RID: 1B6KZT0K016 Job Title:Protein Sequence Program: BLASTP Database: swissprot Non-redundant UniProtKB/SwissProt sequences Query #1: unnamed protein product Query ID: lcl|Query_10190861 Length: 560 Sequences producing significant alignments: Scientific Common Max Total Query E Per. Acc. Description Name Name Taxid Score Score cover Value Ident Len Accession RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF30 NA 388818 1154 1154 100% 0.0 100.00 1449 O91080.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF106 NA 388819 1090 1090 100% 0.0 93.21 1449 Q9IDV9.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz EK505 NA 388912 1062 1062 100% 0.0 89.29 1448 Q1A249.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz MB66 NA 388911 1041 1041 100% 0.0 87.50 1438 Q1A267.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11701 1040 1040 100% 0.0 88.04 1436 P05959.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_96... NA 388906 1032 1032 100% 0.0 86.96 1430 Q9QBY3.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388815 1031 1031 100% 0.0 86.79 1430 Q9QBZ5.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_90... NA 388826 1030 1030 100% 0.0 86.43 1435 O93215.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11688 1029 1029 100% 0.0 86.96 1439 P20875.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11697 1029 1029 100% 0.0 86.25 1440 P04588.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388823 1028 1028 100% 0.0 86.43 1434 Q9QBZ1.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_89.6 NA 401671 1028 1028 100% 0.0 88.39 1435 Q73368.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_97... NA 388907 1026 1026 100% 0.0 86.43 1429 Q9QBZ9.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_VI991 NA 388888 1022 1022 100% 0.0 86.25 1436 Q9Q720.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_9... NA 388814 1021 1021 100% 0.0 85.89 1430 O89290.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11683 1021 1021 100% 0.0 87.86 1436 P12499.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_AR... NA 11685 1021 1021 100% 0.0 88.21 1437 P03369.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11698 1019 1019 100% 0.0 87.68 1435 P12497.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_HXB2R NA 11706 1015 1015 100% 0.0 86.79 1435 P04585.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11699 1014 1014 100% 0.0 87.14 1434 P20892.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11695 1014 1014 100% 0.0 87.50 1432 P18802.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388904 1014 1014 100% 0.0 85.00 1432 Q9WC63.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_SE... NA 388824 1013 1013 100% 0.0 84.29 1433 O89940.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11686 1013 1013 100% 0.0 86.61 1447 P03367.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11678 1012 1012 100% 0.0 86.61 1447 P03366.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388905 1012 1012 100% 0.0 85.00 1432 Q9WC54.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 82834 1011 1011 100% 0.0 86.61 1435 P0C6F2.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_MN NA 11696 1009 1009 100% 0.0 86.96 1441 P05961.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 362651 1008 1008 100% 0.0 86.25 1435 P35963.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11682 1008 1008 100% 0.0 86.25 1447 P04587.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_92... NA 388812 1006 1006 100% 0.0 86.25 1431 O12158.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_V... NA 388813 1006 1006 100% 0.0 83.78 1430 Q9QSR3.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11689 1003 1003 100% 0.0 85.89 1435 P04589.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_92... NA 388825 998 998 100% 0.0 83.93 1435 O41798.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz GAB1 NA 402771 995 995 100% 0.0 85.00 1384 P17283.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11703 994 994 100% 0.0 85.54 1428 P24740.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_ET... NA 388796 990 990 100% 0.0 85.00 1439 Q75002.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_MVP5180 NA 388816 959 959 100% 0.0 80.00 1446 Q79666.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_ANT70 NA 327105 923 923 100% 0.0 79.11 1435 Q77373.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz TAN1 NA 388910 855 855 100% 0.0 71.25 1462 Q8AII1.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11738 734 734 100% 0.0 61.25 1449 P19505.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11727 730 730 99% 0.0 60.97 1470 P27973.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11737 729 729 100% 0.0 60.89 1449 P12502.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11720 728 728 100% 0.0 62.14 1464 P04584.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11717 725 725 100% 0.0 62.14 1464 P18042.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_UC1 NA 388822 724 724 100% 0.0 60.54 1471 Q76634.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 31684 724 724 100% 0.0 61.54 1472 Q02836.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11732 723 723 99% 0.0 60.50 1441 P22382.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11718 723 723 100% 0.0 61.96 1462 P12451.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11714 722 722 100% 0.0 61.79 1550 P18096.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11734 721 721 100% 0.0 60.18 1448 P05897.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 73484 720 720 100% 0.0 61.07 1463 Q74120.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_EHO NA 388821 719 719 100% 0.0 60.18 1464 Q89928.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11721 719 719 100% 0.0 60.89 1463 P20876.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11733 719 719 100% 0.0 60.00 1448 P05896.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11715 718 718 100% 0.0 61.79 1462 P24107.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11713 712 712 100% 0.0 60.18 1462 P17757.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11719 704 704 100% 0.0 60.36 1461 P05962.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11730 698 698 99% 0.0 60.61 1465 P27980.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11731 686 686 99% 0.0 60.68 1467 P05895.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11716 678 678 100% 0.0 57.68 1465 P15833.3 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11675 486 486 98% 2e-159 47.21 1124 P19028.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11674 484 484 98% 3e-158 47.20 1124 P16088.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 31676 477 477 98% 1e-155 45.14 1124 P31822.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11670 414 414 97% 1e-131 44.04 1146 P11204.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 31675 414 414 97% 2e-131 44.04 1146 P32542.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11672 405 405 97% 5e-128 43.49 1145 P03371.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Caprine arth... NA 11661 370 370 98% 4e-115 40.79 1109 P33459.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Ovine lentiv... NA 11664 366 366 97% 7e-114 40.51 1086 P16901.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Jembrana dis... NA 36370 368 368 99% 1e-112 39.75 1432 Q82851.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna/maedi ... NA 36374 364 364 98% 1e-110 39.78 1506 P35956.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11743 363 363 98% 1e-110 39.60 1506 P23426.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11744 362 362 98% 5e-110 39.60 1506 P23427.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11742 362 362 98% 7e-110 39.60 1506 P03370.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Bovine immun... NA 417296 348 348 99% 4e-105 38.71 1475 P19560.2 RecName: Full=Endogenous retrovirus group K member 7 Pol... Homo sapiens human 9606 197 197 96% 8e-53 29.49 1459 P63135.1 RecName: Full=Endogenous retrovirus group K member 18 Pol... Homo sapiens human 9606 195 195 96% 1e-52 28.84 812 Q9QC07.2 RecName: Full=Endogenous retrovirus group K member 11 Pol... Homo sapiens human 9606 196 196 96% 1e-52 29.01 969 Q9UQG0.2 RecName: Full=Endogenous retrovirus group K member 8 Pol... Homo sapiens human 9606 195 195 96% 3e-52 29.01 956 P63133.1 RecName: Full=Endogenous retrovirus group K member 6 Pol... Homo sapiens human 9606 193 193 96% 1e-51 28.50 956 Q9BXR3.2 RecName: Full=Endogenous retrovirus group K member 25 Pol... Homo sapiens human 9606 192 192 96% 3e-51 29.01 954 P63136.1 RecName: Full=Endogenous retrovirus group K member 10 Pol... Homo sapiens human 9606 192 192 96% 3e-51 28.55 1014 P10266.2 RecName: Full=Endogenous retrovirus group K member 113 Pol... Homo sapiens human 9606 185 185 96% 9e-49 28.55 959 P63132.2 RecName: Full=Endogenous retrovirus group K member 19 Pol... Homo sapiens human 9606 184 184 96% 2e-48 28.52 959 Q9WJR5.2 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Mouse intrac... NA 11753 177 177 96% 3e-46 27.89 867 P11368.1 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Jaagsiekte s... NA 11746 177 177 87% 9e-46 27.06 1726 P31623.2 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Golden hamst... NA 11752 173 173 52% 5e-45 36.39 863 P04026.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 11888 163 163 46% 3e-41 38.17 1603 P03354.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 269447 162 162 46% 6e-41 38.17 1603 O92956.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 363745 162 162 46% 9e-41 38.17 1603 Q04095.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 11864 161 161 46% 1e-40 38.17 1603 Q7SQ98.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Squirrel mon... NA 11856 158 158 54% 1e-39 33.88 1880 P03364.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 39068 153 153 44% 6e-38 36.18 1768 P51517.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 406769 152 152 50% 2e-37 32.87 1440 Q4U0X6.4 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-3 strai... NA 402036 149 149 53% 2e-36 33.23 1440 Q0R5R2.3 RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr180;... Mason-Pfizer... NA 11855 148 148 44% 2e-36 35.22 1771 P07572.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 11927 148 148 48% 3e-36 33.09 1462 P14078.3 RecName: Full=Pol polyprotein [Simian immunodeficiency virus... Simian immun... NA 11729 131 131 18% 1e-35 54.55 100 P12501.1 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 11942 145 145 44% 2e-35 35.22 1772 P04025.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-1 isola... NA 402046 145 145 46% 2e-35 32.82 1462 P0C211.2 Alignments: >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 N_YBF30] Sequence ID: O91080.3 Length: 1449 Range 1: 598 to 1157 Score:1154 bits(2986), Expect:0.0, Method:Compositional matrix adjust., Identities:560/560(100%), Positives:560/560(100%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI Sbjct 598 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 657 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL Sbjct 658 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 717 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII Sbjct 718 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 777 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 778 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 837 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE Sbjct 838 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 897 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA Sbjct 898 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 957 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP Sbjct 958 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 1017 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ Sbjct 1018 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 1077 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK Sbjct 1078 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 1137 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRKIL Sbjct 1138 GIGGNEQVDKLVSSGIRKIL 1157 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 N_YBF106] Sequence ID: Q9IDV9.3 Length: 1449 Range 1: 598 to 1157 Score:1090 bits(2819), Expect:0.0, Method:Compositional matrix adjust., Identities:522/560(93%), Positives:545/560(97%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGP+VKQWPLT EKIEALREICTEMEKEGKISRIGPENPYNTPI Sbjct 598 PISPIETVPVKLKPGMDGPRVKQWPLTAEKIEALREICTEMEKEGKISRIGPENPYNTPI 657 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQ+FWEVQLGIPHPAGLKQKKSVTV DVGDAYFSCPL Sbjct 658 FAIKKKDSTKWRKLVDFRELNKRTQEFWEVQLGIPHPAGLKQKKSVTVXDVGDAYFSCPL 717 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+KHPEIII Sbjct 718 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKKHPEIII 777 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+AQHRE VE+LR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 778 YQYMDDLYVGSDLEIAQHRETVEELRGHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 837 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPIKLPEK+VWTVNDIQKLVGKLNWASQIYPGI+VKQLCKLIRGTKALTEVV FT+EAE Sbjct 838 VQPIKLPEKEVWTVNDIQKLVGKLNWASQIYPGIKVKQLCKLIRGTKALTEVVTFTQEAE 897 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEPLHGVYYDPGKEL+AEIQKQGQGQWTYQIYQE +KNLKTGKYAK RSA Sbjct 898 LELAENREILKEPLHGVYYDPGKELIAEIQKQGQGQWTYQIYQEPYKNLKTGKYAKXRSA 957 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDIK+L VV+KVATESIVIWGKTPKF+LPVQKEVWE WWT+HWQATWIPEWEFVNTP Sbjct 958 HTNDIKELAAVVQKVATESIVIWGKTPKFKLPVQKEVWETWWTEHWQATWIPEWEFVNTP 1017 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPISGAET+YVDGAAN+ETKLGKAGFVTDRGRQKVVSI +TTNQKAELQ Sbjct 1018 PLVKLWYQLETEPISGAETYYVDGAANKETKLGKAGFVTDRGRQKVVSIENTTNQKAELQ 1077 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AIL+ALQESG++ NIVTDSQYAMGIIHSQPDKSES+LV QIIEELIKKERVYLSWVPAHK Sbjct 1078 AILLALQESGQEANIVTDSQYAMGIIHSQPDKSESDLVGQIIEELIKKERVYLSWVPAHK 1137 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVD LVSSGIR +L Sbjct 1138 GIGGNEQVDXLVSSGIRXVL 1157 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [SIVcpz EK505] Sequence ID: Q1A249.3 Length: 1448 Range 1: 597 to 1156 Score:1062 bits(2747), Expect:0.0, Method:Compositional matrix adjust., Identities:500/560(89%), Positives:539/560(96%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIET+PVKLKPGMDGP+VKQWPLT EKI+AL EICTEMEKEGKISRIGPENPYNTPI Sbjct 597 PISPIETIPVKLKPGMDGPRVKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYNTPI 656 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFSCPL Sbjct 657 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSCPL 716 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FRKYTAFTIPS+NNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFR+ +PE++I Sbjct 717 DENFRKYTAFTIPSVNNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFRKNNPELVI 776 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHREAVE LR HLL WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 777 YQYMDDLYVGSDLEITQHREAVERLRSHLLTWGFTTPDKKHQKEPPFLWMGYELHPDKWT 836 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ I+LPEKD WTVNDIQ+LVGKLNWASQIYPGI+VKQLCKLIRG KALTEVV T EAE Sbjct 837 VQTIQLPEKDTWTVNDIQQLVGKLNWASQIYPGIKVKQLCKLIRGAKALTEVVTLTREAE 896 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HG YY+P KEL+AEIQKQGQGQWTYQIYQ+LHKNLKTGKYAKMRS Sbjct 897 LELAENREILKEPVHGAYYNPDKELIAEIQKQGQGQWTYQIYQDLHKNLKTGKYAKMRST 956 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDI+QL EVV+KVA ESIVIWGKTPKFRLPVQKEVWE WWT++WQATWIP+WEFVNTP Sbjct 957 HTNDIRQLTEVVQKVALESIVIWGKTPKFRLPVQKEVWETWWTEYWQATWIPDWEFVNTP 1016 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPISGAET+YVDGAANRETKLGKAGFVTDRGRQKV SI++TTNQ+AELQ Sbjct 1017 PLVKLWYQLETEPISGAETYYVDGAANRETKLGKAGFVTDRGRQKVTSISETTNQQAELQ 1076 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A+LMALQ++G++VNIVTDSQY +GIIHSQPDKSESELV+QIIEELIKKER+YLSWVPAHK Sbjct 1077 AVLMALQDAGQEVNIVTDSQYVLGIIHSQPDKSESELVNQIIEELIKKERIYLSWVPAHK 1136 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQ+DKLVS+GIRK+L Sbjct 1137 GIGGNEQIDKLVSTGIRKVL 1156 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [SIVcpz MB66] Sequence ID: Q1A267.4 Length: 1438 Range 1: 587 to 1146 Score:1041 bits(2691), Expect:0.0, Method:Compositional matrix adjust., Identities:490/560(88%), Positives:532/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPV LKPGMDGP+VKQWPLT EKI AL EICTEMEKEGKISR+GPENPYNTPI Sbjct 587 PISPIETVPVSLKPGMDGPRVKQWPLTEEKIRALTEICTEMEKEGKISRVGPENPYNTPI 646 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL Sbjct 647 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 706 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FRKYTAFTIPS+NNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++PEIII Sbjct 707 DENFRKYTAFTIPSVNNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIII 766 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDL++ HRE VE+LR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 767 YQYMDDLYVGSDLKIELHREKVEELRAHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 826 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK+ WTVNDIQKL+GKLNWA QIYPGIRVKQLCKLIRGTKALTEVV FT EAE Sbjct 827 VQPIQLPEKESWTVNDIQKLIGKLNWACQIYPGIRVKQLCKLIRGTKALTEVVTFTTEAE 