ... ACC ..T ... .-- --- --- --- --- --- --- --- --- -.C ... ..T AA. #DQ370411_SIVcpzEK519 T.T G.G ... ..C ... .A. ... ... ... ... ACC ..T ... .-- --- --- --- --- --- --- --- --- -.C ... ..T AA. #DQ370413_SIVcpzMB23 CTC ..C ..C AC. ..T T.. ... ... ... ... ACA ..A ... .-- --- --- --- --- --- --- --- --- --- -GT ..T AAA #DQ370415_SIVcpzMB192 CTC ..C ..C AC. ..T T.. ... ... ... ... ACA ..A ... .-- --- --- --- --- --- --- --- --- --- -GT ... AAA #DQ370416_SIVcpzMB317 CTC ..C ... CCC ..T T.C ... ..C ... ..C A.A ..T ... G-- --- --- --- --- --- -GT TGG GCA AAG ..T ..T GGA #DQ370417_SIVcpzMB245 CTC ... ... ACC ..T T.. ... ... ... ..C AC. ... ... .-- --- --- --- --- --- --- --- --- --- -.T ..T AAA #DQ370418_SIVcpzLB186 CTC ... ..C ACC ..T T.. ... ... ... ..C AC. ... ... .-- --- --- --- --- --- --- --- --- --- -.T ..T AAA #DQ373063_SIVcpzMB66 CTC ... ..C ACC ..T T.. ... ... ... ..C AC. ... ... .-- --- --- --- --- --- --- --- --- --- -CT ..T AAA #DQ373064_SIVcpzLB7 CTC ..C ..C ACC ..T T.. ... ..A ... ... AGA ..T ... .-- --- --- --- --- --- --- --- --- --- -GT ... AAA #DQ373065_SIVcpzEK505 T.T G.G ... ..C ... .A. ... ... ... ... ACC ..T ... .-- --- --- --- --- --- --- --- --- -.C ... ..T AA. #DQ373066_SIVcpzMT145 ..T ... ... CCC ..T G.. ..A .GC ... ..C A.G ..A ... G-- --- --- --- --- --- --- --- --- -.A ..T .TT AGT #DQ374657_SIVcpzTAN2.69 TTG G.A ... C.C .GT .G. ... ..A ... ..C CTC T.T ... GCT GAA GAC TCC CAA AAG TGC AAC AGT AC. ..T .CA AAG #DQ374658_SIVcpzTAN3.1 TTG G.G ..C C.C .GT .G. ... ..A ... ..C CTC T.T ... GCT GGA ACC TCT TCA AAA TGC AAC TAT AC. GGT GCA AAG #K03455_HIV-1_M/B_HXB2 CTC ... ..C ACC ..T G.. ... ... ... ... .C. .GT ... .-- --- --- --- --- --- --- --- --- --- -GT ..T AAA #L20571_HIV-1_O_MVP5180 CT. ..C ... ..C ..A T.A ..A AAA ... ..C ACA T.A ... T-- --- --- --- --- --- --- -CA GGA A.A T.T ..T --- #L20587_HIV-1_O_ANT70 CT. G.C ..C ..C ..A T.A ..A AAA ... ... AGA ..A ... .-- --- --- --- --- --- --- --- --- --- --T .GG A-- #M62320_HIV-1_M/A_U455 CTC ..C ..C ACC ..T ... ... ..C ... ..C TC. .GT ... .-- --- --- --- --- --- --- --- --- --- -GT ..T AAA #L40990_SIVagm CAG G.C ... C.. ... ..A ..A ..A ... C.- --- --- --- --- --- --- --- --- --- --- --- --- --- -.T GG. AAA #U42720_SIVcpzANT GTG .CC ... C.C ..T ..G ... ... ... ... A.. T.. ... GTA AAC TTC ACG CAA ACA TGT GCA AAG AAC .G. .GT GA- #X52154_SIVcpzGAB1 G.T G.C ... ... ... ..G ... ... ... ..C A.C T.T ... C-- --- --- --- --- --- --- --- --- -C. GGG .G. AAT #AF103818_SIVcpzUS TCC --- --- --T ATG -AT GCT ATT TGG GGC AAT CTA ACT TGG CAA GAA TGG GAC AGA AAA GTA AGA AAC TAT TCA GGT #AF115393_SIVcpzCAM3 ... --- --- --. T.. -.. .AG ..C ... AAT ... T.. ..A ... ... ..C ... ... .A. .GG ... .A. ..T ... ... ... #AF382828_SIVcpzGAB2 ..T --- --- --. ... -.G .AC ... ... A.T ... ..G ..C ... ..G C.. ... ..T .AG TT. ... GA. ..T C.. A.. ..A #AF447763_SIVcpzTAN1 .A. --- --- --. ... -.C TG. ..A ... AA. ... T.G ... ... ..G ... ... ..T