A composition for nucleic acid amplification of multiple alleles of HIV polynucleotides comprising: a. the HIV gag forward primer of SEQ ID NO:1 and the HIV gag reverse primers of SEQ ID NOs: 36, 37, 38, 40 and 41; b. the HIV gag forward primer of SEQ ID NO:4 and the HIV gag reverse primers of SEQ ID NOs: 36, 37, 38, 40 and 41; c. the HIV vpr forward primers of SEQ ID NOs: 44 and 48 and the HIV vpr reverse primers of SEQ ID NOs: 196 and 197; d. the HIV vpr forward primers of SEQ ID NOs: 44 and 48 and the HIV vpr reverse primers of SEQ ID NOs: 198, 199 and 200; e. the HIV vpr forward primer of SEQ ID NO: 49 and the HIV vpr reverse primers of SEQ ID NOs: 196 and 197; f. the HIV vpr forward primer of SEQ ID NO: 49 and the HIV vpr reverse primers of SEQ ID NOs: 198, 199 and 200; g. the HIV rev forward primers of SEQ ID NOs: 183 and 184 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; h. the HIV rev forward primers of SEQ ID NOs: 185, 186 and 187 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; i. the HIV rev forward primers of SEQ ID NOs: 188 and 189 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; j. the HIV nef forward primers of SEQ ID NOs: 138, 139 and 204 and the HIV nef reverse primers of SEQ ID NOs: 144, 145 and 146; k. the HIV nef forward primers of SEQ ID NOs: 367, 368, 369, 370 and 371 and the HIV nef reverse primers of SEQ ID NOs: 144, 145 and 146; l. an HIV gag forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 206; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 207 and the HIV gag reverse primers of SEQ ID NOs: 106, 107 and 108; m. an HIV vpr forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 208; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 209 and the HIV vpr reverse primers of SEQ ID NOs: 269, 270, 271, 272 and 273; or n. an HIV nef forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 215; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 216 and the HIV nef reverse primers of SEQ ID NOs: 149, 150 and 151. a. the HIV gag forward primer of SEQ ID NO:1 and the HIV gag reverse primers of SEQ ID NOs: 36, 37, 38, 40 and 41; b. the HIV gag forward primer of SEQ ID NO:4 and the HIV gag reverse primers of SEQ ID NOs: 36, 37, 38, 40 and 41; c. the HIV vpr forward primers of SEQ ID NOs: 44 and 48 and the HIV vpr reverse primers of SEQ ID NOs: 196 and 197; d. the HIV vpr forward primers of SEQ ID NOs: 44 and 48 and the HIV vpr reverse primers of SEQ ID NOs: 198, 199 and 200; e. the HIV vpr forward primer of SEQ ID NO: 49 and the HIV vpr reverse primers of SEQ ID NOs: 196 and 197; f. the HIV vpr forward primer of SEQ ID NO: 49 and the HIV vpr reverse primers of SEQ ID NOs: 198, 199 and 200; g. the HIV rev forward primers of SEQ ID NOs: 183 and 184 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; h. the HIV rev forward primers of SEQ ID NOs: 185, 186 and 187 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; i. the HIV rev forward primers of SEQ ID NOs: 188 and 189 and the HIV rev reverse primers of SEQ ID NOs: 190, 191 and 192; j. the HIV nef forward primers of SEQ ID NOs: 138, 139 and 204 and the HIV nef reverse primers of SEQ ID NOs: 144, 145 and 146; k. the HIV nef forward primers of SEQ ID NOs: 367, 368, 369, 370 and 371 and the HIV nef reverse primers of SEQ ID NOs: 144, 145 and 146; l. an HIV gag forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 206; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 207 and the HIV gag reverse primers of SEQ ID NOs: 106, 107 and 108; m. an HIV vpr forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 208; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 209 and the HIV vpr reverse primers of SEQ ID NOs: 269, 270, 271, 272 and 273; or n. an HIV nef forward primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 215; an HIV forward gag primer comprising a 5' portion and a 3' portion, wherein the 5' portion comprises a promoter and a Kozak sequence and the 3' portion consists essentially of SEQ ID NO: 216 and the HIV nef reverse primers of SEQ ID NOs: 149, 150 and 151.