886 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HG YYDP KEL+AEIQKQGQGQWTYQI+QE +KNLKTGKYA+MRSA Sbjct 887 LELAENREILKEPVHGAYYDPSKELIAEIQKQGQGQWTYQIFQEQYKNLKTGKYARMRSA 946 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+KVA ESIVIWGK P+FRLP+QKE WEAWWTD+WQATWIPEWE+VNTP Sbjct 947 HTNDVKQLTEVVQKVALESIVIWGKVPRFRLPIQKETWEAWWTDYWQATWIPEWEYVNTP 1006 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE +PI GAETFYVDGAANRETKLGKAG+VTD+GRQK++S+ +TTNQKAELQ Sbjct 1007 PLVKLWYQLEQDPIPGAETFYVDGAANRETKLGKAGYVTDKGRQKIISLTETTNQKAELQ 1066 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+S +VNIVTDSQYA+GII QPD SESE+V+QIIEELIKKE+VYLSWVPAHK Sbjct 1067 AIQLALQDSEVEVNIVTDSQYALGIIQGQPDTSESEIVNQIIEELIKKEKVYLSWVPAHK 1126 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQ+DKLVSSGIRK+L Sbjct 1127 GIGGNEQIDKLVSSGIRKVL 1146 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (RF/HAT ISOLATE)] Sequence ID: P05959.3 Length: 1436 Range 1: 589 to 1148 Score:1040 bits(2688), Expect:0.0, Method:Compositional matrix adjust., Identities:493/560(88%), Positives:534/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 589 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 648 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 649 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 708 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DK+FRKYTAFTIPSINNETP IRYQYNVLPQGWKGSPAIFQS+MTKILEPF++++PEI+I Sbjct 709 DKEFRKYTAFTIPSINNETPRIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPEIVI 768 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 769 YQYMDDLYVGSDLEIGQHRIKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 828 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEVV T+EAE Sbjct 829 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVVQLTKEAE 888 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 889 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 948 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+KVATESIVIWGKTPKF+LP+QKE WEAWWT++WQATWIPEWEFVNTP Sbjct 949 HTNDVKQLTEAVQKVATESIVIWGKTPKFKLPIQKETWEAWWTEYWQATWIPEWEFVNTP 1008 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVVS+ DTTNQK ELQ Sbjct 1009 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVSLTDTTNQKTELQ 1068 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1069 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1128 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVD+LVS+GIRK+L Sbjct 1129 GIGGNEQVDRLVSTGIRKVL 1148 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:K_96CM-MP535] Sequence ID: Q9QBY3.3 Length: 1430 Range 1: 583 to 1142 Score:1032 bits(2669), Expect:0.0, Method:Compositional matrix adjust., Identities:487/560(87%), Positives:531/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 583 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPV 642 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 643 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 702 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPG+RYQYNVLPQGWKGSPAIFQ +MTKILEPFR K+PE++I Sbjct 703 DKDFRKYTAFTIPSINNETPGVRYQYNVLPQGWKGSPAIFQHSMTKILEPFRIKNPEMVI 762 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ Q R +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 763 YQYMDDLYVGSDLEIGQPRTKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 822 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+KD WTVNDIQKLVGKLNWASQIYPGI+VKQLCKL+RG KALT++V T EAE Sbjct 823 VQPIQLPDKDSWTVNDIQKLVGKLNWASQIYPGIKVKQLCKLLRGVKALTDIVPLTAEAE 882 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQG QWTYQIYQE HKNLKTGKYA+MRSA Sbjct 883 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGNDQWTYQIYQEPHKNLKTGKYARMRSA 942 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATE IVIWGKTPKFRLP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 943 HTNDVKQLTEAVQKIATEGIVIWGKTPKFRLPIQKETWETWWTEYWQATWIPEWEFVNTP 1002 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAETFYVDGAA+RETK G+AG+VTDRGRQKVVSI +TTNQKAELQ Sbjct 1003 PLVKLWYQLETEPIVGAETFYVDGAAHRETKKGRAGYVTDRGRQKVVSITETTNQKAELQ 1062 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSES+LV+QIIE+LIKKER+YLSWVPAHK Sbjct 1063 AICLALQDSGSEVNIVTDSQYALGIIQAQPDKSESDLVNQIIEQLIKKERIYLSWVPAHK 1122 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1123 GIGGNEQVDKLVSAGIRKVL 1142 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:F2_MP255C] Sequence ID: Q9QBZ5.3 Length: 1430 Range 1: 583 to 1142 Score:1031 bits(2665), Expect:0.0, Method:Compositional matrix adjust., Identities:486/560(87%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGP+VKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 583 PISPIETVPVKLKPGMDGPRVKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPV 642 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 643 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 702 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DK+FRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQ +MTKILEPFR K+PEI+I Sbjct 703 DKEFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRAKNPEIVI 762 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 763 YQYMDDLYVGSDLEIGQHRTKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 822 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK WTVNDIQKLVGKLNWASQIYPGIR+K LC+L+RG KALT+VV T EAE Sbjct 823 VQPIQLPEKSSWTVNDIQKLVGKLNWASQIYPGIRIKHLCRLLRGAKALTDVVPLTAEAE 882 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREI+KEP+HGVYYDP K+L+AEIQKQG QWTYQIYQE +KNLKTGKYAK +SA Sbjct 883 LELAENREIIKEPVHGVYYDPSKDLIAEIQKQGHDQWTYQIYQEPYKNLKTGKYAKRKSA 942 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K+ATESIVIWGK PKFRLP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 943 HTNDVKQLTEVVQKIATESIVIWGKIPKFRLPIQKETWEIWWTEYWQATWIPEWEFVNTP 1002 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI+GAETFYVDGAANRETKLGKAG+VTDRGRQKVV + +TTNQK ELQ Sbjct 1003 PLVKLWYQLETEPIAGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPLTETTNQKTELQ 1062 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LI+KE+VYLSWVPAHK Sbjct 1063 AIHLALQDSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIQKEKVYLSWVPAHK 1122 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1123 GIGGNEQVDKLVSSGIRKVL 1142 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:H_90CF056] Sequence ID: O93215.4 Length: 1435 Range 1: 588 to 1147 Score:1030 bits(2663), Expect:0.0, Method:Compositional matrix adjust., Identities:484/560(86%), Positives:532/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKISRIGPENPY+TPI Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYSTPI 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSV+VLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVSVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DK+FRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKIL PFRE++PE++I Sbjct 708 DKEFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILAPFREQNPEMVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRAKIEELRAHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ +KLPEKD WTVNDIQKLVGKLNWASQIYP I+VKQLCKL+RG KALT+++ T+EAE Sbjct 828 VQTVKLPEKDSWTVNDIQKLVGKLNWASQIYPNIKVKQLCKLLRGAKALTDIIPLTKEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREIL+EP+HGVYYDP K+L+AEI+KQGQGQWTYQIYQE KNLKTGKYAKMR+A Sbjct 888 LELAENREILREPIHGVYYDPSKDLIAEIRKQGQGQWTYQIYQEPFKNLKTGKYAKMRTA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDIKQL E V+K++TESIVIWGK PKFRLP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 948 HTNDIKQLTEAVQKISTESIVIWGKIPKFRLPIQKETWETWWTEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 LVKLWYQLETEPI+GAET+Y+DGAANRETKLGKAG+VTDRG+QKVVS+ +TTNQK ELQ Sbjct 1008 HLVKLWYQLETEPIAGAETYYIDGAANRETKLGKAGYVTDRGKQKVVSLTETTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIEELIKKE+VYLSWVPAHK Sbjct 1068 AIYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEELIKKEKVYLSWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSG+RK+L Sbjct 1128 GIGGNEQVDKLVSSGVRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (JRCSF ISOLATE)] Sequence ID: P20875.3 Length: 1439 Range 1: 592 to 1151 Score:1029 bits(2661), Expect:0.0, Method:Compositional matrix adjust., Identities:487/560(87%), Positives:528/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 592 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 651 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELN+RTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 652 FAIKKKDSTKWRKLVDFRELNRRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 711 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+III Sbjct 712 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIII 771 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 772 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 831 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEV+ T+EAE Sbjct 832 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVIPLTKEAE 891 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+ EIQKQGQGQWTYQI+QE KNLKTGKYA+ R A Sbjct 892 LELAENREILKEPVHGVYYDPSKDLIVEIQKQGQGQWTYQIFQEPFKNLKTGKYARTRGA 951 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+A ESIVIWGK PKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 952 HTNDVKQLTEAVQKIANESIVIWGKIPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1011 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VT RGRQKVVS+ DTTNQK ELQ Sbjct 1012 PLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTSRGRQKVVSLTDTTNQKTELQ 1071 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1072 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1131 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1132 GIGGNEQVDKLVSAGIRKVL 1151 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (MAL ISOLATE)] Sequence ID: P04588.3 Length: 1440 Range 1: 593 to 1152 Score:1029 bits(2660), Expect:0.0, Method:Compositional matrix adjust., Identities:483/560(86%), Positives:533/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGP+VKQWPLT EKI+AL EIC +MEKEGKI +IGPENPYNTP+ Sbjct 593 PISPIETVPVKLKPGMDGPRVKQWPLTEEKIKALTEICKDMEKEGKILKIGPENPYNTPV 652 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLV+FRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 653 FAIKKKDSTKWRKLVNFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 712 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR K+PEI+I Sbjct 713 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRTKNPEIVI 772 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 773 YQYMDDLYVGSDLEIGQHRTKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 832 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+K+ WTVNDIQKLVGKLNWASQIYPGI+VKQLCKL+RG KALT++V T EAE Sbjct 833 VQPIQLPDKESWTVNDIQKLVGKLNWASQIYPGIKVKQLCKLLRGAKALTDIVPLTAEAE 892 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE +KNLKTGKYA+++SA Sbjct 893 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEQYKNLKTGKYARIKSA 952 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+A ESIVIWGKTPKFRLP+QKE WEAWWT++WQATWIPEWEFVNTP Sbjct 953 HTNDVKQLTEAVQKIAQESIVIWGKTPKFRLPIQKETWEAWWTEYWQATWIPEWEFVNTP 1012 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAETFYVDGAANRETK GKAG+VTDRGRQKVVS+ +TTNQK ELQ Sbjct 1013 PLVKLWYQLETEPIVGAETFYVDGAANRETKKGKAGYVTDRGRQKVVSLTETTNQKTELQ 1072 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESE+V+QIIE+LI+K++VYLSWVPAHK Sbjct 1073 AIHLALQDSGSEVNIVTDSQYALGIIQAQPDKSESEIVNQIIEQLIQKDKVYLSWVPAHK 1132 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1133 GIGGNEQVDKLVSSGIRKVL 1152 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:F2_MP257C] Sequence ID: Q9QBZ1.3 Length: 1434 Range 1: 587 to 1146 Score:1028 bits(2658), Expect:0.0, Method:Compositional matrix adjust., Identities:484/560(86%), Positives:529/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 587 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPV 646 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+K+SVTVLDVGDAYFS PL Sbjct 647 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKRSVTVLDVGDAYFSVPL 706 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DK+FRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+M KILEPFR+++PEI+I Sbjct 707 DKEFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMIKILEPFRKENPEIVI 766 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 767 YQYMDDLYVGSDLEIGQHRAKIEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 826 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ I+LP+K WTVNDIQKLVGKLNWASQIYPGIRVK LCKL+RGTKALT+VV T EAE Sbjct 827 VQAIQLPDKSSWTVNDIQKLVGKLNWASQIYPGIRVKHLCKLLRGTKALTDVVPLTAEAE 886 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQG QWTYQIYQE HKNLKTGKYA+ +SA Sbjct 887 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGHDQWTYQIYQEPHKNLKTGKYARRKSA 946 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+KVATE IVIWGK PKFRLP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 947 HTNDVKQLTEVVQKVATEGIVIWGKVPKFRLPIQKETWEIWWTEYWQATWIPEWEFVNTP 1006 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAETFYVDGAANRETKLGKAG++TDRGRQKVVS+ +TTNQK ELQ Sbjct 1007 PLVKLWYQLETEPIIGAETFYVDGAANRETKLGKAGYITDRGRQKVVSLTETTNQKTELQ 1066 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII + PDKSESE+V+QIIE+LI+KERVYLSWVPAHK Sbjct 1067 AIQLALQDSGSEVNIVTDSQYALGIIQAHPDKSESEIVNQIIEQLIQKERVYLSWVPAHK 1126 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1127 GIGGNEQVDKLVSTGIRKVL 1146 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:B_89.6] Sequence ID: Q73368.3 Length: 1435 Range 1: 588 to 1147 Score:1028 bits(2657), Expect:0.0, Method:Compositional matrix adjust., Identities:495/560(88%), Positives:535/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 708 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +EDLR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRAKIEDLRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEVV TEEAE Sbjct 828 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVVPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AE+QKQGQGQWTYQIYQE +KNLKTGKYA+MR A Sbjct 888 LELAENREILKEPVHGVYYDPTKDLIAELQKQGQGQWTYQIYQEPYKNLKTGKYARMRGA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATESIVIWGKTPKF+LP+QKE WEAWWTD+WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLTEAVQKIATESIVIWGKTPKFKLPIQKETWEAWWTDYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANR+TK GKAG+VTDRGRQKVVS+ADTTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIVGAETFYVDGAANRDTKSGKAGYVTDRGRQKVVSLADTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1128 GIGGNEQVDKLVSAGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:K_97ZR-EQTB11] Sequence ID: Q9QBZ9.2 Length: 1429 Range 1: 583 to 1142 Score:1026 bits(2653), Expect:0.0, Method:Compositional matrix adjust., Identities:484/560(86%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 583 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 642 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKW KLVDFRELNKRT DFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 643 FAIKKKDSTKWIKLVDFRELNKRTPDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 702 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQ +MTKILEPFR K+P++++ Sbjct 703 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRRKNPDMVL 762 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 763 YQYMDDLYVGSDLEIGQHRAKIEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 822 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+KD WTVNDIQKLVGKLNWASQI+PGI+VKQLCKL+RG KALT++V T EAE Sbjct 823 VQPIQLPDKDSWTVNDIQKLVGKLNWASQIFPGIKVKQLCKLLRGVKALTDIVPLTAEAE 882 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQG GQWTYQIYQE +KNLKTGKYA++RSA Sbjct 883 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGHGQWTYQIYQEPYKNLKTGKYARIRSA 942 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+KVA ESIVIWGKTPKFRLP+QKE W WWT++WQATWIPEWEFVNTP Sbjct 943 HTNDVKQLTEVVQKVAMESIVIWGKTPKFRLPIQKETWGTWWTEYWQATWIPEWEFVNTP 1002 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAETFYVDGAANRETK GKAG+VTD+GRQKV+SI +TTNQK ELQ Sbjct 1003 PLVKLWYQLETEPIVGAETFYVDGAANRETKQGKAGYVTDKGRQKVISITETTNQKTELQ 1062 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKK+RVYLSWVPAHK Sbjct 1063 AIHLALQDSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKDRVYLSWVPAHK 1122 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1123 GIGGNEQVDKLVSSGIRKVL 1142 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:H_VI991] Sequence ID: Q9Q720.3 Length: 1436 Range 1: 589 to 1148 Score:1022 bits(2643), Expect:0.0, Method:Compositional matrix adjust., Identities:483/560(86%), Positives:526/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPV LKPGMDGPKVKQWPLT EKI+AL EIC EMEKEGKIS+IGPENPYNTPI Sbjct 589 PISPIETVPVTLKPGMDGPKVKQWPLTEEKIKALTEICLEMEKEGKISKIGPENPYNTPI 648 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKK+ST+WRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSV+VLDVG AYFS PL Sbjct 649 FAIKKKNSTRWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVSVLDVGGAYFSVPL 708 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFRKYTAFTIPS NNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++PE+II Sbjct 709 HEDFRKYTAFTIPSTNNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEVII 768 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHRE +E+LR HLL+WGFTTPD+KHQKEPPFLWMGYELHPDKWT Sbjct 769 YQYMDDLYVGSDLEIGQHREKIEELRAHLLRWGFTTPDQKHQKEPPFLWMGYELHPDKWT 828 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQP+KLPEKD