C.. TT. ... GA. ... .C. A.. ..A #AJ006022_HIV-1_N_YBF30 ..T --- --- --. ... -.. A.A ..C ... AAT ... T.. ..C ... ... C.. ... ..T GAG ... ... ... ... ... ... ... #AJ271369_SIVcpzCAM5 ... --- --- --. ... -.. .AG ..C ... AAT ... T.. ..A ... ... ..T ... ..T .A. ..G ... .A. ..T ..C ... ..A #AJ271370_HIV-1_N_YBF106 ... --- --- --. ... -.. A.A ..C ... R.T ... ..C ..C ... ... C.. ... ..T C.G ... ... ..G ... ... ... ... #AM296488_SIVgorBQ664 A.T GAA AGT GAA T.A G.. AGC ... ... ..A ... T.. ..A ... ... C.. ... ... .A. CTG ... GAC ..T ..C A.T .A. #AM296489_SIVgorCP684 --- --- --- --A C.A G.. .GC ... ... ..A ..C T.G ... ... ... C.. ... ... .A. TTG ... GAC ... ..C A.T .AC #AM296491_SIVgorCP1436 AA. --- --- --C TA. -.. ..A ..C ... ... ... T.. ..C ... ... C.. ... ... .AG TTG ... GAC ..T ..C A.. .AC #AY169968_SIVcpzCAM13 GT. --- --- --. ... AG. .AC ... ... AA. ... T.. ..A ... ... C.. ... ... .A. TTG A.C .CT ..T ..C A.. ..G #DQ370395_SIVcpzMT115 AA. --- --- --. ..C -.G .AC ..C ... AAT ... TAC ..A ... ... ..C ... ..T .A. ... ... .AT ..T ..C A.. ..A #DQ370403_SIVcpzDP206 A.T --- --- --. ... -.A CAA ..C ... .AT ... ..T ..A ... ... A.. ... ... GA. G.G ..T ... ..T ..C A.. ... #DQ370405_SIVcpzDP25 ..T CAC T-- --. ... -.C TAC ..C ... .AG ... ..T ..A ... ... .G. ... ... GA. ..G ..T ... ..T ... A.. ... #DQ370408_SIVcpzEK502 ... --- --- --. ... -.C A.A ..A ... ..A ... A.G ..A ... ... A.T ... ..T G.G C.. ... ... ..T ... ... ... #DQ370411_SIVcpzEK519 ..T --- --- --. ... -.C A.A ..A ... ..A ... A.G ..A ... ... A.T ... ..T .CG C.. ... ... ..T ... ... ... #DQ370413_SIVcpzMB23 ... --- --- --. ..A -.. .A. ... ... .A. ..C A.G ..A ... ATG ..G ... ... .AG G.. ..C ... ... ..C A.. .AG #DQ370415_SIVcpzMB192 ... --- --- --. ..A -.. .A. ... ... .A. ..C A.G ..A ... ATG ..G ... ... .AG G.. ..C ... ... ..C A.. AAG #DQ370416_SIVcpzMB317 A.T --- --- --. T.. -.G .A. ... ... AAT ... A.G ..A ... ATG C.. ... ... .AG G.. ..T CAC ..T GTC A.. CAA #DQ370417_SIVcpzMB245 ..T --- --- --. ... -.. .A. ... ... TAT ..C A.G ..A ... ATG C.. ... ..T .A. G.. ..T ..C ..T ..C A.. .AA #DQ370418_SIVcpzLB186 ..T --- --- --. ... -.. .A. ... ... TAT ..C A.G ..A ... ATG C.. ... ..T .A. G.. ..T ..C ..T ..C A.. .AA #DQ373063_SIVcpzMB66 ..T --- --- --. ... -.. .A. ... ... TAT ..C A.G ..A ... ATG C.. ... ... .A. G.. ..T ..C ..T ..C A.. .A. #DQ373064_SIVcpzLB7 A.A --- --- --. ..A -.. .AA ... ... .A. ..C A.G ..A ... ATG ... ... ... ..G G.. ... ... ..T ..C A.. .AA #DQ373065_SIVcpzEK505 ... --- --- --. ... -.C A.A ..A ... ..A ... A.G ..A ... ... A.T ... ..T GAG C.. ... ... ..T ... ... ... #DQ373066_SIVcpzMT145 GA. --- --- --. ..C -.G .T. ... ... AAT ... TAC ..A ... ... C.. ... ..T ... G.. ... .AT ..T ..C A.. ..A #DQ374657_SIVcpzTAN2.69 .A. --- --- --. ... -.G TGC ..A ... AAT ... T.. ..C ... ..G ... ... ..T ... CT. ..G CA. ... GC. ... .AA #DQ374658_SIVcpzTAN3.1 .A. --- --- --. ... -.G TGC ..A ... AAT ... T.. ..C ... ..G ... ... ..T .AG CT. ... CA. ..T .CC ... .AA #K03455_HIV-1_M/B_HXB2 ..T --- --- --C TG. -.A CAG ... ... AAT C.C ACG ..C ... ATG ..G ... ... ... G.. A.T .AC ..T ..C A.. A.C #L20571_HIV-1_O_MVP5180 --- --- --- --G ... -.C AG. ... ... .A. ..C ..T ..A ... ..G C.. ... ... CA. C.C A.. .AC ..T GTA AGC TCC #L20587_HIV-1_O_ANT70 --- --- --- --A .C. -.A AGC ... ... .A. .CC T.. ..A ... ..G ... ... ..T C.G C.G A.. ..C ... ATA AGC TCC #M62320_HIV-1_M/A_U455 ..T --- --- --C .G. -.G .AC ..A ... AAT ..C A.G ..C ... .TG C.. ... ..G .A. G.. A.T ..T .GT ..C A.. ..C #L40990_SIVagm A-- --- --- --C ... ACG C.C .A. ... CAA ..C A.G ..C ... TTG ..G ... ..A ... C.G A.T G.. G.G .TG GA. ..C #U42720_SIVcpzANT --- --- --- --. ..A C.A TG. ... ... .AA ... A.G ..A ... ... ... ... ... ... TT. ... CAG ..T .CA A.. ..A #X52154_SIVcpzGAB1 ... --- --- --A CA. -.. .AC ... ... ..G ... ... ..A ... ..G C.. ... ..T .A. TT. ..G TCT ... ..C A.. ..G #AF103818_SIVcpzUS ACT ATT TTT AGT CTT ATA GAA CAA GCA CAA GAA CAG CAG AAT ACA AAT GAA AAA TCA CTC TTG GAA TTG GAT CAA TGG #AF115393_SIVcpzCAM3 GTC ... ... ..C ... ... ... ... ... ... ..G ..A ..A ..C ... ... ..G ... AGT ..A ... ... ... ... ... ... #AF382828_SIVcpzGAB2 ..C ... ... CAA T.A T.. C.G AG. ... ..T ..G ..A ... ... .GC ... ... ... GAG ..A ... ... ... ... ... ... #AF447763_SIVcpzTAN1 ..C ..A .AC TCC ..G T.. ..G A.. ... ... AC. ..A ... G.G .A. ..C A.. C.. GAG T.G ..A ... ..A ..C A.. ... #AJ006022_HIV-1_N_YBF30 GTC ... ... G.A ... ... ... ..G ... ... ... ..A ... ..C ... ... ..G ... ... ... ... ... ... ... ... ... #AJ271369_SIVcpzCAM5 GTC ... ... ..C ... ... ..G ... ... ... ..G ..A ... ..C ... ... ... ... GAT ..T ... ... ... ... ... ... #AJ271370_HIV-1_N_YBF106 GTC ... ... GA. ... ... ..G ... ... ... ... ..A ..A ..C ... ... ..G ... G.. ... ... ... ... ... ... ... #AM296488_SIVgorBQ664 GAC ..C C.. .TA .AG C.. C.. G.. ... ..G AC. ATA ..A G.A .AG ... ... ..G G.C T.A ..A ..G ..A ..C A.G ... #AM296489_SIVgorCP684 ..A ..A ... TTA GAA ... C.. A.G ... ... ... ... ... G.G G.T ... ... ..G G.C T.A C.A ..G ... ... A.. ... #AM296491_SIVgorCP1436 ..A ..C .A. CTG GAA ... C.G A.. ... ... ... ..A ... ... G.T ... ... ..G G.C ..G C.. ... ..A ..C A.. ... #AY169968_SIVcpzCAM13 ..A ... ... G.. T.A T.. ... G.G ... ... TC. ..A ..A G.G .A. ... ... ..G GAC T.A ... ..G ... ... ... ... #DQ370395_SIVcpzMT115 CTC ..C .AC .CA ..G C.. ... G.G ..T A.T AC. ... ..A G.G CA. ... ... ... GAG T.A ... ... ... ... TC. ... #DQ370403_SIVcpzDP206 GT. ... ... GAG T.A T.G ... G.. ..T ... .G. ..A ..A G.A .AG ... C.. .G. GA. ..G C.. ... ..A ... AGG ... #DQ370405_SIVcpzDP25 GT. ... ... GAG ..A T.G ... G.. ..T ... .G. ..A ..A G.A .AG ... C.. .G. GA. ..G C.. ... ..A ... AGG ... #DQ370408_SIVcpzEK502 GTC ... ... G.A ..G C.. ..G ... ... ... ..G ..A ..A .GC .T. ... ... ..G ... ... ... ... ... ... ... ... #DQ370411_SIVcpzEK519 GTC ... ... G.G ..G C.. ..G ... ... ... ..G ..A ..A .GC .T. ... ... ..G ... ... ... ... ... ... ... ... #DQ370413_SIVcpzMB23 GTA ... CAC .AC ..A ... ..G G.. T.. ... A.C ... ... G.A .AT ... ... ..G AA. ... ..A ... C.A ... ... ... #DQ370415_SIVcpzMB192 CTC ... .A. GAA ..A ... ..G G.C T.. ... A.C ... ... G.A .TT ... ... ..G AA. T.A ..A ... C.A ... ..C ... #DQ370416_SIVcpzMB317 ..A ..C .AC ..A T.G ... ..G ... T.. ... A.C ... ... G.A ... ... ... ... GAT T.A ..A ..G C.A ... A.. ... #DQ370417_SIVcpzMB245 GT. ..A .A. .A. ..A T.. ... A.G ..T ... ACC ... ... G.A .AT ... ... ..G GAC ..T ..A ... ..A ..C A.G ... #DQ370418_SIVcpzLB186 GT. ..A .A. .A. ..A T.. ... A.G ... ... ACC ... ..A G.A .AT ... ... ... GAC ..T C.A ... ..A ..C A.G ... #DQ373063_SIVcpzMB66 GT. ..C .A. .A. ..A T.. ... A.G ... ... ACC ... ... G.A .AT ... ... ... GA. ... C.A ... ..A ..C A.G ... #DQ373064_SIVcpzLB7 .T. ... .A. G.G T.A ... ..G ... ... ... ..C ... ... G.A .AT ... ..G ... AA. ..T ..A ... C.. ... ..T ... #DQ373065_SIVcpzEK505 GTC ... ... G.G ..G C.. ..G ... ... ... ..G ..A ..A .GC .T. ... ... ..G ... ... ... ... ... ... ... ... #DQ373066_SIVcpzMT145 CTC ..C .AC .CA T.G C.. ..G G.G ..T A.T AC. ... ... G.G .A. ... ... ..G GAG T.A ... ... ... ... TC. ... #DQ374657_SIVcpzTAN2.69 ... ..A .AC TCC T.G T.. ... AT. ... ... AC. ... ..A G.G .A. ..C A.. C.. GA. T.A ..A ..G ..A ..C A.. ... #DQ374658_SIVcpzTAN3.1 ... ..A .AC TCC T.G T.. ... AC. ... ... AC. ... ..A G.G .G. ..C A.. C.. GA. ..A ..A ..G ... ... A.. ... #K03455_HIV-1_M/B_HXB2 TTA ..A CAC TCC T.A ..T ... G.. T.G ... A.C ... ..A G.A .AG ... ... C.. GA. T.A ... ... ..A ... A.. ... #L20571_HIV-1_O_MVP5180 .T. ..A .A. GA. GAA ... C.. GC. ... ... ..C ..A ... G.A .AG ... .T. ... G.. T.G ... ..G C.A ... G.. ... #L20587_HIV-1_O_ANT70 ..C ..A .A. GAG GAA ... C.. A.G ... ... .T. ... ... G.A CA. ... ..G ... AAG T.G C.. ..G ..A ... G.. ... #M62320_HIV-1_M/A_U455 .TA ..A .A. CAA ..A ..T ..G G.. T.G ..G A.C ... ... G.A .AG ... ... CT. GAC T.A ... .C. ... ..C A.G ... #L40990_SIVagm .AC ..A ACA GAA .AG T.. .T. A.. ... AG. ... ..A G.A G.G .A. ... TT. G.T G.C TAT CAA AG. ... ACA TCT ... #U42720_SIVcpzANT CAG ..A .A. .A. A.C T.. C.. AT. ... ..T ..G ..A ..A G.G .G. ... A.. ..G GA. T.A .AT ... C.A ..C A.. ... #X52154_SIVcpzGAB1 .AA ... ... G.. ..G T.. ..G G.. ... ... TC. ..A ..A G.G .A. ... ... .GG GAC ..A ... ... ... ... ... ... #AF103818_SIVcpzUS TCA AGT CTA TGG AAC TGG TTT GAT ATT ACC AAC TG- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 ... ... T.. ... ..T ... ... ... ... ... CG. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 ..C TCA T.. ... ..T ... ... ..C ..A ..A ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 AGC ... ..T ... G.T ... ... ... ..A ..A C.A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 GAC ... ..G ... .G. ... ... .G. ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 ... ... T.. ... .GT ... ..C A.. ..A ..T C.G ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 G.. ... ..G ... ... ... ... ... ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 G.. GA. T.G ... .G. ... ... ... ..A ..A ..G ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 G.. GA. ..T ... .GT ... C.. ..C ..A ..A C.A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 G.. GAC ..T ... .GT ... C.. ..C ..A ..A ..G ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AY169968_SIVcpzCAM13 G.. TC. T.G ... ... ... ... ..C ..A ... ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370395_SIVcpzMT115 G.T .A. ... ... .G. ... ... ..C ..A ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370403_SIVcpzDP206 GAC ... ..G ... ..T ... ..C A.. ..A ..A ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370405_SIVcpzDP25 GAC ... ..G ... ..T ... ..C A.. ..A ..A ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 ... ... T.G ... ... ... ... ..C ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 ... ... T.G ... ... ... ... ..C ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 G.. ..C ..G ... ..T ... ... ... ... ..A ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 G.. ..C ..G ... ..T ... ... ... ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 A.. .A. ..G ... TCT ... ... ..C ..A T.T ... ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 G.G ..C ..C ... ..T ... ... ..C ..A ..A TCA ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 G.G ..C ..C ... ..T ... ... ..C ..A ..A TCA ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 G.G ..C ..C ... ..T ... ... ..C ..A ..A TCA ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 A.. ..C ..G ... ..T ... ... ..C ..A .GT C.. ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 ... ... T.G ... ... ... ... ..C ... ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 G.T .A. T.. ... .GT ... ... ..C ..A ..A ..T ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 AGC ... ..T ... G.T ... ... ... ..A ..A C.A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 AGC ... ..T ... G.T ... ... ... ..A ..A C.A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 G.. ... T.G ... ..T ... ... A.C ..A ..A ..T ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 G.C TC. ..T ... ..T ... ... ..C ..A ..T ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 G.C TC. A.T ... ..T ... C.. ..C ..A ..T ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 G.. .A. ..G ..A ..T ... ... A.C ..C T.A ..T ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm ... .AC T.C ... TCT ... ..C ... T.C T.A ..A ..G CTA AAC ATT CTT AAA ATA GGA TTC TTA GTA GTA GTA GGT ATC #U42720_SIVcpzANT AGC TCA T.. ... ..T ... ... ..C ..A ..A C.A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 G.C ..C T.G ... ..T ... ... ..C ..A ..A ..A ..- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm ATA GGA CTT AGG TTA CTG TAT ACA ATA TAT AGT TGC ATC GGT AGG GTT AGG CAG GGC TAT TCT CCC TTA TCT CCA CAG #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm ATC CAT ATC CAC CCG TGG AAG GGA CGG CCA GGC AAC GCA GGA GAG CCA GAA GAA GGT GGA GAG AGA GAC AAC GAC AGC #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm TCA GAT TCT TGG CAG AAA GGA TCT GGA ACG AGA CAA AAG AGA GGC AGT TGG AGC AAA CGC TTG ACC AAT TGG CTC TCG #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #L40990_SIVagm ACG TTC AGC ACC TGG CTA TAC AAC ACC TTC CTG ACC CTC CTA ATT CAT CTT AGA GGC GCT TGG CAG TAC ATC CAA TAT #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- --- #AF103818_SIVcpzUS --- --- --- --- --- --- --- --- --- --- --- --- --- --- GCT GTG G #AF115393_SIVcpzCAM3 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AF382828_SIVcpzGAB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AF447763_SIVcpzTAN1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AJ006022_HIV-1_N_YBF30 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AJ271369_SIVcpzCAM5 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #AJ271370_HIV-1_N_YBF106 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AM296488_SIVgorBQ664 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #AM296489_SIVgorCP684 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .A. A.. . #AM296491_SIVgorCP1436 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #AY169968_SIVcpzCAM13 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370395_SIVcpzMT115 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #DQ370403_SIVcpzDP206 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370405_SIVcpzDP25 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370408_SIVcpzEK502 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370411_SIVcpzEK519 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370413_SIVcpzMB23 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... T.. . #DQ370415_SIVcpzMB192 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... T.. . #DQ370416_SIVcpzMB317 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370417_SIVcpzMB245 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ370418_SIVcpzLB186 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ373063_SIVcpzMB66 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ373064_SIVcpzLB7 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ373065_SIVcpzEK505 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ373066_SIVcpzMT145 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #DQ374657_SIVcpzTAN2.69 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #DQ374658_SIVcpzTAN3.1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #K03455_HIV-1_M/B_HXB2 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #L20571_HIV-1_O_MVP5180 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #L20587_HIV-1_O_ANT70 --- --- --- --- --- --- --- --- --- --- --- --- --- --- .T. ... . #M62320_HIV-1_M/A_U455 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... . #L40990_SIVagm GGG CTT GGG GAA CTC AAA ACC GCA GCA CAA GAA GCA CGT CTC ... ... . #U42720_SIVcpzANT --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... A.. . #X52154_SIVcpzGAB1 --- --- --- --- --- --- --- --- --- --- --- --- --- --- ... ... .