WTVNDIQKLVGKLNWASQIYPGI+VKQLC L+RG KALTE+V T+EAE Sbjct 829 VQPVKLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVKQLCXLLRGAKALTEIVPLTKEAE 888 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HG YYDP KEL+AEIQKQG QWTYQIYQE KNLKTGKYAKMRSA Sbjct 889 LELAENREILKEPVHGAYYDPSKELIAEIQKQGPDQWTYQIYQEPFKNLKTGKYAKMRSA 948 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K+ATESIVIWGK PKFRLP+QKE WE WWT+HWQATWIPEWEFVNTP Sbjct 949 HTNDVKQLTEVVQKIATESIVIWGKIPKFRLPIQKETWETWWTEHWQATWIPEWEFVNTP 1008 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 LVKLWYQLETEPI GAET+YVDGAANRETK+GKAG+VTDRG+QK+VS+ +TTNQK ELQ Sbjct 1009 HLVKLWYQLETEPIEGAETYYVDGAANRETKMGKAGYVTDRGKQKIVSLTETTNQKTELQ 1068 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQESG +VNIVTDSQYA+GII +QPDKSESELV+QIIEELIKKE+ YLSWVPAHK Sbjct 1069 AIYLALQESGPEVNIVTDSQYALGIIQAQPDKSESELVNQIIEELIKKEKFYLSWVPAHK 1128 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1129 GIGGNEQVDKLVSSGIRKVL 1148 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:F1_93BR020] Sequence ID: O89290.3 Length: 1430 Range 1: 583 to 1142 Score:1021 bits(2641), Expect:0.0, Method:Compositional matrix adjust., Identities:481/560(86%), Positives:526/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EIC EMEKEGKIS+IGPENPYNTP+ Sbjct 583 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICMEMEKEGKISKIGPENPYNTPV 642 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 643 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 702 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTA TIPS NNETPG+RYQYNVLPQGWKGSPAIFQ +MTKIL+PFR K+P+I+I Sbjct 703 DKDFRKYTASTIPSTNNETPGVRYQYNVLPQGWKGSPAIFQYSMTKILDPFRAKNPDIVI 762 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 763 YQYMDDLYVGSDLEIGQHRTKIEELREHLLKWGLTTPDKKHQKEPPFLWMGYELHPDKWT 822 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+KD WTVNDIQKLVGKLNWASQIYPGI+VKQLCKL+RG KALT++V T EAE Sbjct 823 VQPIQLPDKDSWTVNDIQKLVGKLNWASQIYPGIKVKQLCKLLRGAKALTDIVPLTTEAE 882 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HG YYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYAKMRSA Sbjct 883 LELAENREILKEPVHGAYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYAKMRSA 942 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K++ ESIVIWGKTPKFRLP+ KE W+ WWT++WQATWIPEWEFVNTP Sbjct 943 HTNDVKQLTEAVQKISLESIVIWGKTPKFRLPILKETWDTWWTEYWQATWIPEWEFVNTP 1002 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAETFYVDGA+NRETK GKAG+VTDRGRQK VS+ +TTNQKAELQ Sbjct 1003 PLVKLWYQLETEPIVGAETFYVDGASNRETKKGKAGYVTDRGRQKAVSLTETTNQKAELQ 1062 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYLSWVPAHK Sbjct 1063 AIQLALQDSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLSWVPAHK 1122 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1123 GIGGNEQVDKLVSAGIRKVL 1142 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (Z2/CDC-Z34 ISOLATE)] Sequence ID: P12499.3 Length: 1436 Range 1: 589 to 1148 Score:1021 bits(2639), Expect:0.0, Method:Compositional matrix adjust., Identities:492/560(88%), Positives:531/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKISR+GPENPYNTPI Sbjct 589 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISRVGPENPYNTPI 648 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 649 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 708 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++PEI+I Sbjct 709 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIVI 768 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 769 YQYMDDLYVGSDLEIGQHRTKIEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 828 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ IKLPEK+ WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 829 VQSIKLPEKESWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 888 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQG GQWTYQIYQE KNLKTGKYA+MR A Sbjct 889 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGHGQWTYQIYQEPFKNLKTGKYARMRGA 948 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K++TESIVIWGKTPKFRLP+QKE WE WW ++WQATWIPEWEFVNTP Sbjct 949 HTNDVKQLAEVVQKISTESIVIWGKTPKFRLPIQKETWETWWVEYWQATWIPEWEFVNTP 1008 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVV DTTNQK ELQ Sbjct 1009 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQ 1068 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1069 AINLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1128 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS GIRK+L Sbjct 1129 GIGGNEQVDKLVSQGIRKVL 1148 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:B_ARV2/SF2] Sequence ID: P03369.3 Length: 1437 Range 1: 590 to 1149 Score:1021 bits(2639), Expect:0.0, Method:Compositional matrix adjust., Identities:494/560(88%), Positives:532/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 590 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 649 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 650 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 709 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 710 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 769 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 770 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 829 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEV+ TEEAE Sbjct 830 VQPIMLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVIPLTEEAE 889 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+H VYYDP K+LVAEIQKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 890 LELAENREILKEPVHEVYYDPSKDLVAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 949 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+KV+TESIVIWGK PKF+LP+QKE WEAWW ++WQATWIPEWEFVNTP Sbjct 950 HTNDVKQLTEAVQKVSTESIVIWGKIPKFKLPIQKETWEAWWMEYWQATWIPEWEFVNTP 1009 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVVSIADTTNQK ELQ Sbjct 1010 PLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTDRGRQKVVSIADTTNQKTELQ 1069 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1070 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1129 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1130 GIGGNEQVDKLVSAGIRKVL 1149 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (NEW YORK-5 ISOLATE)] Sequence ID: P12497.4 Length: 1435 Range 1: 588 to 1147 Score:1019 bits(2634), Expect:0.0, Method:Compositional matrix adjust., Identities:491/560(88%), Positives:531/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQ +MTKILEPFR+++P+I+I Sbjct 708 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRKQNPDIVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+V+QLCKL+RGTKALTEVV TEEAE Sbjct 828 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVRQLCKLLRGTKALTEVVPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+M+ A Sbjct 888 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMKGA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATESIVIWGKTPKF+LP+QKE WEAWWT++WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLTEAVQKIATESIVIWGKTPKFKLPIQKETWEAWWTEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVV + DTTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPLTDTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVD LVS+GIRK+L Sbjct 1128 GIGGNEQVDGLVSAGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:B_HXB2R] Sequence ID: P04585.4 Length: 1435 Range 1: 588 to 1147 Score:1015 bits(2624), Expect:0.0, Method:Compositional matrix adjust., Identities:486/560(87%), Positives:532/560(95%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 708 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 828 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 888 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ TESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VT+RGRQKVV++ DTTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPD+SESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AIYLALQDSGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1128 GIGGNEQVDKLVSAGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (OYI ISOLATE)] Sequence ID: P20892.3 Length: 1434 Range 1: 587 to 1146 Score:1014 bits(2623), Expect:0.0, Method:Compositional matrix adjust., Identities:488/560(87%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+ L EICTEMEKEGKIS++GPENPYNTP+ Sbjct 587 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKVLIEICTEMEKEGKISKVGPENPYNTPV 646 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 647 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 706 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 707 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 766 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 767 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 826 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VK LCKL+RGTKALTEV+ TEEAE Sbjct 827 VQPIMLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKNLCKLLRGTKALTEVIPLTEEAE 886 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+LVAE+QKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 887 LELAENREILKEPVHGVYYDPSKDLVAELQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 946 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ ESIVIWGKTPKF+LP+QKE WEAWWT++WQATWIPEWEFVNTP Sbjct 947 HTNDVKQLTEAVQKITQESIVIWGKTPKFKLPIQKETWEAWWTEYWQATWIPEWEFVNTP 1006 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE +PI GAETFYVDGAANRETKLGKAG+VTDRGRQKVVS+ DTTNQK ELQ Sbjct 1007 PLVKLWYQLEKDPIVGAETFYVDGAANRETKLGKAGYVTDRGRQKVVSLTDTTNQKTELQ 1066 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1067 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1126 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1127 GIGGNEQVDKLVSAGIRKVL 1146 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (NDK ISOLATE)] Sequence ID: P18802.3 Length: 1432 Range 1: 585 to 1144 Score:1014 bits(2622), Expect:0.0, Method:Compositional matrix adjust., Identities:490/560(88%), Positives:528/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKISRIGPENPYNTPI Sbjct 585 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYNTPI 644 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 645 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 704 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++PEI+I Sbjct 705 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIVI 764 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 765 YQYMDDLYVGSDLEIGQHRTKIEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 824 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEK+ WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEVV TEEAE Sbjct 825 VQPINLPEKESWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVVPLTEEAE 884 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AE+QKQG GQWTYQIYQE KNLKTGKYA+ R A Sbjct 885 LELAENREILKEPVHGVYYDPSKDLIAELQKQGDGQWTYQIYQEPFKNLKTGKYARTRGA 944 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATESIVIWGKTPKF+LP+QKE WE WW ++WQATWIPEWEFVNTP Sbjct 945 HTNDVKQLTEAVQKIATESIVIWGKTPKFKLPIQKETWETWWIEYWQATWIPEWEFVNTP 1004 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVV DTTNQK ELQ Sbjct 1005 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQ 1064 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1065 AINLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1124 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS GIRK+L Sbjct 1125 GIGGNEQVDKLVSQGIRKVL 1144 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:J_SE9173] Sequence ID: Q9WC63.3 Length: 1432 Range 1: 585 to 1144 Score:1014 bits(2621), Expect:0.0, Method:Compositional matrix adjust., Identities:476/560(85%), Positives:528/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPK+KQWPLT EKI+AL +IC E+E+EGKISRIGPENPYNTP+ Sbjct 585 PISPIETVPVKLKPGMDGPKIKQWPLTEEKIKALTQICAELEEEGKISRIGPENPYNTPV 644 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 645 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 704 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQ +MTKIL+PFRE++PEI+I Sbjct 705 YEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILKPFRERNPEIVI 764 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +++LR+HLLKWGF TPDKKHQKEPPFLWMGYELHPDKWT Sbjct 765 YQYMDDLYVGSDLEIEQHRRKIKELREHLLKWGFYTPDKKHQKEPPFLWMGYELHPDKWT 824 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK+ WTVNDIQKLVGKLNWASQIYPGI++K+LCKLIRG KALT++V T EAE Sbjct 825 VQPIQLPEKEDWTVNDIQKLVGKLNWASQIYPGIKIKELCKLIRGAKALTDIVPLTREAE 884 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAEN+EILKEP+HGVYYDP +EL+AE+QKQG QWTYQIYQE KNLKTGKYAK RSA Sbjct 885 LELAENKEILKEPVHGVYYDPARELIAEVQKQGLDQWTYQIYQEPFKNLKTGKYAKRRSA 944 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL +VV+K+A E+IVIWGKTPKFRLP+QKE WE WWTD+WQATWIPEWEFVNTP Sbjct 945 HTNDVKQLSQVVQKIALEAIVIWGKTPKFRLPIQKETWETWWTDYWQATWIPEWEFVNTP 1004 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGA+NRETK+GKAG+VTD+GRQKV+++ DTTNQK ELQ Sbjct 1005 PLVKLWYQLEKEPIMGAETFYVDGASNRETKVGKAGYVTDKGRQKVITLTDTTNQKTELQ 1064 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIEELIKKE+VYLSWVPAHK Sbjct 1065 AIYLALQDSGIEVNIVTDSQYALGIIQAQPDKSESELVNQIIEELIKKEKVYLSWVPAHK 1124 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1125 GIGGNEQVDKLVSSGIRKVL 1144 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:G_SE6165] Sequence ID: O89940.3 Length: 1433 Range 1: 586 to 1145 Score:1013 bits(2620), Expect:0.0, Method:Compositional matrix adjust., Identities:472/560(84%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGP+VKQWPLT EKI+AL EIC EME+EGKIS+IGPENPYNTPI Sbjct 586 PISPIETVPVKLKPGMDGPRVKQWPLTEEKIKALTEICKEMEEEGKISKIGPENPYNTPI 645 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 646 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 705 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPG+RYQYNVLPQGWKGSPAIFQS+MT+ILEPFR +PE++I Sbjct 706 DEDFRKYTAFTIPSINNETPGVRYQYNVLPQGWKGSPAIFQSSMTRILEPFRANNPEMVI 765 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 766 YQYMDDLYVGSDLEIGQHRAKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 825 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+K+ WTVNDIQKLVGKLNWASQIYPGI+V LCKL+RG KALT++V+ T EAE Sbjct 826 VQPIQLPDKESWTVNDIQKLVGKLNWASQIYPGIKVTHLCKLLRGAKALTDIVSLTAEAE 885 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 +ELAENREIL+EP+HGVYYDP KEL+AE+QKQG QWTYQIYQE +KNLKTGKYAK SA Sbjct 886 MELAENREILREPVHGVYYDPSKELIAEVQKQGLDQWTYQIYQEPYKNLKTGKYAKRGSA 945 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K+ATESIVIWGKTPKF+LP++KE WE WWTD+WQATWIPEWEFVNTP Sbjct 946 HTNDVKQLTEVVQKIATESIVIWGKTPKFKLPIRKETWEIWWTDYWQATWIPEWEFVNTP 1005 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWY+LETEPI GAET+YVDGAANRETKLGKAG+VTD+G+QK++++ +TTNQKAELQ Sbjct 1006 PLVKLWYRLETEPIPGAETYYVDGAANRETKLGKAGYVTDKGKQKIITLTETTNQKAELQ 1065 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+S +VNIVTDSQYA+GII +QPD+SE+ELV+QIIE+LIKKE+VYLSWVPAHK Sbjct 1066 AIQLALQDSRSEVNIVTDSQYALGIIQAQPDRSEAELVNQIIEQLIKKEKVYLSWVPAHK 1125 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1126 GIGGNEQVDKLVSSGIRKVL 1145 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (BRU ISOLATE)] Sequence ID: P03367.3 Length: 1447 Range 1: 600 to 1159 Score:1013 bits(2619), Expect:0.0, Method:Compositional matrix adjust., Identities:485/560(87%), Positives:531/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 600 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 659 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 660 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 719 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 720 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 779 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 780 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 839 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 840 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 899 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+ R A Sbjct 900 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARTRGA 959 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ TESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 960 HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1019 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAA+RETKLGKAG+VT+RGRQKVV++ DTTNQK ELQ Sbjct 1020 PLVKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQ 1079 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1080 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 1139 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1140 GIGGNEQVDKLVSAGIRKVL 1159 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 BH10] Sequence ID: P03366.3 Length: 1447 Range 1: 600 to 1159 Score:1012 bits(2617), Expect:0.0, Method:Compositional matrix adjust., Identities:485/560(87%), Positives:531/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 600 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 659 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 660 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 719 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPF++++P+I+I Sbjct 720 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVI 779 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 780 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 839 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 840 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 899 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 900 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 959 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ TESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 960 HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1019 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VT++GRQKVV + +TTNQK ELQ Sbjct 1020 PLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQ 1079 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1080 AIYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 1139 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRKIL Sbjct 1140 GIGGNEQVDKLVSAGIRKIL 1159 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:J_SE9280] Sequence ID: Q9WC54.3 Length: 1432 Range 1: 585 to 1144 Score:1012 bits(2617), Expect:0.0, Method:Compositional matrix adjust., Identities:476/560(85%), Positives:526/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPK+KQWPLT EKI+AL +IC EME+EGKISR+GPENPYNTP+ Sbjct 585 PISPIETVPVKLKPGMDGPKIKQWPLTEEKIKALTQICAEMEEEGKISRVGPENPYNTPV 644 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 645 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 704 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQ +MTKIL+PFRE++PEI+I Sbjct 705 YEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILKPFRERNPEIVI 764 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +++LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 765 YQYMDDLYVGSDLEIEQHRRKIKELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 824 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK+ WTVNDIQKLVGKLNWASQIYPGI+VKQLCKL++G KALT++V T EAE Sbjct 825 VQPIQLPEKEDWTVNDIQKLVGKLNWASQIYPGIKVKQLCKLLKGAKALTDIVPLTREAE 884 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAEN+EILKEP+HGVYYD KEL+AE+QKQG QWTYQIYQE KNLKTGKYAK RSA Sbjct 885 LELAENKEILKEPVHGVYYDSAKELIAEVQKQGLDQWTYQIYQEPFKNLKTGKYAKRRSA 944 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K+A E+IVIWGKTPKFRLP+Q+E WE WWTD+WQATWIPEWEFVNTP Sbjct 945 HTNDVKQLAEVVQKIALEAIVIWGKTPKFRLPIQRETWETWWTDYWQATWIPEWEFVNTP 1004 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGA+NRETK GKAG+VTD+GRQKVV++ DTTNQK EL Sbjct 1005 PLVKLWYQLEKEPIMGAETFYVDGASNRETKTGKAGYVTDKGRQKVVTLTDTTNQKTELH 1064 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +AL++SG +VNIVTDSQYA+GII +QPDKSESELV+QIIEELIKKE+VYLSWVPAHK Sbjct 1065 AIYLALRDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEELIKKEKVYLSWVPAHK 1124 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1125 GIGGNEQVDKLVSSGIRKVL 1144 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 lw12.3 isolate] Sequence ID: P0C6F2.1 Length: 1435 Range 1: 588 to 1147 Score:1011 bits(2615), Expect:0.0, Method:Compositional matrix adjust., Identities:485/560(87%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 708 DEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 828 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+MR Sbjct 888 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGT 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ TESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VT++GRQKVV + +TTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIVGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPLTNTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AIYLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRKIL Sbjct 1128 GIGGNEQVDKLVSAGIRKIL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:B_MN] Sequence ID: P05961.3 Length: 1441 Range 1: 594 to 1153 Score:1009 bits(2610), Expect:0.0, Method:Compositional matrix adjust., Identities:487/560(87%), Positives:529/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 594 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPV 653 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNK+TQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 654 FAIKKKDSTKWRKLVDFRELNKKTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 713 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 714 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 773 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 774 YQYMDDLYVGSDLEIGQHRAKIEELRRHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 833 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RGTKALTEV+ TEEAE Sbjct 834 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGTKALTEVIPLTEEAE 893 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AE+QKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 894 LELAENREILKEPVHGVYYDPSKDLIAEVQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 953 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATESIVIWGKTPKFRLP+QKE WE WWT++ ATWIPEWE VNTP Sbjct 954 HTNDVKQLTEAVQKIATESIVIWGKTPKFRLPIQKETWETWWTEYTXATWIPEWEVVNTP 1013 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETK GKAG+VT+RGRQKVVS+ DTTNQK ELQ Sbjct 1014 PLVKLWYQLEKEPIVGAETFYVDGAANRETKKGKAGYVTNRGRQKVVSLTDTTNQKTELQ 1073 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1074 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIEQLIKKEKVYLAWVPAHK 1133 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1134 GIGGNEQVDKLVSAGIRKVL 1153 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (isolate YU2)] Sequence ID: P35963.3 Length: 1435 Range 1: 588 to 1147 Score:1008 bits(2606), Expect:0.0, Method:Compositional matrix adjust., Identities:483/560(86%), Positives:529/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFRKYTAFTIPSINNETPG RYQYNVLPQGWKGSPAIFQS+MT ILEPFR+++P+++I Sbjct 708 HEDFRKYTAFTIPSINNETPGTRYQYNVLPQGWKGSPAIFQSSMTTILEPFRKQNPDLVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI LPEKD WTVNDIQKLVGKLNWASQIY GI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 828 VQPIVLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVRQLCKLLRGTKALTEVIPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+ R A Sbjct 888 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARTRGA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ATESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLTEAVQKIATESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VT++GRQKVVS+ DTTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTNKGRQKVVSLTDTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPD+SESELVSQIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AIYLALQDSGLEVNIVTDSQYALGIIQAQPDRSESELVSQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1128 GIGGNEQVDKLVSAGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (BH5 ISOLATE)] Sequence ID: P04587.3 Length: 1447 Range 1: 600 to 1159 Score:1008 bits(2606), Expect:0.0, Method:Compositional matrix adjust., Identities:483/560(86%), Positives:530/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICTEMEKEGKIS+IGPENPYNTP+ Sbjct 600 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV 659 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELN+RTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 660 FAIKKKDSTKWRKLVDFRELNRRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 719 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTIPSINNETPG YQYNVLPQGWKGSPAIFQS+MTKILEPFR+++P+I+I Sbjct 720 DEDFRKYTAFTIPSINNETPGSGYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVI 779 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL+WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 780 YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWT 839 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +QPI LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 840 IQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 899 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQGQWTYQIYQE KNLKTGKYA+MR A Sbjct 900 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYARMRGA 959 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V+K+ TESIVIWGKTPKF+LP+QKE WE WWT++WQATWIPEWEFVNTP Sbjct 960 HTNDVKQLTEAVQKITTESIVIWGKTPKFKLPIQKETWETWWTEYWQATWIPEWEFVNTP 1019 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAA+RETKLGKAG+VT+RGRQKVV++ TTNQK ELQ Sbjct 1020 PLVKLWYQLEKEPIVGAETFYVDGAASRETKLGKAGYVTNRGRQKVVTLTHTTNQKTELQ 1079 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1080 AIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 1139 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRKIL Sbjct 1140 GIGGNEQVDKLVSAGIRKIL 1159 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:C_92BR025] Sequence ID: O12158.2 Length: 1431 Range 1: 584 to 1143 Score:1006 bits(2602), Expect:0.0, Method:Compositional matrix adjust., Identities:483/560(86%), Positives:528/560(94%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQW LT EKI+AL IC EME+EGKI++IGPENPYNTP+ Sbjct 584 PISPIETVPVKLKPGMDGPKVKQWLLTEEKIKALTAICDEMEREGKITKIGPENPYNTPV 643 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRT DFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 644 FAIKKKDSTKWRKLVDFRELNKRTWDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 703 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+ FRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSP+IFQS+ TKILEPFR ++PEIII Sbjct 704 DEGFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPSIFQSSTTKILEPFRAQNPEIII 763 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 764 YQYMDDLYVGSDLEIGQHRAKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 823 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RG KALT++V TEEAE Sbjct 824 VQPIQLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGAKALTDIVPLTEEAE 883 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQGQ QWTYQIYQE KNLKTGKYAKMR+A Sbjct 884 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGQNQWTYQIYQEPFKNLKTGKYAKMRTA 943 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND++QL E V+K+A ESI+IWGKTPKFRLP+QKE WEAWWTD+WQATWIPEWEFVNTP Sbjct 944 HTNDVRQLTEAVQKIALESIIIWGKTPKFRLPIQKETWEAWWTDYWQATWIPEWEFVNTP 1003 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI+GAETFYVDGAANRE K+GKAG+VTDRGRQK+VSI +TTNQK ELQ Sbjct 1004 PLVKLWYQLEKEPIAGAETFYVDGAANREIKMGKAGYVTDRGRQKIVSITETTNQKTELQ 1063 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKERVYLSWVPAHK Sbjct 1064 AIQLALQDSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKERVYLSWVPAHK 1123 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1124 GIGGNEQVDKLVSSGIRKVL 1143 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:F1_VI850] Sequence ID: Q9QSR3.3 Length: 1430 Range 1: 582 to 1142 Score:1006 bits(2600), Expect:0.0, Method:Compositional matrix adjust., Identities:470/561(84%), Positives:528/561(94%), Gaps:1/561(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P+SPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EIC EMEKEGKIS+IGPENPYNTP+ Sbjct 582 PVSPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICLEMEKEGKISKIGPENPYNTPV 641 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDS+KWRKLVDF+ELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 642 FAIKKKDSSKWRKLVDFKELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 701 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDF+KYTAFTIPS+NNETPGIRYQYNVLPQGWKGSPAIFQ +MTKILEPFR K+P+I+I Sbjct 702 DKDFKKYTAFTIPSVNNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRMKNPDIVI 761 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLL+WGFTTPDKKHQKEPPFLWMG+ELHPDKWT Sbjct 762 YQYMDDLYVGSDLEIGQHRTKIEELREHLLRWGFTTPDKKHQKEPPFLWMGHELHPDKWT 821 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP KD WTVNDIQKLVGKLNWASQIYPGI+V+ LCKL+RG KALT++V T EAE Sbjct 822 VQPIQLPNKDSWTVNDIQKLVGKLNWASQIYPGIKVRPLCKLLRGAKALTDIVPLTAEAE 881 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELA+NREIL+EP+HGVYYDP K+L+AEIQKQG GQWTYQIYQ KNLKTGKYAK+RSA Sbjct 882 LELAKNREILREPVHGVYYDPSKDLIAEIQKQGDGQWTYQIYQNPFKNLKTGKYAKVRSA 941 Query 361 HTNDIKQLVEVVRKVATESIVIWGK-TPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNT 419 HTND+KQL E V+K+A ESIVIWGK +PKF+LP+ KE W+ WWTD+WQATWIPEWEFVNT Sbjct 942 HTNDVKQLTEAVQKIALESIVIWGKRSPKFKLPILKETWDTWWTDYWQATWIPEWEFVNT 1001 Query 420 PPLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAEL 479 PPLVKLWYQLETEPI+GA+TFYVDGA+NRETK GKAG+VTD+G+QKVVS+ +TTNQKAEL Sbjct 1002 PPLVKLWYQLETEPIAGADTFYVDGASNRETKKGKAGYVTDKGKQKVVSLTETTNQKAEL 1061 Query 480 QAILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAH 539 QAI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESE+V+QIIE+LI+KERVYLSWVPAH Sbjct 1062 QAIYLALQDSGSEVNIVTDSQYALGIIQAQPDKSESEIVNQIIEQLIQKERVYLSWVPAH 1121 Query 540 KGIGGNEQVDKLVSSGIRKIL 560 KGIGGNEQVDKLVS+G+RKIL Sbjct 1122 KGIGGNEQVDKLVSAGVRKIL 1142 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (ELI ISOLATE)] Sequence ID: P04589.3 Length: 1435 Range 1: 588 to 1147 Score:1003 bits(2592), Expect:0.0, Method:Compositional matrix adjust., Identities:481/560(86%), Positives:526/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL EICT+MEKEGKISRIGPENPYNTPI Sbjct 588 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTEICTDMEKEGKISRIGPENPYNTPI 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+DFRKYTAFTI SINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEPFR+++PE++I Sbjct 708 DEDFRKYTAFTISSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEMVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E LR+HLL+WGFT PDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRTKIEKLREHLLRWGFTRPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ IKLPEK+ WTVNDIQ LV +LNWASQIYPGI+V+QLCKL+RGTKALTEV+ TEEAE Sbjct 828 VQSIKLPEKESWTVNDIQNLVERLNWASQIYPGIKVRQLCKLLRGTKALTEVIPLTEEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGVYYDP K+L+AEIQKQG GQWTYQIYQE KNLKTGKYA+MR A Sbjct 888 LELAENREILKEPVHGVYYDPSKDLIAEIQKQGHGQWTYQIYQEPFKNLKTGKYARMRGA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL E V++++TESIVIWG+TPKFRLP+QKE WE WW ++WQATWIPEWEFVNTP Sbjct 948 HTNDVKQLAEAVQRISTESIVIWGRTPKFRLPIQKETWETWWAEYWQATWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI GAETFYVDGAANRETKLGKAG+VTDRGRQKVV + DTTNQK ELQ Sbjct 1008 PLVKLWYQLEKEPIIGAETFYVDGAANRETKLGKAGYVTDRGRQKVVPLTDTTNQKTELQ 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESELV+QIIE+LIKKE+VYL+WVPAHK Sbjct 1068 AINLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS GIRK+L Sbjct 1128 GIGGNEQVDKLVSQGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:G_92NG083] Sequence ID: O41798.3 Length: 1435 Range 1: 588 to 1147 Score:998 bits(2581), Expect:0.0, Method:Compositional matrix adjust., Identities:470/560(84%), Positives:523/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGP+VKQWPLT EKI+AL EIC +MEKEGKIS+IGPENPYNTPI Sbjct 588 PISPIETVPVKLKPGMDGPRVKQWPLTEEKIKALTEICKDMEKEGKISKIGPENPYNTPI 647 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+K+SVTVLDVGDAYFS PL Sbjct 648 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKRSVTVLDVGDAYFSVPL 707 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQS+MTKILEP R K+PE++I Sbjct 708 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPSRTKNPEMVI 767 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWG TTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 768 YQYMDDLYVGSDLEIGQHRAKIEELREHLLKWGLTTPDKKHQKEPPFLWMGYELHPDKWT 827 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK+ WTVNDIQKLVGKLNWASQIYPGI+VK LC+L+RG KALT++V T EAE Sbjct 828 VQPIQLPEKEDWTVNDIQKLVGKLNWASQIYPGIKVKHLCRLLRGAKALTDIVPLTAEAE 887 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 +ELAENREILKEP+HGVY+DP KEL+AE+QKQG QWTYQIYQE +KNLKTGKYAK SA Sbjct 888 MELAENREILKEPVHGVYHDPSKELIAEVQKQGPDQWTYQIYQEPYKNLKTGKYAKRGSA 947 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+K+ATE IVIWGK PKF+LP++KE WE WWT++WQA WIPEWEFVNTP Sbjct 948 HTNDVKQLTEVVQKIATEGIVIWGKIPKFKLPIRKETWEVWWTEYWQAAWIPEWEFVNTP 1007 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLETEPI GAET+YVDGAANRETKLGKAG VTD+G+QK++++ +TTNQKAEL Sbjct 1008 PLVKLWYQLETEPIPGAETYYVDGAANRETKLGKAGHVTDKGKQKIITLTETTNQKAELH 1067 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+S +VNIVTDSQYA+GII +QPD+S SELV+QIIE+LIKKE+VYLSWVPAHK Sbjct 1068 AIQLALQDSRPEVNIVTDSQYALGIIQAQPDRSGSELVNQIIEQLIKKEKVYLSWVPAHK 1127 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1128 GIGGNEQVDKLVSSGIRKVL 1147 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [SIVcpz GAB1] Sequence ID: P17283.2 Length: 1384 Range 1: 537 to 1096 Score:995 bits(2573), Expect:0.0, Method:Compositional matrix adjust., Identities:476/560(85%), Positives:526/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PIS IETVPVKLKPGMDGPKVKQWPL+ EKI+AL EIC EMEKEGKIS+IGPENPYNTPI Sbjct 537 PISSIETVPVKLKPGMDGPKVKQWPLSAEKIKALTEICQEMEKEGKISKIGPENPYNTPI 596 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFSCPL Sbjct 597 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSCPL 656 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 DKDFRKYTAFTIPSINNETPG+RYQYNVLPQGWKGSP+IFQS+MTKILEPFREK+P+I I Sbjct 657 DKDFRKYTAFTIPSINNETPGVRYQYNVLPQGWKGSPSIFQSSMTKILEPFREKNPDITI 716 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR+ VE+LR HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 717 YQYMDDLYVGSDLEIDQHRKKVEELRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 776 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEK+VWTVNDIQKL+GKLNWASQIYPGI++KQLCKLIRGTK LT+VV T EAE Sbjct 777 VQPIQLPEKEVWTVNDIQKLIGKLNWASQIYPGIKIKQLCKLIRGTKKLTDVVPLTPEAE 836 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREI+ P+HGVYYDP KEL+AEIQKQG QWTYQI+QE HKNLKTGKYA+ RSA Sbjct 837 LELAENREIVSTPVHGVYYDPDKELIAEIQKQGNCQWTYQIFQEPHKNLKTGKYARQRSA 896 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDI+QL E V+K+ATESIVIWGKTPKFRLPVQKE WEAWW ++WQATWIPEWEF+NTP Sbjct 897 HTNDIRQLAEAVQKIATESIVIWGKTPKFRLPVQKESWEAWWAEYWQATWIPEWEFINTP 956 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWY LETEPI +T+YVDGAANRETK GKAG+VTD+G+QK++S+ +TTNQ+AEL+ Sbjct 957 PLVKLWYSLETEPIPTTDTYYVDGAANRETKTGKAGYVTDKGKQKIISLENTTNQQAELK 1016 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A+L+ALQ+S + VNIVTDSQY +GII SQPD SESELV+QIIEELIKKE++YLSWVPAHK Sbjct 1017 ALLLALQDSDQQVNIVTDSQYVLGIIQSQPDHSESELVNQIIEELIKKEKIYLSWVPAHK 1076 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVS+GIRK+L Sbjct 1077 GIGGNEQVDKLVSAGIRKVL 1096 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 1 (STRAIN UGANDAN / ISOLATE U455)] Sequence ID: P24740.3 Length: 1428 Range 1: 581 to 1140 Score:994 bits(2570), Expect:0.0, Method:Compositional matrix adjust., Identities:479/560(86%), Positives:525/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKP MDGPKVKQWPLT EKI+AL EIC EMEKEGKIS+IGPENPYNTP+ Sbjct 581 PISPIETVPVKLKPEMDGPKVKQWPLTEEKIKALTEICNEMEKEGKISKIGPENPYNTPV 640 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPH AGLK+KKSVTVLDVGDAYFS PL Sbjct 641 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHTAGLKKKKSVTVLDVGDAYFSVPL 700 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+ FRKYTAFTIPSINNETPG+RYQYNVLPQGWKGSP+IFQS+MTKILEPFR +HP+I+I Sbjct 701 DESFRKYTAFTIPSINNETPGVRYQYNVLPQGWKGSPSIFQSSMTKILEPFRSQHPDIVI 760 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR HLL WGF TPDKKHQKEPPFLWMGYELHPDKWT Sbjct 761 YQYMDDLYVGSDLEIGQHRAKIEELRAHLLSWGFITPDKKHQKEPPFLWMGYELHPDKWT 820 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEKD WTVNDIQKLVGKLNWASQIY GI+VKQLCKL+RG KALT++V TEEAE Sbjct 821 VQPIQLPEKDSWTVNDIQKLVGKLNWASQIYAGIKVKQLCKLLRGAKALTDIVTLTEEAE 880 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILK+P+HGVYYDP K+LVAEIQKQGQ QWTYQIYQE KNLKTGKYA+ RSA Sbjct 881 LELAENREILKDPVHGVYYDPSKDLVAEIQKQGQDQWTYQIYQEPFKNLKTGKYARKRSA 940 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL EVV+KV+TESIVIWGK PKFRLP+QKE WEAWW ++WQATWIPEWEFVNTP Sbjct 941 HTNDVKQLTEVVQKVSTESIVIWGKIPKFRLPIQKETWEAWWMEYWQATWIPEWEFVNTP 1000 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE +PI+GAETFYVDGAANRETKLGKAG+VTDRGRQKVVS+ +TTNQK EL Sbjct 1001 PLVKLWYQLEKDPIAGAETFYVDGAANRETKLGKAGYVTDRGRQKVVSLTETTNQKTELH 1060 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPD+SESE+V+QIIE+LI+KE+VYLSWVPAHK Sbjct 1061 AIHLALQDSGSEVNIVTDSQYALGIIQAQPDRSESEIVNQIIEKLIEKEKVYLSWVPAHK 1120 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1121 GIGGNEQVDKLVSSGIRKVL 1140 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 M:C_ETH2220] Sequence ID: Q75002.3 Length: 1439 Range 1: 592 to 1151 Score:990 bits(2560), Expect:0.0, Method:Compositional matrix adjust., Identities:476/560(85%), Positives:522/560(93%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIETVPVKLKPGMDGPKVKQWPLT EKI+AL IC EME+EGKISRIGPENPYNTP+ Sbjct 592 PISPIETVPVKLKPGMDGPKVKQWPLTEEKIKALTAICEEMEQEGKISRIGPENPYNTPV 651 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLK+KKSVTVLDVGDAYFS PL Sbjct 652 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPL 711 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D+ FRKYTAFTIPS NNETPGIRYQYNVLPQGWKGSP IFQS+M +ILEPFR +PEI+I Sbjct 712 DEGFRKYTAFTIPSTNNETPGIRYQYNVLPQGWKGSPPIFQSSMPQILEPFRAPNPEIVI 771 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLYVGSDLE+ QHR +E+LR+HLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 772 YQYMDDLYVGSDLEIGQHRAPIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 831 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LPEKD WTVNDIQKLVGKLNWASQIYPGI+V+QLCKL+RG KALT++V TEEAE Sbjct 832 VQPIQLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGAKALTDIVTLTEEAE 891 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LELAENREILKEP+HGV+YDP K+L+AEIQKQG QWT+Q YQE KNLKTGK+AK +A Sbjct 892 LELAENREILKEPVHGVFYDPSKDLIAEIQKQGNDQWTFQFYQEPFKNLKTGKFAKRGTA 951 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTND+KQL VV+K+A ESIVIWGKTPKFRLP+QKE WEAWWTD+WQATWIPEWEFVNTP Sbjct 952 HTNDVKQLTAVVQKIALESIVIWGKTPKFRLPIQKETWEAWWTDYWQATWIPEWEFVNTP 1011 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLVKLWYQLE EPI+G ETFYVDGAANRETK+GKAG+VTDRGRQK+VS+ +TTNQK ELQ Sbjct 1012 PLVKLWYQLEKEPIAGVETFYVDGAANRETKIGKAGYVTDRGRQKIVSLTETTNQKTELQ 1071 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AI +ALQ+SG +VNIVTDSQYA+GII +QPDKSESE+V+QIIE+LI KERVYLSWVPAHK Sbjct 1072 AIQLALQDSGSEVNIVTDSQYALGIILAQPDKSESEIVNQIIEQLISKERVYLSWVPAHK 1131 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNEQVDKLVSSGIRK+L Sbjct 1132 GIGGNEQVDKLVSSGIRKVL 1151 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 O_MVP5180] Sequence ID: Q79666.3 Length: 1446 Range 1: 589 to 1148 Score:959 bits(2479), Expect:0.0, Method:Compositional matrix adjust., Identities:448/560(80%), Positives:509/560(90%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPI VPVKLKPGMDGPKVKQWPL+ EKIEAL IC EME+EGKISRIGPENPYNTPI Sbjct 589 PISPIAPVPVKLKPGMDGPKVKQWPLSREKIEALTAICQEMEQEGKISRIGPENPYNTPI 648 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHP GLKQ++SVTVLDVGDAYFSCPL Sbjct 649 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPGGLKQRQSVTVLDVGDAYFSCPL 708 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D DFRKYTAFTIPS+NNETPG+RYQYNVLPQGWKGSPAIFQS+MTKIL+PFR+ +PE+ I Sbjct 709 DPDFRKYTAFTIPSVNNETPGVRYQYNVLPQGWKGSPAIFQSSMTKILDPFRKSNPEVEI 768 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQY+DDLYVGSDL LA+HR+ VE LR+HL +WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 769 YQYIDDLYVGSDLPLAEHRKRVELLREHLYQWGFTTPDKKHQKEPPFLWMGYELHPDKWT 828 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQPI+LP+K+VWTVNDIQKLVGKLNWASQIY GIRVK+LCKLIRGTK+LTEVV ++EAE Sbjct 829 VQPIQLPDKEVWTVNDIQKLVGKLNWASQIYQGIRVKELCKLIRGTKSLTEVVPLSKEAE 888 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LEL ENRE LKEP+HGVYY P K+L IQK G+GQWTYQ+YQ+ HKNLKTGKYA+ +++ Sbjct 889 LELEENREKLKEPVHGVYYQPDKDLWVSIQKHGEGQWTYQVYQDEHKNLKTGKYARQKAS 948 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDI+QL EVV+KV+ E+IVIWGK PKFRLPV +E WE WW ++WQATWIPEWEFV+TP Sbjct 949 HTNDIRQLAEVVQKVSQEAIVIWGKLPKFRLPVTRETWETWWAEYWQATWIPEWEFVSTP 1008 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PL+KLWYQLETEPI GAETFYVDGAANR TKLGKAG+VT++G+Q ++ + +TTNQKAEL Sbjct 1009 PLIKLWYQLETEPIVGAETFYVDGAANRNTKLGKAGYVTEQGKQNIIKLEETTNQKAELM 1068 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A+L+ALQ+S VNIVTDSQY +GII SQP +S+S +V QIIEEL KKERVYL+WVPAHK Sbjct 1069 AVLIALQDSKEQVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTKKERVYLTWVPAHK 1128 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNE++DKLVS IR++L Sbjct 1129 GIGGNEKIDKLVSKDIRRVL 1148 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-1 O_ANT70] Sequence ID: Q77373.3 Length: 1435 Range 1: 587 to 1146 Score:923 bits(2385), Expect:0.0, Method:Compositional matrix adjust., Identities:443/560(79%), Positives:503/560(89%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPI VPVKLKPGMDGPKVKQWPL+ EKIEAL IC EME+EGKISRIGPENPYNTPI Sbjct 587 PISPIAPVPVKLKPGMDGPKVKQWPLSKEKIEALTAICQEMEQEGKISRIGPENPYNTPI 646 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD TKWRKLVDFRELNKRTQ+FWEVQLGIPHP GLKQK+SVTVLDVGDAYFSCPL Sbjct 647 FAIKKKDGTKWRKLVDFRELNKRTQEFWEVQLGIPHPGGLKQKQSVTVLDVGDAYFSCPL 706 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D DFRKYTAFTIPS+NNETPGIRYQYNVLPQGWKGSPAIFQS+MTKIL+PFR +PE+ I Sbjct 707 DPDFRKYTAFTIPSVNNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILDPFRRDNPELEI 766 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDDLYVGSDL L +HR+ +E LR+HL +WGFTTPDKKHQKEPPFLWMGYELHPDKWT Sbjct 767 CQYMDDLYVGSDLPLTEHRKRIELLREHLYQWGFTTPDKKHQKEPPFLWMGYELHPDKWT 826 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ I+LP KDVWTVNDIQKL+GKLNWASQIY GIRV++LCKLIRGTK+LTEVV + EAE Sbjct 827 VQSIQLPNKDVWTVNDIQKLIGKLNWASQIYQGIRVRELCKLIRGTKSLTEVVPLSREAE 886 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LEL ENRE LK+P+HGVYY P K+L IQKQG QWTYQIYQE HKNLKTGKY + +++ Sbjct 887 LELEENRERLKQPVHGVYYQPDKDLWVNIQKQGGEQWTYQIYQEEHKNLKTGKYTRQKAS 946 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTNDI+QL EV++KV+ ESI+IWGK PKF+LPV +E WE WW D+WQATWIPEWEFV+TP Sbjct 947 HTNDIRQLAEVIQKVSQESIIIWGKLPKFKLPVTRETWETWWADYWQATWIPEWEFVSTP 1006 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PL+KLWY+LE+EPI GAET+YVDGAANRETKLGKAG+VT++G+QK++ + +TTNQKAEL Sbjct 1007 PLIKLWYRLESEPIMGAETYYVDGAANRETKLGKAGYVTEQGKQKIIKLDETTNQKAELM 1066 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 AIL+ALQ+S VNIVTDSQYA+G+I SQP +SES +V QIIEEL KKE+VYL+WVPAHK Sbjct 1067 AILLALQDSKETVNIVTDSQYALGVISSQPTQSESPIVQQIIEELTKKEQVYLTWVPAHK 1126 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNE++DKLVS IR++L Sbjct 1127 GIGGNEKIDKLVSKDIRRVL 1146 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [SIVcpz TAN1] Sequence ID: Q8AII1.4 Length: 1462 Range 1: 615 to 1174 Score:855 bits(2209), Expect:0.0, Method:Compositional matrix adjust., Identities:399/560(71%), Positives:471/560(84%), Gaps:0/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PISPIE V V+LK GMDGPKVKQWPL+ EKIEAL EIC +EKEGKIS +GPENPYNTPI Sbjct 615 PISPIEVVKVQLKEGMDGPKVKQWPLSKEKIEALTEICKTLEKEGKISAVGPENPYNTPI 674 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD++KWRKLVDFRELNKRTQDFWE+QLGIPHPAGL+++ VTVLDVGDAYFS PL Sbjct 675 FAIKKKDTSKWRKLVDFRELNKRTQDFWELQLGIPHPAGLRKRNMVTVLDVGDAYFSIPL 734 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D DFRKYTAFTIPS+NN TPG R+QYNVLPQGWKGSPAIFQS+MTKIL+PFR++HP++ I Sbjct 735 DPDFRKYTAFTIPSLNNNTPGKRFQYNVLPQGWKGSPAIFQSSMTKILDPFRKEHPDVDI 794 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 YQYMDDLY+GSDL +HR+ ++ LR HLL WG TPDKK+Q++PPF+WMGYELHP+KWT Sbjct 795 YQYMDDLYIGSDLNEEEHRKLIKKLRQHLLTWGLETPDKKYQEKPPFMWMGYELHPNKWT 854 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 VQ I LPE + WTVN IQKLVGKLNWASQIY GI+ K+LCKLIRG K LTE V T EAE Sbjct 855 VQNITLPEPEQWTVNHIQKLVGKLNWASQIYHGIKTKELCKLIRGVKGLTEPVEMTREAE 914 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 LEL EN++ILKE + G YYDP L A IQKQGQGQWTYQIYQE KNLKTGKYAK Sbjct 915 LELEENKQILKEKVQGAYYDPKLPLQAAIQKQGQGQWTYQIYQEEGKNLKTGKYAKSPGT 974 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN+I+QL +++K+ ESI+IWG PKF LPV KE W WWTD+WQ TW+PEWEF+NTP Sbjct 975 HTNEIRQLAGLIQKIGNESIIIWGIVPKFLLPVSKETWSQWWTDYWQVTWVPEWEFINTP 1034 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PL++LWY L ++PI AETFYVDGAANR++K G+AG+VT+RGR + + +TTNQ+AEL Sbjct 1035 PLIRLWYNLLSDPIPEAETFYVDGAANRDSKKGRAGYVTNRGRYRSKDLENTTNQQAELW 1094 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A+ +AL++SG VNIVTDSQY MG++ PD+S+S +V QII++L +K +YL+WVPAHK Sbjct 1095 AVDLALKDSGAQVNIVTDSQYVMGVLQGLPDQSDSPIVEQIIQKLTQKTAIYLAWVPAHK 1154 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGNE+VDKLVS IRKIL Sbjct 1155 GIGGNEEVDKLVSKNIRKIL 1174 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (PBJ/BC13 ISOLATE) (SOOTY MANGABEY)] Sequence ID: P19505.2 Length: 1449 Range 1: 598 to 1156 Score:734 bits(1894), Expect:0.0, Method:Compositional matrix adjust., Identities:343/560(61%), Positives:434/560(77%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PI+ +E + V LKPG DGPK++QWPL+ EKI ALREIC +MEK+G++ P NPYNTP Sbjct 598 PIAKVEPIKVTLKPGKDGPKLRQWPLSKEKIIALREICEKMEKDGQLEEAPPTNPYNTPT 657 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF EVQLGIPHPAGL +++ +TVLDVGDAYFS PL Sbjct 658 FAIKKKDKNKWRMLIDFRELNKVTQDFTEVQLGIPHPAGLAKRRRITVLDVGDAYFSIPL 717 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM +LEPFR+ +P++ + Sbjct 718 DEEFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRNVLEPFRKANPDVTL 777 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TP++K QK+PPF WMGYEL P KW Sbjct 778 IQYMDDILIASDRTDLEHDRVVLQLKELLNSIGFSTPEEKFQKDPPFQWMGYELWPTKWK 837 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+++ WTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 838 LQKIELPQRETWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTEMAE 897 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 E EN+ IL + G YY GK L A + K QW+Y+I+QE K LK GK+AK+++ Sbjct 898 AEYEENKIILSQEQEGCYYQEGKPLEATVIKSQDNQWSYKIHQE-DKILKVGKFAKIKNT 956 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E+IVIWG+ P+F LPV++E+WE WWTD+WQ TWIPEW+FV+TP Sbjct 957 HTNGVRLLAHVVQKIGKEAIVIWGQVPRFHLPVEREIWEQWWTDYWQVTWIPEWDFVSTP 1016 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L EPI GAETFYVDG+ NR+++ GKAG+VTDRGR K + TTNQ+AEL+ Sbjct 1017 PLVRLVFNLVKEPIQGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELE 1076 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A +AL +SG NI+ DSQY MGI+ QP +SES LV+QIIEE+IKKE +Y++WVPAHK Sbjct 1077 AFYLALADSGPKANIIVDSQYVMGIVAGQPTESESRLVNQIIEEMIKKEAIYVAWVPAHK 1136 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1137 GIGGNQEVDHLVSQGIRQVL 1156 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (AGM155 ISOLATE)] Sequence ID: P27973.2 Length: 1470 Range 1: 619 to 1173 Score:730 bits(1884), Expect:0.0, Method:Compositional matrix adjust., Identities:339/556(61%), Positives:439/556(78%), Gaps:1/556(0%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I PV+LK G GP++KQWPL+ EKI AL+EIC +E+EGK+SR+G +N YNTP+F I+ Sbjct 619 IPITPVRLKEGARGPRLKQWPLSKEKIIALQEICKTLEEEGKLSRVGGDNAYNTPVFCIR 678 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KKD ++WR LVDFRELNK TQDF+EVQLGIPHPAGLK+ K +T++DVGDAY+S PLD +F Sbjct 679 KKDKSQWRMLVDFRELNKATQDFFEVQLGIPHPAGLKKMKQITIIDVGDAYYSIPLDPEF 738 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 RKYTAFTIP++NNE PGIRYQ+N LPQGWKGSP IFQ+T +KILE +++ ++ I QYM Sbjct 739 RKYTAFTIPTVNNEGPGIRYQFNCLPQGWKGSPTIFQNTASKILEEIKKELKQLTIVQYM 798 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL+VGS E +H + V+ LR+ L +WG TP+KK Q+EPPF WMGY+L P KW +Q I Sbjct 799 DDLWVGSQEEGPKHDQLVQTLRNRLQEWGLETPEKKVQREPPFEWMGYKLWPHKWKLQSI 858 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELA 304 +L +K+ WTVND+QKLVGKLNWA+Q+YPG+R K +CKL+RG K L +VV +T EAE E Sbjct 859 ELEKKEQWTVNDLQKLVGKLNWAAQLYPGLRTKNICKLLRGKKNLLDVVEWTPEAEAEYE 918 Query 305 ENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTND 364 EN+EILK G YY P K L A +QK G GQW+YQ QE K LK GK+AK ++ HTN+ Sbjct 919 ENKEILKTEQEGTYYAPEKPLRAAVQKLGDGQWSYQFKQE-GKILKVGKFAKQKATHTNE 977 Query 365 IKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLVK 424 ++ L VV+K+ E++VIWG+ P F LPV+++ WE WW D+WQ +WIPEW+FV+ PPLV Sbjct 978 LRVLAGVVQKIGKEALVIWGQLPTFELPVERDTWEQWWADYWQVSWIPEWDFVSVPPLVT 1037 Query 425 LWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILM 484 LWY L EPI G + +YVDGA NR++K GKAG++T +G+Q+V + +TTNQ+AEL AI M Sbjct 1038 LWYTLTKEPIPGEDVYYVDGACNRQSKEGKAGYITQQGKQRVQQLENTTNQQAELTAIKM 1097 Query 485 ALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIGG 544 AL++SG VNIVTDSQYAMGI+ +QP +S+S LV QII ++++KE +YL WVPAHKGIGG Sbjct 1098 ALEDSGPKVNIVTDSQYAMGILTAQPTQSDSPLVEQIIAQMVQKEAIYLQWVPAHKGIGG 1157 Query 545 NEQVDKLVSSGIRKIL 560 NE++DKLVS G+R+IL Sbjct 1158 NEEIDKLVSKGVRRIL 1173 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (F236/SMH4 ISOLATE) (SOOTY MANGABEY)] Sequence ID: P12502.2 Length: 1449 Range 1: 598 to 1156 Score:729 bits(1881), Expect:0.0, Method:Compositional matrix adjust., Identities:341/560(61%), Positives:434/560(77%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PI+ +E + V LKPG +GPK++QWPL+ EKI ALREIC +MEK+G++ P NPYNTP Sbjct 598 PIAKVEPIKVTLKPGKEGPKLRQWPLSKEKIIALREICEKMEKDGQLEEAPPTNPYNTPT 657 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF EVQLGIPHPAGL +++ +TVLDVGDAYFS PL Sbjct 658 FAIKKKDKNKWRMLIDFRELNKVTQDFTEVQLGIPHPAGLAKRRRITVLDVGDAYFSIPL 717 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM +LEPFR+ +P++ + Sbjct 718 DEEFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRNVLEPFRKANPDVTL 777 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TP++K QK+PPF WMGYEL P KW Sbjct 778 IQYMDDILIASDRTDLEHDRVVLQLKELLNGIGFSTPEEKFQKDPPFQWMGYELWPTKWK 837 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+++ WTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 838 LQKIELPQRETWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTEMAE 897 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 E EN+ IL + G YY GK + A + K QW+Y+I+QE K LK GK+AK+++ Sbjct 898 AEYEENKIILSQEQEGCYYQEGKPIEATVIKSQDNQWSYKIHQE-DKVLKVGKFAKVKNT 956 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E++VIWG+ PKF LPV++E+WE WWTD+WQ TWIP+W+FV+TP Sbjct 957 HTNGVRLLAHVVQKIGKEALVIWGEVPKFHLPVEREIWEQWWTDYWQVTWIPDWDFVSTP 1016 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L EPI GAETFYVDG+ NR+++ GKAG+VTDRGR K + TTNQ+AEL+ Sbjct 1017 PLVRLVFNLVKEPIQGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELE 1076 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A +AL +SG NI+ DSQY MGII QP +SES LV+QIIEE+IKKE +Y++WVPAHK Sbjct 1077 AFYLALADSGPKANIIVDSQYVMGIIAGQPTESESRLVNQIIEEMIKKEAIYVAWVPAHK 1136 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1137 GIGGNQEVDHLVSQGIRQVL 1156 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE ROD)] Sequence ID: P04584.3 Length: 1464 Range 1: 613 to 1171 Score:728 bits(1880), Expect:0.0, Method:Compositional matrix adjust., Identities:348/560(62%), Positives:440/560(78%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ +E + + LKPG DGPK++QWPLT EKIEAL+EIC +MEKEG++ P NPYNTP Sbjct 613 PVAKVEPIKIMLKPGKDGPKLRQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPT 672 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF E+QLGIPHPAGL +K+ +TVLDVGDAYFS PL Sbjct 673 FAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPL 732 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ + ++II Sbjct 733 HEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANKDVII 792 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 793 IQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKFQKDPPYHWMGYELWPTKWK 852 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K++WTVNDIQKLVG LNWA+Q+YPGI+ K LC+LIRG LTE V +TE AE Sbjct 853 LQKIQLPQKEIWTVNDIQKLVGVLNWAAQLYPGIKTKHLCRLIRGKMTLTEEVQWTELAE 912 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL ENR IL + G YY KEL A +QK + QWTY+I+QE K LK GKYAK+++ Sbjct 913 AELEENRIILSQEQEGHYYQEEKELEATVQKDQENQWTYKIHQE-EKILKVGKYAKVKNT 971 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN I+ L +VV+K+ E++VIWG+ PKF LPV++E+WE WW ++WQ TWIP+W+FV+TP Sbjct 972 HTNGIRLLAQVVQKIGKEALVIWGRIPKFHLPVEREIWEQWWDNYWQVTWIPDWDFVSTP 1031 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI GAETFY DG+ NR++K GKAG+VTDRG+ KV + TTNQ+AEL+ Sbjct 1032 PLVRLAFNLVGDPIPGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELE 1091 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MAL +SG VNI+ DSQY MGI SQP +SES++V+QIIEE+IKKE +Y++WVPAHK Sbjct 1092 AFAMALTDSGPKVNIIVDSQYVMGISASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHK 1151 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1152 GIGGNQEVDHLVSQGIRQVL 1171 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE GHANA-1)] Sequence ID: P18042.4 Length: 1464 Range 1: 613 to 1171 Score:725 bits(1872), Expect:0.0, Method:Compositional matrix adjust., Identities:348/560(62%), Positives:437/560(78%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PI+ IE + V LKPG DGP+++QWPLT EKIEALREIC +MEKEG++ P NPYNTP Sbjct 613 PIAKIEPIKVTLKPGKDGPRLRQWPLTKEKIEALREICEKMEKEGQLEEAPPTNPYNTPT 672 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELN+ TQDF E+QLGIPHPAGL +KK +TVLDVGDAYFS PL Sbjct 673 FAIKKKDKNKWRMLIDFRELNRVTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPL 732 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ +P++I+ Sbjct 733 HEDFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANPDVIL 792 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PP WMGYEL P KW Sbjct 793 IQYMDDILIASDRTGLEHDKVVLQLKELLNGLGFSTPDEKFQKDPPLQWMGYELWPTKWK 852 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q ++LP+K++WTVNDIQKLVG LNWA+QIYPGI+ K LC+LI+G LTE V +TE AE Sbjct 853 LQKLQLPQKEIWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIKGKMTLTEEVQWTELAE 912 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY KEL A IQK QWTY+I+QE K LK GKYAK+++ Sbjct 913 AELEENKIILSQEQEGYYYQEEKELEATIQKNQDNQWTYKIHQE-EKILKVGKYAKIKNT 971 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L +VV+K+ E++VIWG+ PKF LPV++E WE WW ++WQ TWIPEW+FV+TP Sbjct 972 HTNGVRLLAQVVQKIGKEALVIWGRIPKFHLPVERETWEQWWDNYWQVTWIPEWDFVSTP 1031 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI GAETFY DG+ NR++K GKA +VTDRGR KV + TTNQ+AEL+ Sbjct 1032 PLVRLTFNLVGDPIPGAETFYTDGSCNRQSKEGKARYVTDRGRDKVRVLERTTNQQAELE 1091 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A M L +SG VNI+ DSQY MGI+ QP +SES +V+QIIE++IKKE VY++WVPAHK Sbjct 1092 AFAMTLTDSGPKVNIIVDSQYVMGIVVGQPTESESRIVNQIIEDMIKKEAVYVAWVPAHK 1151 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1152 GIGGNQEVDHLVSQGIRQVL 1171 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-2 B_UC1] Sequence ID: Q76634.3 Length: 1471 Range 1: 612 to 1170 Score:724 bits(1870), Expect:0.0, Method:Compositional matrix adjust., Identities:339/560(61%), Positives:434/560(77%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE V VKLKPG DGPK++QWPL+ EKI AL+EIC +MEKEG++ P NPYNTP Sbjct 612 PVAKIEPVKVKLKPGKDGPKIRQWPLSKEKILALKEICEKMEKEGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKK+D KWR L+DFRELNK TQDF EVQLGIPHPAGL +K+ +TVLDVGDAYFS PL Sbjct 672 FAIKKRDKNKWRMLIDFRELNKVTQDFTEVQLGIPHPAGLAEKRRITVLDVGDAYFSIPL 731 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D +FR+YTAFT+PSINN PG RY Y VLPQGWKGSPAIFQ +M K+L+PFR+ + ++II Sbjct 732 DPNFRQYTAFTLPSINNAEPGKRYIYKVLPQGWKGSPAIFQYSMRKVLDPFRKANSDVII 791 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TP++K QK+PPF WMGYEL P +W Sbjct 792 IQYMDDILIASDRSDLEHDRVVSQLKELLNDMGFSTPEEKFQKDPPFKWMGYELWPKRWK 851 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LPEK+VWTVNDIQKLVG LNWA+Q++PGI+ + +CKLIRG LTE V +TE AE Sbjct 852 LQKIQLPEKEVWTVNDIQKLVGVLNWAAQLFPGIKTRHICKLIRGKMTLTEEVQWTELAE 911 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL++ G YY G L A +QK QWTY+I+Q ++ LK GKYAK+++ Sbjct 912 AELQENKIILEQEQEGSYYKEGVPLEATVQKNLANQWTYKIHQG-NRILKVGKYAKVKNT 970 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E++VIWG+ P F LPV++E W+ WWTD+WQ TWIPEW+FV+TP Sbjct 971 HTNGVRLLAHVVQKIGKEALVIWGEIPVFHLPVERETWDQWWTDYWQVTWIPEWDFVSTP 1030 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L Y L +P+ ET+Y DG+ NR +K GKAG+VTDRG+ KV + TTNQ+AEL+ Sbjct 1031 PLVRLAYNLVKDPLEKVETYYTDGSCNRASKEGKAGYVTDRGKDKVKVLEQTTNQQAELE 1090 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A +ALQ+SG VNI+ DSQY MGI+ QP ++ES LV+QIIEE+IKKE +Y+ WVPAH+ Sbjct 1091 AFALALQDSGPQVNIIVDSQYVMGIVAGQPTETESPLVNQIIEEMIKKEAIYVGWVPAHR 1150 Query 541 GIGGNEQVDKLVSSGIRKIL 560 G+GGN++VD LVS GIR++L Sbjct 1151 GLGGNQEVDHLVSQGIRQVL 1170 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (isolate AGM / clone GRI-1)] Sequence ID: Q02836.2 Length: 1472 Range 1: 612 to 1169 Score:724 bits(1870), Expect:0.0, Method:Compositional matrix adjust., Identities:344/559(62%), Positives:435/559(77%), Gaps:2/559(0%) Query 3 SPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFA 62 S IE V+LK G DGPK+KQWPL+ EKIEAL EIC +ME+EGK+SRIG ENPYNTP+FA Sbjct 612 SQIEETKVQLKEGKDGPKLKQWPLSREKIEALTEICKQMEEEGKLSRIGGENPYNTPVFA 671 Query 63 IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDK 122 IKKKD T+WR LVDFRELNK TQDF+EVQLGIPHPAGL++KK +TV+D+GDAY+S PL K Sbjct 672 IKKKDKTQWRMLVDFRELNKATQDFFEVQLGIPHPAGLQKKKQITVIDIGDAYYSIPLCK 731 Query 123 DFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQ 182 +FRKYTAFTIPS+NN PGIRYQ+N LPQGWKGSP IFQ+T ILE + P + I Q Sbjct 732 EFRKYTAFTIPSVNNTGPGIRYQFNCLPQGWKGSPTIFQNTAANILEEIKRHTPGLEIVQ 791 Query 183 YMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQ 242 YMDDL++ SD + +H + V+ +R LL+ G TPDKK Q+EPP+ WMGY+LHP+KWT+ Sbjct 792 YMDDLWLASDHDETRHNQQVDIVRKMLLEKGLETPDKKVQREPPWEWMGYKLHPNKWTIN 851 Query 243 PIKLPE-KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAEL 301 I+LP + WTVN IQK+VG LNWASQIYPGI+ K C ++RG K L E + +TEEAE Sbjct 852 KIELPPLEGEWTVNKIQKVVGVLNWASQIYPGIKTKHTCAMLRGKKNLLEEIVWTEEAEA 911 Query 302 ELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAH 361 E N+ I++E G YYDP KEL+A +QKQG+GQWTYQ QE LK G+YAK R H Sbjct 912 EYKNNQGIVQETQEGTYYDPLKELIATVQKQGEGQWTYQFTQE-GAVLKVGRYAKQRETH 970 Query 362 TNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPP 421 TND++ L +V+K+ E++ IWG+ P+ +LPV K+ W+ WW D+WQ +WIPEWEFV+TP Sbjct 971 TNDLRTLAHLVQKICKEALTIWGRLPRVQLPVDKKTWDMWWQDYWQVSWIPEWEFVSTPL 1030 Query 422 LVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQA 481 LVKLWY L EPI G + +YVDGAA++ TKLGKAG++++RG+ ++ + +TTNQ+AEL A Sbjct 1031 LVKLWYSLVKEPIKGEDVYYVDGAASKVTKLGKAGYLSERGKSRIRELENTTNQQAELTA 1090 Query 482 ILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKG 541 + MAL++SG +VNIVTDSQY M I+ + P +S S LV QII+ L+KK +VYL WVPAHKG Sbjct 1091 VKMALEDSGENVNIVTDSQYVMNILTACPQESNSPLVEQIIQALMKKRQVYLQWVPAHKG 1150 Query 542 IGGNEQVDKLVSSGIRKIL 560 IGGN ++DKLVS GIR+IL Sbjct 1151 IGGNTEIDKLVSKGIRQIL 1169 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (ISOLATE GB1)] Sequence ID: P22382.2 Length: 1441 Range 1: 601 to 1156 Score:723 bits(1867), Expect:0.0, Method:Compositional matrix adjust., Identities:337/557(61%), Positives:432/557(77%), Gaps:2/557(0%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I VKLKPG+DGP++KQWPL+ EKI L++IC +E+EGKISR+ P N YNTPIFAIK Sbjct 601 IPITKVKLKPGVDGPRIKQWPLSKEKIVGLQKICDRLEEEGKISRVDPGNNYNTPIFAIK 660 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KKD +WRKL+DFRELNK TQDF E+QLGIPHPAG+K+ K +TVLD+GDAYFS PLD D+ Sbjct 661 KKDKNEWRKLIDFRELNKLTQDFHELQLGIPHPAGIKKCKRITVLDIGDAYFSIPLDPDY 720 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R YTAFT+PS+NN+ PG RY YNVLPQGWKGSP IFQ T+ +LE FR+ HP + +YQYM Sbjct 721 RPYTAFTVPSVNNQAPGKRYMYNVLPQGWKGSPCIFQGTVASLLEVFRKNHPTVQLYQYM 780 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL+VGSD +H +A+ +LR L+ W TP+KK+QKEPPF WMGYELHPDKW ++ + Sbjct 781 DDLFVGSDYTAEEHEKAIVELRALLMTWNLETPEKKYQKEPPFHWMGYELHPDKWKIEKV 840 Query 245 KLPE-KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELEL 303 +LPE + TVN+IQKLVGKLNWA+Q+YPGI+ KQLCKLIRG +TE V TEEA LE Sbjct 841 QLPELAEQPTVNEIQKLVGKLNWAAQLYPGIKTKQLCKLIRGGLNITEKVTMTEEARLEY 900 Query 304 AENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTN 363 +N+EIL E G YYDP KEL QK G ++Q +++ +K L+ GKY K ++AH+N Sbjct 901 EQNKEILAEEQEGSYYDPNKELYVRFQKTTGGDISFQ-WKQGNKVLRAGKYGKQKTAHSN 959 Query 364 DIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLV 423 D+ +L +KV ESIVIWG PK ++P +E+WE WW ++WQ TWIPE EF++TP L Sbjct 960 DLMKLAGATQKVGRESIVIWGFVPKMQIPTTREIWEDWWHEYWQCTWIPEVEFISTPMLE 1019 Query 424 KLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAIL 483 + WY L EP+ G ET+YVDGAANR++K+GKAG++TDRG Q+V +TTNQ+ EL A+ Sbjct 1020 REWYSLSPEPLEGVETYYVDGAANRDSKMGKAGYITDRGFQRVEEYLNTTNQQTELHAVK 1079 Query 484 MALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIG 543 +AL++SG VNIVTDSQY +GI+ S+P +++ +V +IIE + KE++YLSW+PAHKGIG Sbjct 1080 LALEDSGSYVNIVTDSQYVVGILASRPTETDHPIVKEIIELMKGKEKIYLSWLPAHKGIG 1139 Query 544 GNEQVDKLVSSGIRKIL 560 GNEQ+DKLVSSGIRK+L Sbjct 1140 GNEQIDKLVSSGIRKVL 1156 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE SBLISY)] Sequence ID: P12451.3 Length: 1462 Range 1: 611 to 1169 Score:723 bits(1865), Expect:0.0, Method:Compositional matrix adjust., Identities:347/560(62%), Positives:437/560(78%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE V V LKPG DGPK +QWPLT EKIEALREIC +ME+EG++ P NPYNTP Sbjct 611 PVAKIEPVKVTLKPGKDGPKQRQWPLTREKIEALREICEKMEREGQLEEAPPTNPYNTPT 670 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF EVQLGIPHPAGL +K+ +TVLDVGDAYFS PL Sbjct 671 FAIKKKDKNKWRMLIDFRELNKVTQDFTEVQLGIPHPAGLAKKRRITVLDVGDAYFSIPL 730 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ +P++II Sbjct 731 YEDFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANPDVII 790 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 791 VQYMDDILIASDRTDLEHDKVVLQLKELLNGLGFSTPDEKFQKDPPYQWMGYELWPTKWK 850 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K+VWTVNDIQKLVG LNWA+QIYPGI+ K LCKLIRG TE V +TE AE Sbjct 851 LQKIQLPQKEVWTVNDIQKLVGVLNWAAQIYPGIKTKHLCKLIRGKMTPTEEVQWTELAE 910 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY KEL A +QK QWTY+++Q K LK GKYAK+++ Sbjct 911 AELEENKIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKVHQG-EKILKVGKYAKIKNT 969 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L +VV+K+ E++VIWG+ PKF LPV++E WE WW ++WQ TWIP+W+FV+TP Sbjct 970 HTNGVRLLAQVVQKIGKEALVIWGRIPKFHLPVERETWEQWWDNYWQVTWIPDWDFVSTP 1029 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI GAETFY DG+ NR++K GKAG++TDRG+ KV + TTNQ+AEL+ Sbjct 1030 PLVRLAFNLVKDPIPGAETFYTDGSCNRQSKEGKAGYITDRGKDKVRILEQTTNQQAELE 1089 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MA+ +SG VNIV DSQY MGI+ QP +SES +V++IIEE+IKKE +Y++WVPAHK Sbjct 1090 AFAMAVTDSGPKVNIVVDSQYVMGIVTGQPAESESRIVNKIIEEMIKKEAIYVAWVPAHK 1149 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN+++D LVS GIR++L Sbjct 1150 GIGGNQEIDHLVSQGIRQVL 1169 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE BEN)] Sequence ID: P18096.4 Length: 1550 Range 1: 612 to 1170 Score:722 bits(1864), Expect:0.0, Method:Compositional matrix adjust., Identities:346/560(62%), Positives:437/560(78%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE + V LKPG DGP++KQWPLT EKIEAL+EIC +MEKEG++ P NPYNTP Sbjct 612 PVAKIEPIKVTLKPGKDGPRLKQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF E+QLGIPHPAGL +KK +++LDVGDAYFS PL Sbjct 672 FAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKKRISILDVGDAYFSIPL 731 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+P++NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ +P++I+ Sbjct 732 HEDFRQYTAFTLPAVNNMEPGKRYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANPDVIL 791 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PPF WMG EL P KW Sbjct 792 IQYMDDILIASDRTGLEHDKVVLQLKELLNGLGFSTPDEKFQKDPPFQWMGCELWPTKWK 851 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q ++LP+KD+WTVNDIQKLVG LNWA+QIY GI+ K LC+LIRG LTE V +TE AE Sbjct 852 LQKLQLPQKDIWTVNDIQKLVGVLNWAAQIYSGIKTKHLCRLIRGKMTLTEEVQWTELAE 911 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY KEL A IQK QWTY+I+QE K LK GKYAK+++ Sbjct 912 AELEENKIILSQEQEGYYYQEEKELEATIQKSQGHQWTYKIHQE-EKILKVGKYAKIKNT 970 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L +VV+K+ E++VIWG+ PKF LPV++E WE WW ++WQ TWIPEW+FV+TP Sbjct 971 HTNGVRLLAQVVQKIGKEALVIWGRIPKFHLPVERETWEQWWDNYWQVTWIPEWDFVSTP 1030 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI GAETFY DG+ NR++K GKAG+VTDRG+ KV + TTNQ+AEL+ Sbjct 1031 PLVRLTFNLVGDPIPGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKVLEQTTNQQAELE 1090 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 MAL +SG VNI+ DSQY MGI+ QP +SE+ +V+QIIEE+IKKE VY++WVPAHK Sbjct 1091 VFRMALADSGPKVNIIVDSQYVMGIVAGQPTESENRIVNQIIEEMIKKEAVYVAWVPAHK 1150 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1151 GIGGNQEVDHLVSQGIRQVL 1170 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (MM251 ISOLATE)] Sequence ID: P05897.3 Length: 1448 Range 1: 597 to 1155 Score:721 bits(1861), Expect:0.0, Method:Compositional matrix adjust., Identities:337/560(60%), Positives:431/560(76%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PI+ +E V V LKPG GPK+KQWPL+ EKI ALREIC +MEK+G++ P NPYNTP Sbjct 597 PIAKVEPVKVTLKPGKVGPKLKQWPLSKEKIVALREICEKMEKDGQLEEAPPTNPYNTPT 656 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELN+ TQDF EVQLGIPHPAGL ++K +TVLD+GDAYFS PL Sbjct 657 FAIKKKDKNKWRMLIDFRELNRVTQDFTEVQLGIPHPAGLAKRKRITVLDIGDAYFSIPL 716 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM +LEPFR+ +P++ + Sbjct 717 DEEFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRHVLEPFRKANPDVTL 776 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TP++K QK+PPF WMGYEL P KW Sbjct 777 VQYMDDILIASDRTDLEHDRVVLQLKELLNSIGFSTPEEKFQKDPPFQWMGYELWPTKWK 836 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+++ WTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 837 LQKIELPQRETWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTEMAE 896 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 E EN+ IL + G YY GK L A + K QW+Y+I+QE K LK GK+AK+++ Sbjct 897 AEYEENKIILSQEQEGCYYQEGKPLEATVIKSQDNQWSYKIHQE-DKILKVGKFAKIKNT 955 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L V++K+ E+IVIWG+ PKF LPV+++VWE WWTD+WQ TWIPEW+F++TP Sbjct 956 HTNGVRLLAHVIQKIGKEAIVIWGQVPKFHLPVERDVWEQWWTDYWQVTWIPEWDFISTP 1015 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI G ET+Y DG+ N+++K GKAG++TDRG+ KV + TTNQ+AEL+ Sbjct 1016 PLVRLVFNLVKDPIEGEETYYTDGSCNKQSKEGKAGYITDRGKDKVKVLEQTTNQQAELE 1075 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A LMAL +SG NI+ DSQY MGII P +SES LV+QIIEE+IKK +Y++WVPAHK Sbjct 1076 AFLMALTDSGPKTNIIVDSQYVMGIITGCPTESESRLVNQIIEEMIKKSEIYVAWVPAHK 1135 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN+++D LVS GIR++L Sbjct 1136 GIGGNQEIDHLVSQGIRQVL 1155 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (isolate KR)] Sequence ID: Q74120.3 Length: 1463 Range 1: 612 to 1170 Score:720 bits(1859), Expect:0.0, Method:Compositional matrix adjust., Identities:342/560(61%), Positives:436/560(77%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ ++ + V LKPG DGPKV+QWPLT EKIEAL+EIC +ME+EG++ P NPYNTP Sbjct 612 PVAKVDPIKVILKPGKDGPKVRQWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQ+F E+QLGIPHPAGL +K+ +TVLD+GDAYFS PL Sbjct 672 FAIKKKDKNKWRMLIDFRELNKVTQEFTEIQLGIPHPAGLAKKRRITVLDIGDAYFSIPL 731 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+P++NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ +P++I+ Sbjct 732 HEDFRQYTAFTLPTVNNAEPGKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANPDVIL 791 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 792 VQYMDDILIASDRTDLEHDRTVLQLKELLNGLGFSTPDEKFQKDPPYKWMGYELWPTKWK 851 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K+VWTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 852 LQKIQLPQKEVWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTELAE 911 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY KEL A +QK QWTY+I+Q K LK GKYAK+++ Sbjct 912 AELEENKIILSQEQEGCYYQEEKELEATVQKDQDNQWTYKIHQG-EKILKVGKYAKIKNT 970 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E++VIWG+ PKF LPV++E WE WW ++WQ TWIP+W+FV+TP Sbjct 971 HTNGVRLLAHVVQKIGKEALVIWGRIPKFHLPVERETWEQWWDNYWQVTWIPDWDFVSTP 1030 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI G ETFY DG+ NR++K GKAG++TDRGR KV + TTNQ+AEL+ Sbjct 1031 PLVRLAFNLVKDPIPGEETFYTDGSCNRQSKEGKAGYITDRGRDKVRILEQTTNQQAELE 1090 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MAL +SG NI+ DSQY MGI+ QP +SES+LV+QIIEE+IKKE +Y++WVPAHK Sbjct 1091 AFAMALTDSGPKANIIVDSQYVMGIVAGQPTESESKLVNQIIEEMIKKETLYVAWVPAHK 1150 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1151 GIGGNQEVDHLVSQGIRQVL 1170 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [HIV-2 B_EHO] Sequence ID: Q89928.3 Length: 1464 Range 1: 610 to 1168 Score:719 bits(1857), Expect:0.0, Method:Compositional matrix adjust., Identities:337/560(60%), Positives:431/560(76%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE V V+LKP DGPK++QWPL+ EKI AL+EIC +MEKEG++ P NPYN+P Sbjct 610 PVARIEPVKVQLKPEKDGPKIRQWPLSKEKILALKEICEKMEKEGQLEEAPPTNPYNSPT 669 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQ+F EVQLGIPHPAGL KK +TVLDVGDAYFS PL Sbjct 670 FAIKKKDKNKWRMLIDFRELNKVTQEFTEVQLGIPHPAGLASKKRITVLDVGDAYFSVPL 729 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D DFR+YTAFT+P++NN PG RY Y VLPQGWKGSPAIFQ TM K+L+PFR+ + ++ I Sbjct 730 DPDFRQYTAFTLPAVNNAEPGKRYLYKVLPQGWKGSPAIFQYTMAKVLDPFRKANNDVTI 789 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ V SD +H V L++ L GF+TP++K QK+PPF WMGYEL P KW Sbjct 790 IQYMDDILVASDRSDLEHDRVVSQLKELLNNMGFSTPEEKFQKDPPFKWMGYELWPKKWK 849 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LPEK+VWTVNDIQKLVG LNWA+Q++PGI+ + +CKLIRG LTE V +TE AE Sbjct 850 LQKIQLPEKEVWTVNDIQKLVGVLNWAAQLFPGIKTRHICKLIRGKMTLTEEVQWTELAE 909 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 E EN+ IL++ G YY G L A +QK QWTY+I+Q K LK GKYAK+++ Sbjct 910 AEFQENKIILEQEQEGSYYKEGVPLEATVQKNLANQWTYKIHQG-DKILKVGKYAKVKNT 968 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E++VIWG+ P F LPV++E W+ WWTD+WQ TWIPEW+FV+TP Sbjct 969 HTNGVRLLAHVVQKIGKEALVIWGEIPMFHLPVERETWDQWWTDYWQVTWIPEWDFVSTP 1028 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PL++L Y L +P+ G ET+Y DG+ N+ +K GKAG+VTDRG+ KV + TTNQ+AEL+ Sbjct 1029 PLIRLAYNLVKDPLEGVETYYTDGSCNKASKEGKAGYVTDRGKDKVKPLEQTTNQQAELE 1088 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A +ALQ+SG VNI+ DSQY MGI+ +QP ++ES +V +IIEE+IKKE++Y+ WVPAHK Sbjct 1089 AFALALQDSGPQVNIIVDSQYVMGIVAAQPTETESPIVREIIEEMIKKEKIYVGWVPAHK 1148 Query 541 GIGGNEQVDKLVSSGIRKIL 560 G+GGN++VD LVS GIR+IL Sbjct 1149 GLGGNQEVDHLVSQGIRQIL 1168 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE ST)] Sequence ID: P20876.3 Length: 1463 Range 1: 612 to 1170 Score:719 bits(1856), Expect:0.0, Method:Compositional matrix adjust., Identities:341/560(61%), Positives:437/560(78%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE + + LKPG DGPK++QWPLT EKIEAL+EIC +ME+EG++ P NPYNTP Sbjct 612 PVAKIEPIKIMLKPGKDGPKLRQWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF E+QLGIPHPAGL +KK +TVLDVGDAYFS PL Sbjct 672 FAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPL 731 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PSINN PG RY Y V PQGWKGSPAIFQ TM ++LEPFR+ +P+II+ Sbjct 732 HEDFRQYTAFTLPSINNAEPGKRYIYKVSPQGWKGSPAIFQYTMRQVLEPFRKANPDIIL 791 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 792 IQYMDDILIASDRTDLEHDRVVLQLKELLNGLGFSTPDEKFQKDPPYQWMGYELWPTKWK 851 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K+VWTVNDIQKLVG LNWA+QIYPGI+ + LC+LIRG LTE V +TE AE Sbjct 852 LQRIQLPQKEVWTVNDIQKLVGVLNWAAQIYPGIKTRNLCRLIRGKMTLTEEVQWTELAE 911 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY KEL A +QK QWTY+I+Q K LK GKYAK+++ Sbjct 912 AELEENKIILSQEQEGCYYQEEKELEATVQKDQDNQWTYKIHQG-GKILKVGKYAKVKNT 970 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L +VV+K+ E++VIWG+ PKF LPV+++ WE WW ++WQ TWIP+W+F++TP Sbjct 971 HTNGVRLLAQVVQKIGKEALVIWGRIPKFHLPVERDTWEQWWDNYWQVTWIPDWDFISTP 1030 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI GAETFY DG+ N++++ GKAG++TDRGR KV + TTNQ+AEL+ Sbjct 1031 PLVRLVFNLVKDPILGAETFYTDGSCNKQSREGKAGYITDRGRDKVRLLEQTTNQQAELE 1090 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MA+ +SG NI+ DSQY MGI+ QP +SES++V+QIIEE+IKKE +Y++WVPAHK Sbjct 1091 AFAMAVTDSGPKANIIVDSQYVMGIVAGQPTESESKIVNQIIEEMIKKEAIYVAWVPAHK 1150 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1151 GIGGNQEVDHLVSQGIRQVL 1170 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (MM142-83 ISOLATE)] Sequence ID: P05896.2 Length: 1448 Range 1: 597 to 1155 Score:719 bits(1855), Expect:0.0, Method:Compositional matrix adjust., Identities:336/560(60%), Positives:431/560(76%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 PI+ +E V LKPG DGPK+KQWPL+ EKI ALREIC +MEK+G++ P NPYNTP Sbjct 597 PIAKVEPVKSPLKPGKDGPKLKQWPLSKEKIVALREICEKMEKDGQLEEAPPTNPYNTPT 656 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELN+ TQDF EVQLGIPHPAGL ++K +TVLD+GDAYFS PL Sbjct 657 FAIKKKDKNKWRMLIDFRELNRVTQDFTEVQLGIPHPAGLAKRKRITVLDIGDAYFSIPL 716 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D++FR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM +LEPFR+ +P++ + Sbjct 717 DEEFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRHVLEPFRKANPDVTL 776 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF++P++K QK+PPF WMGYEL P KW Sbjct 777 VQYMDDILIASDRTDLEHDRVVLQLKELLNSIGFSSPEEKFQKDPPFQWMGYELWPTKWK 836 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+++ WTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 837 LQKIELPQRETWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTEMAE 896 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 E EN+ IL + G YY K L A + K QW+Y+I+QE K LK GK+AK+++ Sbjct 897 AEYEENKIILSQEQEGCYYQESKPLEATVIKSQDNQWSYKIHQE-DKILKVGKFAKIKNT 955 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L V++K+ E+IVIWG+ PKF LPV+K+VWE WWTD+WQ TWIPEW+F++TP Sbjct 956 HTNGVRLLAHVIQKIGKEAIVIWGQVPKFHLPVEKDVWEQWWTDYWQVTWIPEWDFISTP 1015 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI G ET+YVDG+ ++++K GKAG++TDRG+ KV + TTNQ+AEL+ Sbjct 1016 PLVRLVFNLVKDPIEGEETYYVDGSCSKQSKEGKAGYITDRGKDKVKVLEQTTNQQAELE 1075 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A LMAL +SG NI+ DSQY MGII P +SES LV+QIIEE+IKK +Y++WVPAHK Sbjct 1076 AFLMALTDSGPKANIIVDSQYVMGIITGCPTESESRLVNQIIEEMIKKTEIYVAWVPAHK 1135 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN+++D LVS GIR++L Sbjct 1136 GIGGNQEIDHLVSQGIRQVL 1155 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE CAM2)] Sequence ID: P24107.3 Length: 1462 Range 1: 612 to 1169 Score:718 bits(1853), Expect:0.0, Method:Compositional matrix adjust., Identities:346/560(62%), Positives:436/560(77%), Gaps:2/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE + + LKPG DGP+++QWPLT EKIEAL+EIC +MEKEG++ P NPYNTP Sbjct 612 PVAKIEPIKIMLKPGKDGPRLRQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAI+KKD KWR L+DFRELNK TQDF E+QLGIPHPAGL +K+ +TVLDVGDAYFS PL Sbjct 672 FAIRKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPL 731 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM ++LEPFR+ + ++II Sbjct 732 HEDFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANSDVII 791 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 792 IQYMDDILIASDRTDLEHDKVVLQLKELLNNLGFSTPDEKFQKDPPYRWMGYELWPTKWK 851 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K+VWTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 852 LQKIQLPQKEVWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTELAE 911 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL ENR IL + G YY KEL A +QK QWTY+I+QE K LK GKYAK++ Sbjct 912 AELEENRIILSQEQEGHYYQEEKELEATVQKDQDNQWTYKIHQE-EKILKVGKYAKIKHT 970 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN +K L +VV+K+ E++VI G+ PKF LPV++EVWE WW ++WQ TWIP+W+FV+TP Sbjct 971 HTNGVKLLAQVVQKIGKEALVI-GRIPKFHLPVEREVWEQWWDNYWQVTWIPDWDFVSTP 1029 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI G ETFY DG+ NR++K GKAG+VTDRGR KV + TTNQ+AEL+ Sbjct 1030 PLVRLAFNLVGDPIPGTETFYTDGSCNRQSKEGKAGYVTDRGRDKVKILEQTTNQQAELE 1089 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MAL +SG NI+ DSQY MGI+ QP +SE+ +V+QIIEE+IKKE +Y++WVPAHK Sbjct 1090 AFAMALTDSGPKANIIVDSQYVMGIVAGQPTESENRIVNQIIEEMIKKEAIYVAWVPAHK 1149 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1150 GIGGNQEVDHLVSQGIRQVL 1169 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE D194)] Sequence ID: P17757.3 Length: 1462 Range 1: 611 to 1169 Score:712 bits(1838), Expect:0.0, Method:Compositional matrix adjust., Identities:337/560(60%), Positives:434/560(77%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ ++ + V LKPG DGP++KQWPLT EKIEAL+EIC +ME+EG++ P NPYNTP Sbjct 611 PVAKLDPIKVTLKPGKDGPRLKQWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPT 670 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELN+ TQDF E+QLGIPHPAGL +KK +TVLDVGDAYFS PL Sbjct 671 FAIKKKDKNKWRMLIDFRELNRVTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPL 730 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PS+NN P RY Y VLPQGWKGSPAIFQ M +ILEPFR+ +P++I+ Sbjct 731 HEDFRQYTAFTLPSVNNAEPEKRYVYKVLPQGWKGSPAIFQFMMRQILEPFRKANPDVIL 790 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PPF WMGYEL P KW Sbjct 791 IQYMDDILIASDRTGLEHDKVVLQLKELLNGLGFSTPDEKFQKDPPFQWMGYELWPTKWK 850 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K++WTVNDIQKLVG LNWA+QIYPGI+ K LCKLIRG LTE V +TE AE Sbjct 851 LQKIQLPQKEIWTVNDIQKLVGVLNWAAQIYPGIKTKHLCKLIRGKMTLTEEVQWTELAE 910 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL + G YY +EL A + K QW Y+I+Q + LK GKYAK+++ Sbjct 911 AELEENKIILSQEQEGSYYQEEEELEATVIKSQDNQWAYKIHQG-ERVLKVGKYAKIKNT 969 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L +VV+K+ E++VIWG+ PKF LPV+++ WE WW ++WQ TW+PEW+FV+TP Sbjct 970 HTNGVRLLAQVVQKIGKEALVIWGRVPKFHLPVERDTWEQWWDNYWQVTWVPEWDFVSTP 1029 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L +PI G ETFY DG+ NR++K GKAG+VTDRGR +V + T+NQ+AEL+ Sbjct 1030 PLVRLTFNLVGDPIPGTETFYTDGSCNRQSKEGKAGYVTDRGRDRVRVLEQTSNQQAELE 1089 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MAL +SG VNI+ DSQY MGI+ QP +SE+ +V+QIIE++IKKE VY++WVPAHK Sbjct 1090 AFAMALADSGPKVNIIVDSQYVMGIVAGQPTESENRIVNQIIEDMIKKEAVYVAWVPAHK 1149 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1150 GIGGNQEVDHLVSQGIRQVL 1169 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE NIH-Z)] Sequence ID: P05962.3 Length: 1461 Range 1: 610 to 1168 Score:704 bits(1817), Expect:0.0, Method:Compositional matrix adjust., Identities:338/560(60%), Positives:430/560(76%), Gaps:1/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ IE + + LKPG DGP++KQWPLT EKIEAL+EIC +MEKEG++ P NPYNTP Sbjct 610 PVAKIEPIKIMLKPGKDGPRLKQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPT 669 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF E+QLGIPHPAGL +K+ +TVLDVGDAYFS PL Sbjct 670 FAIKKKDKNKWRMLIDFRELNKVTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPL 729 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 +DFR+YTAFT+PS+NN PG RY Y VLPQGWKGSPAIFQ TM +ILEPFR+ + ++II Sbjct 730 HEDFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSPAIFQYTMRQILEPFRKANEDVII 789 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H + V L++ L GF+TPD+K QK+PP+ WMGYEL P KW Sbjct 790 IQYMDDILIASDRTDLEHDKVVLQLKELLNGLGFSTPDEKFQKDPPYRWMGYELWPTKWK 849 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LP+K+VWTVNDIQKLVG LNWA+QIYPGI+ K LC+LIRG LTE V +TE AE Sbjct 850 LQKIQLPQKEVWTVNDIQKLVGVLNWAAQIYPGIKTKHLCRLIRGKMTLTEEVQWTELAE 909 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL ENR IL + G YY K+L A +QK QWTY+++Q K LK GK K + Sbjct 910 AELEENRIILSQKQEGHYYQEEKKLEATVQKDQDNQWTYKVHQG-EKILKGGKICKDKKY 968 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 ++ L +VV+K+ E++VIWG+ PKF LPV+++ WE WW ++WQ TWIP+W+FV+TP Sbjct 969 PYQRVRLLAQVVQKIGKEALVIWGRIPKFHLPVERDTWEQWWDNYWQVTWIPDWDFVSTP 1028 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PLV+L + L EP+ GAETFY DG+ NR++K GKAG++TDRGR +V + TTNQ+AEL+ Sbjct 1029 PLVRLAFNLVGEPVPGAETFYTDGSCNRQSKEGKAGYITDRGRDRVKVLEQTTNQQAELE 1088 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A MAL +SG NI+ DSQY MGI+ QP +SE+ +V+QIIEE+IKKE +Y++WVPAHK Sbjct 1089 AFAMALTDSGPKANIIVDSQYVMGIVAGQPTESENRIVNQIIEEMIKKEAIYVAWVPAHK 1148 Query 541 GIGGNEQVDKLVSSGIRKIL 560 GIGGN++VD LVS GIR++L Sbjct 1149 GIGGNQEVDHLVSQGIRQVL 1168 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (AGM3 ISOLATE)] Sequence ID: P27980.2 Length: 1465 Range 1: 620 to 1174 Score:698 bits(1801), Expect:0.0, Method:Compositional matrix adjust., Identities:337/556(61%), Positives:426/556(76%), Gaps:1/556(0%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I PVKLK G GP +KQWPL+ EKI+AL+EIC ++EKEGKIS+IG EN YNTP+F IK Sbjct 620 IPITPVKLKEGARGPFLKQWPLSKEKIKALQEICDQLEKEGKISKIGGENAYNTPVFCIK 679 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KKD ++WR LVDFRELNK TQDF+EVQLGIPHP+G ++ +TVLD+GDAY+S PLD +F Sbjct 680 KKDKSQWRMLVDFRELNKATQDFFEVQLGIPHPSGFEKMTEITVLDIGDAYYSIPLDPEF 739 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 RKYTAFTIPS+NN+ PG RYQ+N LPQGWKGSP IFQ+T ILE +++ + I QYM Sbjct 740 RKYTAFTIPSVNNQGPGTRYQFNCLPQGWKGSPTIFQNTAASILEEIKKELKPLTIVQYM 799 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL+VGS + H VE LR L WG TPDKK QK+PP+ WMGY+L P KW + I Sbjct 800 DDLWVGSQEDEYTHDRLVEQLRMKLSAWGLETPDKKVQKKPPYEWMGYKLWPHKWQISSI 859 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELA 304 +L +K+ WTVNDIQ+LVGKLNWA+Q+YPG+R K LCKLIRG K L E V +TEEAE E A Sbjct 860 ELEDKEEWTVNDIQRLVGKLNWAAQLYPGLRTKNLCKLIRGKKNLLETVTWTEEAEAEYA 919 Query 305 ENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTND 364 EN+EILK G YY PG+ + A +QK GQW+YQ QE + LK GKY K ++ HTN+ Sbjct 920 ENKEILKTEQEGTYYKPGRPIRAAVQKLEGGQWSYQFKQE-GQVLKVGKYTKQKNTHTNE 978 Query 365 IKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLVK 424 + L +V+K+ ES+VIWG+ P LP+++EVWE WW D+WQ +WIP+WEFV+TPPLVK Sbjct 979 FRVLAGLVQKLCKESLVIWGELPVLELPIEREVWEQWWADYWQVSWIPDWEFVSTPPLVK 1038 Query 425 LWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILM 484 LWY L EPI + +YVDGA NR ++ GKAG++T G+Q+V + +TTNQ+AEL AI M Sbjct 1039 LWYTLTKEPIPKEDVYYVDGACNRNSREGKAGYITQYGKQRVEKLENTTNQQAELMAIKM 1098 Query 485 ALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIGG 544 AL++SG +VNIVTDSQYAMGI+ +QP +S+S L+ QII +++K ++YL WVPA KGIGG Sbjct 1099 ALEDSGPNVNIVTDSQYAMGILTAQPTQSDSPLIEQIIALMVQKHQIYLQWVPADKGIGG 1158 Query 545 NEQVDKLVSSGIRKIL 560 NE++DKLVS G+RKIL Sbjct 1159 NEEIDKLVSQGMRKIL 1174 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Simian immunodeficiency virus (TYO-1 ISOLATE)] Sequence ID: P05895.2 Length: 1467 Range 1: 623 to 1176 Score:686 bits(1769), Expect:0.0, Method:Compositional matrix adjust., Identities:338/557(61%), Positives:428/557(76%), Gaps:4/557(0%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I PVKLK G GP V+QWPL+ EKIEAL+EIC+++E+EGKISR+G EN YNTPIF IK Sbjct 623 IPVTPVKLKEGARGPCVRQWPLSKEKIEALQEICSQLEQEGKISRVGGENAYNTPIFCIK 682 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KKD ++WR LVDFRELNK TQDF+EVQLGIPHPAGL++ + +TVLDVGDAY+S PLD +F Sbjct 683 KKDKSQWRMLVDFRELNKATQDFFEVQLGIPHPAGLRKMRQITVLDVGDAYYSIPLDPNF 742 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 RKYTAFTIP++NN+ PGIRYQ+N LPQGWKGSP IFQ+T ILE + P + I QYM Sbjct 743 RKYTAFTIPTVNNQGPGIRYQFNCLPQGWKGSPTIFQNTAASILEEIKRNLPALTIVQYM 802 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL+VGS H + VE LR L WG TP+KK QKEPP+ WMGY+L P KW + I Sbjct 803 DDLWVGSQENEHTHDKLVEQLRTKLQAWGLETPEKKMQKEPPYEWMGYKLWPHKWELSRI 862 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKA-LTEVVNFTEEAELEL 303 +L EKD WTVNDIQKLVGKLNWA+Q+YPG++ + +CKLI G K L E+V +T EAE E Sbjct 863 QLEEKDEWTVNDIQKLVGKLNWAAQLYPGLKTR-ICKLITGGKKNLLELVAWTPEAEAEY 921 Query 304 AENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTN 363 AEN EILK G YY PG + A +QK GQW+YQ QE + LK GKY K ++ HTN Sbjct 922 AENAEILKTEQEGTYYKPGIPIRAAVQKLEGGQWSYQFKQE-GQVLKVGKYTKQKNTHTN 980 Query 364 DIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLV 423 +++ L +V+K+ E++VIWG P LP+++EVWE WW D+WQ +WIPEW+FV+TPPL+ Sbjct 981 ELRTLAGLVQKICKEALVIWGILPVLELPIEREVWEQWWADYWQVSWIPEWDFVSTPPLL 1040 Query 424 KLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAIL 483 KLWY L EPI + +YV GA NR +K GKAG+++ G+Q+V ++ +TTNQ+A+L AI Sbjct 1041 KLWYTLTKEPIPKEDVYYV-GACNRNSKEGKAGYISQYGKQRVETLENTTNQQAKLTAIK 1099 Query 484 MALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIG 543 MAL++SG +VNIVTDSQYAMGI+ +QP +S+S LV QII +I+K+++YL WVPAHKGIG Sbjct 1100 MALEDSGPNVNIVTDSQYAMGILTAQPTQSDSPLVEQIIALMIQKQQIYLQWVPAHKGIG 1159 Query 544 GNEQVDKLVSSGIRKIL 560 GNE++DKLVS GIR++L Sbjct 1160 GNEEIDKLVSKGIRRVL 1176 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol; Contains: RecName: Full=Matrix protein p17; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Spacer peptide 1; Short=SP1; AltName: Full=p2; Contains: RecName: Full=Nucleocapsid protein p7; Short=NC; Contains: RecName: Full=Transframe peptide; Short=TF; Contains: RecName: Full=p6-pol; Short=p6*; Contains: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=Exoribonuclease H; AltName: Full=p66 RT; Contains: RecName: Full=p51 RT; Contains: RecName: Full=p15; Contains: RecName: Full=Integrase; Short=IN [Human immunodeficiency virus type 2 (ISOLATE D205,7)] Sequence ID: P15833.3 Length: 1465 Range 1: 612 to 1169 Score:678 bits(1750), Expect:0.0, Method:Compositional matrix adjust., Identities:323/560(58%), Positives:422/560(75%), Gaps:2/560(0%) Query 1 PISPIETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPI 60 P++ +E V V+LKPG DGPK++QWPL+ EKI AL+EIC +MEKEG++ P NPYNTP Sbjct 612 PVAKVEPVKVELKPGKDGPKIRQWPLSREKILALKEICEKMEKEGQLEEAPPTNPYNTPT 671 Query 61 FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL 120 FAIKKKD KWR L+DFRELNK TQDF EV P + +K+ +TV+DVGDAYFS PL Sbjct 672 FAIKKKDKNKWRMLIDFRELNKVTQDFTEVNWVFPTRQ-VAEKRRITVIDVGDAYFSIPL 730 Query 121 DKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIII 180 D +FR+YTAFT+PS+NN PG RY Y VLPQGWKGS +I Q +M K+L+PFR+ + ++II Sbjct 731 DPNFRQYTAFTLPSVNNAEPGKRYIYKVLPQGWKGSQSICQYSMRKVLDPFRKANSDVII 790 Query 181 YQYMDDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWT 240 QYMDD+ + SD +H V L++ L GF+TP++K QK+PPF WMGYEL P KW Sbjct 791 IQYMDDILIASDRSDLEHDRVVSQLKELLNDMGFSTPEEKFQKDPPFKWMGYELWPKKWK 850 Query 241 VQPIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAE 300 +Q I+LPEK+VWTVN IQKLVG LNWA+Q++PGI+ + +CKLIRG LTE V +TE AE Sbjct 851 LQKIQLPEKEVWTVNAIQKLVGVLNWAAQLFPGIKTRHICKLIRGKMTLTEEVQWTELAE 910 Query 301 LELAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSA 360 EL EN+ IL++ G YY L A +QK QWTY+I+Q +K LK GKYAK+++ Sbjct 911 AELQENKIILEQEQEGSYYKERVPLEATVQKNLANQWTYKIHQG-NKVLKVGKYAKVKNT 969 Query 361 HTNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTP 420 HTN ++ L VV+K+ E++VIWG+ P F LPV++E W+ WWTD+WQ TWIPEW+FV+TP Sbjct 970 HTNGVRLLAHVVQKIGKEALVIWGEIPVFHLPVERETWDQWWTDYWQVTWIPEWDFVSTP 1029 Query 421 PLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQ 480 PL++L Y L +P+ G ET+Y DG+ NR +K GKAG+VTDRG+ KV + TTNQ+AEL+ Sbjct 1030 PLIRLAYNLVKDPLEGRETYYTDGSCNRTSKEGKAGYVTDRGKDKVKVLEQTTNQQAELE 1089 Query 481 AILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHK 540 A +AL +S VNI+ DSQY MGII +QP ++ES +V++IIEE+IKKE VY+ WVPAHK Sbjct 1090 AFALALTDSEPQVNIIVDSQYVMGIIAAQPTETESPIVAKIIEEMIKKEAVYVGWVPAHK 1149 Query 541 GIGGNEQVDKLVSSGIRKIL 560 G+GGN++VD LVS GIR++L Sbjct 1150 GLGGNQEVDHLVSQGIRQVL 1169 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Feline immunodeficiency virus (isolate San Diego)] Sequence ID: P19028.1 Length: 1124 Range 1: 161 to 709 Score:486 bits(1252), Expect:2e-159, Method:Compositional matrix adjust., Identities:262/555(47%), Positives:371/555(66%), Gaps:11/555(1%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I V VK+K GP++KQWPL+ EKIEAL EI +E+EGK+ R P NP+NTP+FAIK Sbjct 161 IPIVKVKMKDPNKGPQIKQWPLSNEKIEALTEIVERLEREGKVKRADPNNPWNTPVFAIK 220 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK T+ EVQLG+PHPAGL+ KK +TVLD+GDAYF+ PLD D+ Sbjct 221 KK-SGKWRMLIDFRELNKLTEKGAEVQLGLPHPAGLQMKKQITVLDIGDAYFTNPLDPDY 279 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 YTAFT+P NN PG R+ + LPQGW SP I+QST+ I++PF ++P++ IYQYM Sbjct 280 APYTAFTLPRKNNAGPGRRFVWCSLPQGWILSPLIYQSTLDNIIQPFIRQNPQLDIYQYM 339 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQ-- 242 DD+Y+GS+L +H+E VE+LR LL WGF TP+ K Q+EPP+ WMGYELHP WT+Q Sbjct 340 DDIYIGSNLSKKEHKEKVEELRKLLLWWGFETPEDKLQEEPPYKWMGYELHPLTWTIQQK 399 Query 243 PIKLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 +++PEK T+N++QKL GK+NWASQ P + +K L + RG + L +TEEA LE Sbjct 400 QLEIPEKP--TLNELQKLAGKINWASQTIPELSIKSLTNMTRGNQNLNSTREWTEEARLE 457 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQEL-HKNLKTGKYAKMRSAH 361 + + + ++E + YYDP KEL A++ G Q +YQ+YQ+ K L GK ++ + Sbjct 458 VQKAKRAIEEQVQLGYYDPSKELYAKLSLVGPHQISYQVYQKCPEKILWYGKMSRQKKKA 517 Query 362 TNDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDH-WQATWIPEWEFVNTP 420 N + K+ ESI+ GK P++ +P +E WE+ + + PE ++++ Sbjct 518 ENTCDIALRACYKIREESIIRIGKEPRYEIPTSREAWESNLINSPYLKAPPPEVDYIHAA 577 Query 421 PLVK-LWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAEL 479 +K ++ PISGAET+Y+DG + K KA + TD G+ +V+ + + +NQKAE+ Sbjct 578 LNIKRALSMIKDPPISGAETWYIDG-GRKLGKAAKAAYWTDTGKWQVMEL-EGSNQKAEI 635 Query 480 QAILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAH 539 QA+L+AL+ ++NI+TDSQY + I+ QPDK E + +++EEL KK +++ WVP H Sbjct 636 QALLLALKAGPEEMNIITDSQYMINILSQQPDKMEG-IWQEVLEELEKKTAIFIDWVPGH 694 Query 540 KGIGGNEQVDKLVSS 554 KGI GNE+VDKL + Sbjct 695 KGIPGNEEVDKLCQT 709 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Feline immunodeficiency virus (isolate Petaluma)] Sequence ID: P16088.1 Length: 1124 Range 1: 161 to 709 Score:484 bits(1245), Expect:3e-158, Method:Compositional matrix adjust., Identities:261/553(47%), Positives:367/553(66%), Gaps:7/553(1%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I V VK+K GP++KQWPLT EKIEAL EI +EKEGK+ R NP+NTP+FAIK Sbjct 161 IPVVKVKMKDPNKGPQIKQWPLTNEKIEALTEIVERLEKEGKVKRADSNNPWNTPVFAIK 220 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK T+ EVQLG+PHPAGL+ KK VTVLD+GDAYF+ PLD D+ Sbjct 221 KK-SGKWRMLIDFRELNKLTEKGAEVQLGLPHPAGLQIKKQVTVLDIGDAYFTIPLDPDY 279 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 YTAFT+P NN PG R+ + LPQGW SP I+QST+ I++PF ++P++ IYQYM Sbjct 280 APYTAFTLPRKNNAGPGRRFVWCSLPQGWILSPLIYQSTLDNIIQPFIRQNPQLDIYQYM 339 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GS+L +H+E VE+LR LL WGF TP+ K Q+EPP+ WMGYELHP WT+Q Sbjct 340 DDIYIGSNLSKKEHKEKVEELRKLLLWWGFETPEDKLQEEPPYTWMGYELHPLTWTIQQK 399 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELA 304 +L + T+N++QKL GK+NWASQ P + +K L ++RG + L +T+EA LE+ Sbjct 400 QLDIPEQPTLNELQKLAGKINWASQAIPDLSIKALTNMMRGNQNLNSTRQWTKEARLEVQ 459 Query 305 ENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQ-ELHKNLKTGKYAKMRSAHTN 363 + ++ ++E + YYDP KEL A++ G Q +YQ+YQ + K L GK ++ + N Sbjct 460 KAKKAIEEQVQLGYYDPSKELYAKLSLVGPHQISYQVYQKDPEKILWYGKMSRQKKKAEN 519 Query 364 DIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDH-WQATWIPEWEFVNTPPL 422 + K+ ESI+ GK P++ +P +E WE+ + + PE E+++ Sbjct 520 TCDIALRACYKIREESIIRIGKEPRYEIPTSREAWESNLINSPYLKAPPPEVEYIHAALN 579 Query 423 VK-LWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQA 481 +K ++ PI GAET+Y+DG + K KA + TD G+ +V+ + + +NQKAE+QA Sbjct 580 IKRALSMIKDAPIPGAETWYIDG-GRKLGKAAKAAYWTDTGKWRVMDL-EGSNQKAEIQA 637 Query 482 ILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKG 541 +L+AL+ ++NI+TDSQY + II QPD E + +++EEL KK +++ WVP HKG Sbjct 638 LLLALKAGSEEMNIITDSQYVINIILQQPDMMEG-IWQEVLEELEKKTAIFIDWVPGHKG 696 Query 542 IGGNEQVDKLVSS 554 I GNE+VDKL + Sbjct 697 IPGNEEVDKLCQT 709 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Feline immunodeficiency virus (isolate TM2)] Sequence ID: P31822.1 Length: 1124 Range 1: 160 to 708 Score:477 bits(1227), Expect:1e-155, Method:Compositional matrix adjust., Identities:251/556(45%), Positives:367/556(66%), Gaps:13/556(2%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I V V++K GP+VKQWPL+ EKIEAL +I +E EGK+ R P NP+NTP+FAIK Sbjct 160 IPIVKVRMKDPTQGPQVKQWPLSNEKIEALTDIVERLESEGKVKRADPNNPWNTPVFAIK 219 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFR LNK T EVQLG+PHPAGL+ KK VTVLD+GDAYF+ PLD D+ Sbjct 220 KK-SGKWRMLIDFRVLNKLTDKGAEVQLGLPHPAGLQMKKQVTVLDIGDAYFTIPLDPDY 278 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 YTAFT+P NN PG RY + LPQGW SP I+QST+ IL+PF +++ E+ IYQYM Sbjct 279 APYTAFTLPRKNNAGPGRRYVWCSLPQGWVLSPLIYQSTLNNILQPFIKQNSELDIYQYM 338 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GS+L +H++ VE+LR LL WGF TP+ K Q+EPP+ WMGYELHP W++Q Sbjct 339 DDIYIGSNLNKKEHKQKVEELRKLLLWWGFETPEDKLQEEPPYKWMGYELHPLTWSIQQK 398 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELA 304 +L + T+N++QKL GK+NWASQ P + +K+L ++RG + L + +T EA+ E+ Sbjct 399 QLEIPERPTLNELQKLAGKINWASQTIPDLSIKELTNMMRGDQKLDSIREWTVEAKREVQ 458 Query 305 ENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKN-LKTGKYAKMRSAHTN 363 + +E ++ YYDP + L A++ G Q YQ+YQ+ ++ L GK + + N Sbjct 459 KAKEAIETQAQLNYYDPNRGLYAKLSLVGPHQICYQVYQKNPEHILWYGKINRQKKKAEN 518 Query 364 DIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWI----PEWEFVNT 419 + K+ ESI+ GK P + +P +E WE ++ ++ ++ PE EF++ Sbjct 519 TCDIALRACYKIREESIIRIGKEPVYEIPASREAWE---SNLIRSPYLKAPPPEVEFIHA 575 Query 420 PPLVK-LWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAE 478 +K ++ PI GAET+Y+DG + ++ K +A + T+ G+ +++ I + +NQKAE Sbjct 576 ALSIKRALSMIQDAPIIGAETWYIDG-SRKQGKAARAAYWTNTGKWQIMEI-EGSNQKAE 633 Query 479 LQAILMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPA 538 +QA+L+AL+ ++NI+TDSQY + I++ QPD E L +++E++ KK +++ WVP Sbjct 634 VQALLLALKAGSEEMNIITDSQYILNILNQQPDLMEG-LWQEVLEQMEKKIAIFIDWVPG 692 Query 539 HKGIGGNEQVDKLVSS 554 HKGI GNE+VDKL + Sbjct 693 HKGIPGNEEVDKLCQT 708 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Integrase; Short=IN [Equine infectious anemia virus (CLONE 1369)] Sequence ID: P11204.1 Length: 1146 Range 1: 196 to 733 Score:414 bits(1065), Expect:1e-131, Method:Compositional matrix adjust., Identities:240/545(44%), Positives:329/545(60%), Gaps:11/545(2%) Query 10 VKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDST 69 ++LK G GPK+ QWPLT EK+E +EI + EGKIS NPYN+PIF IKK+ S Sbjct 196 IELKEGTMGPKIPQWPLTKEKLEGAKEIVQRLLSEGKISEASDNNPYNSPIFVIKKR-SG 254 Query 70 KWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTA 129 KWR L D RELNK Q E+ G+PHP GL + K +TVLD+GDAYF+ PLD +FR YTA Sbjct 255 KWRLLQDLRELNKTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTA 314 Query 130 FTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV 189 FTIPSIN++ P RY +N LPQG+ SP I+Q T+ +IL+PFRE++PE+ +YQYMDDL+V Sbjct 315 FTIPSINHQEPDKRYVWNCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV 374 Query 190 GSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEK 249 GS+ QH+E + +LR LL+ GF TPD K Q+ PP+ W+GY+L P+ W VQ ++L Sbjct 375 GSNGSKKQHKELIIELRAILLEEGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMV 434 Query 250 DVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENREI 309 T+ND+QKL+G + W S PG+ VK + +G L + V +TEEA+ EL EN E Sbjct 435 KNPTLNDVQKLMGNITWMSSGVPGLTVKHIAATTKGCLELNQKVIWTEEAQKELEENNEK 494 Query 310 LKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIKQLV 369 +K YY+P +E++ E++ + TY I Q L GK + + +K L+ Sbjct 495 IKNAQGLQYYNPEEEMLCEVEITKNYEATYVIKQS-QGILWAGKKIMKANKGWSTVKNLM 553 Query 370 EVVRKVATESIVIWGKTPKFRLPVQKE--VWEAWWTDHWQATWIPEWEFVNTPPLVKLWY 427 +++ VATESI GK P F++P KE +WE W +W+PE + + Sbjct 554 LLLQHVATESITRVGKCPTFKVPFTKEQVMWEM--QKGWYYSWLPEIVYTHQVVHDDWRM 611 Query 428 QLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILMALQ 487 +L EP SG T Y DG ++ G A +VT GR K + T+Q AE AI MAL+ Sbjct 612 KLVEEPTSGI-TIYTDGG--KQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE 668 Query 488 ES-GRDVNIVTDSQYA-MGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIGGN 545 ++ + VNIVTDS Y I + II+ + +KE VY +WVP HKGI GN Sbjct 669 DTRDKQVNIVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGN 728 Query 546 EQVDK 550 + D+ Sbjct 729 QLADE 733 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Integrase; Short=IN [Equine infectious anemia virus (clone CL22)] Sequence ID: P32542.1 Length: 1146 Range 1: 196 to 733 Score:414 bits(1064), Expect:2e-131, Method:Compositional matrix adjust., Identities:240/545(44%), Positives:329/545(60%), Gaps:11/545(2%) Query 10 VKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDST 69 ++LK G GPK+ QWPLT EK+E +EI + EGKIS NPYN+PIF IKK+ S Sbjct 196 IELKEGTMGPKIPQWPLTKEKLEGAKEIVQRLLSEGKISEASDNNPYNSPIFVIKKR-SG 254 Query 70 KWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTA 129 KWR L D RELNK Q E+ G+PHP GL + K +TVLD+GDAYF+ PLD +FR YTA Sbjct 255 KWRLLQDLRELNKTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTA 314 Query 130 FTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV 189 FTIPSIN++ P RY +N LPQG+ SP I+Q T+ +IL+PFRE++PE+ +YQYMDDL+V Sbjct 315 FTIPSINHQEPDKRYVWNCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV 374 Query 190 GSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEK 249 GS+ QH+E + +LR LL+ GF TPD K Q+ PP+ W+GY+L P+ W VQ ++L Sbjct 375 GSNGSKKQHKELIIELRAILLEKGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMV 434 Query 250 DVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENREI 309 T+ND+QKL+G + W S PG+ VK + +G L + V +TEEA+ EL EN E Sbjct 435 KNPTLNDVQKLMGNITWMSSGVPGLTVKHIAATTKGCLELNQKVIWTEEAQKELEENNEK 494 Query 310 LKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIKQLV 369 +K YY+P +E++ E++ + TY I Q L GK + + +K L+ Sbjct 495 IKNAQGLQYYNPEEEMLCEVEITKNYEATYVIKQS-QGILWAGKKIMKANKGWSTVKNLM 553 Query 370 EVVRKVATESIVIWGKTPKFRLPVQKE--VWEAWWTDHWQATWIPEWEFVNTPPLVKLWY 427 +++ VATESI GK P F++P KE +WE W +W+PE + + Sbjct 554 LLLQHVATESITRVGKCPTFKVPFTKEQVMWEM--QKGWYYSWLPEIVYTHQVVHDDWRM 611 Query 428 QLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILMALQ 487 +L EP SG T Y DG ++ G A +VT GR K + T+Q AE AI MAL+ Sbjct 612 KLVEEPTSGI-TIYTDGG--KQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE 668 Query 488 ES-GRDVNIVTDSQYA-MGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIGGN 545 ++ + VNIVTDS Y I + II+ + +KE VY +WVP HKGI GN Sbjct 669 DTRDKQVNIVTDSYYCWKNITEGLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGN 728 Query 546 EQVDK 550 + D+ Sbjct 729 QLADE 733 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Integrase; Short=IN [Equine infectious anemia virus (ISOLATE WYOMING)] Sequence ID: P03371.1 Length: 1145 Range 1: 196 to 732 Score:405 bits(1041), Expect:5e-128, Method:Compositional matrix adjust., Identities:237/545(43%), Positives:327/545(60%), Gaps:12/545(2%) Query 10 VKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDST 69 ++LK G GPK+ QWPLT EK+E +E + EGKIS NPYN+PIF IKK+ S Sbjct 196 IELKEGTMGPKIPQWPLTKEKLEGAKETVQRLLSEGKISEASDNNPYNSPIFVIKKR-SG 254 Query 70 KWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTA 129 KWR L D RELNK Q E+ G+PHP GL + K +TVLD+GDAYF+ PLD +FR YTA Sbjct 255 KWRLLQDLRELNKTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTA 314 Query 130 FTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV 189 FTIPSIN++ P RY + LPQG+ SP I+Q T+ +IL+PFRE++PE+ +YQYMDDL+V Sbjct 315 FTIPSINHQEPDKRYVWKCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV 374 Query 190 GSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEK 249 GS+ QH+E + +LR +L+ GF TPD K Q+ PP+ W+GY+L P+ W VQ ++L Sbjct 375 GSNGSKKQHKELIIELRA-ILQKGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMV 433 Query 250 DVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENREI 309 T+ND+QKL+G + W S PG+ VK + +G L + V +TEEA+ EL EN E Sbjct 434 KNPTLNDVQKLMGNITWMSSGVPGLTVKHIAATTKGCLELNQKVIWTEEAQKELEENNEK 493 Query 310 LKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIKQLV 369 +K YY+P +E++ E++ + TY I Q L GK + + +K L+ Sbjct 494 IKNAQGLQYYNPEEEMLCEVEITKNYEATYVIKQS-QGILWAGKKIMKANKGWSTVKNLM 552 Query 370 EVVRKVATESIVIWGKTPKFRLPVQKE--VWEAWWTDHWQATWIPEWEFVNTPPLVKLWY 427 +++ VATESI GK P F++P KE +WE W +W+PE + + Sbjct 553 LLLQHVATESITRVGKCPTFKVPFTKEQVMWEM--QKGWYYSWLPEIVYTHQVVHDDWRM 610 Query 428 QLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILMALQ 487 +L EP SG T Y DG ++ G A +VT GR K + T+Q AE AI MAL+ Sbjct 611 KLVEEPTSGI-TIYTDGG--KQNGEGIAAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE 667 Query 488 ES-GRDVNIVTDSQYA-MGIIHSQPDKSESELVSQIIEELIKKERVYLSWVPAHKGIGGN 545 ++ + VNIVTDS Y I + II+ + +KE VY +WVP HKGI GN Sbjct 668 DTRDKQVNIVTDSYYCWKNITEGLGLEGPQNPWWPIIQNIREKEIVYFAWVPGHKGIYGN 727 Query 546 EQVDK 550 + D+ Sbjct 728 QLADE 732 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Integrase; Short=IN [Caprine arthritis encephalitis virus strain Cork] Sequence ID: P33459.1 Length: 1109 Range 1: 152 to 693 Score:370 bits(950), Expect:4e-115, Method:Compositional matrix adjust., Identities:226/554(41%), Positives:330/554(59%), Gaps:17/554(3%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I VKLK G GP V QWPLT EK++ L EI ++ +EGK+ + P NTPIF IK Sbjct 152 IPITKVKLKEGCTGPHVPQWPLTEEKLKGLTEIIDKLVEEGKLGKAPPHWTCNTPIFCIK 211 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + + Sbjct 212 KK-SGKWRMLIDFRELNKQTEDLTEAQLGLPHPGGLQKKKHVTILDIGDAYFTIPLYEPY 270 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YT FT+ S NN P RY + VLPQGWK SP+++Q TM +ILE + ++HPEI YM Sbjct 271 REYTCFTLLSPNNLGPCKRYYWKVLPQGWKLSPSVYQFTMQEILEDWIQQHPEIQFGIYM 330 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GSDLE+ +HRE V+DL +++ ++GFT P++K QK P W+G+ELHP W Q Sbjct 331 DDIYIGSDLEIKKHREIVKDLANYIAQYGFTLPEEKRQKGYPAKWLGFELHPQTWKFQKH 390 Query 245 KLPE--KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 LPE K T+N +QKLVG+L W I G + + KL+ G + L E E Sbjct 391 TLPELTKGTITLNKLQKLVGELVWRQSII-GKSIPNILKLMEGDRELQSERKIEEVHVKE 449 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 R+ L+E + G YY+ K++ ++ G Y +YQE K L +++ Sbjct 450 WEACRKKLEE-MEGNYYNKDKDVYGQL-AWGDKAIEYIVYQEKGKPLWVNVVHNIKNLSI 507 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 +Q+++ +K+ E I+ GK P LP ++E W TW+P +F + Sbjct 508 P--QQVIKAAQKLTQEVIIRTGKIPWILLPGKEEDWRL-ELQLGNITWMP--KFWSCYRG 562 Query 423 VKLWYQLE-TEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQA 481 W + E + T+Y DG ++ K+G GF+ G +K + TNQ+ EL+A Sbjct 563 HTRWRKRNIIEEVVEGPTYYTDGG--KKNKVGSLGFIVSTG-EKFRKHEEGTNQQLELRA 619 Query 482 ILMALQESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAH 539 I AL++ + +N+VTDS+YA + D+ ++ + ++I+E KK+R+ + WVP H Sbjct 620 IEEALKQGPQTMNLVTDSRYAFEFLLRNWDEEVIKNPIQARIMEIAHKKDRIGVHWVPGH 679 Query 540 KGIGGNEQVDKLVS 553 KGI NE++DK +S Sbjct 680 KGIPQNEEIDKYIS 693 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Ovine lentivirus (strain SA-OMVV)] Sequence ID: P16901.1 Length: 1086 Range 1: 133 to 669 Score:366 bits(940), Expect:7e-114, Method:Compositional matrix adjust., Identities:222/548(41%), Positives:321/548(58%), Gaps:15/548(2%) Query 10 VKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDST 69 VKLK G GP + QWPLT EK+E L+EI ++EKEGK+ R P NTPIF IKKK S Sbjct 133 VKLKEGCKGPHIAQWPLTQEKLEGLKEIVDKLEKEGKVGRAPPHWTCNTPIFCIKKK-SG 191 Query 70 KWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTA 129 KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + +R YT Sbjct 192 KWRMLIDFRELNKQTEDLAEAQLGLPHPGGLQKKKHVTILDIGDAYFTIPLYEPYRPYTC 251 Query 130 FTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV 189 FT+ S NN P RY + VLPQGWK SP+++Q TM +IL + KHP I YMDD+Y+ Sbjct 252 FTMLSPNNLGPCTRYYWKVLPQGWKLSPSVYQFTMQEILRDWIAKHPMIQFGIYMDDIYI 311 Query 190 GSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPE- 248 GSDL++ +HRE VE+L ++ ++GF P++K Q+ P W+G+ELHP+KW Q LPE Sbjct 312 GSDLDIMKHREIVEELASYIAQYGFMLPEEKRQEGYPAKWLGFELHPEKWRFQKHTLPEI 371 Query 249 -KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENR 307 + T+N +QKLVG L W + G + + KL+ G +AL E E R Sbjct 372 KEGTITLNKLQKLVGDLVWRQSLI-GKSIPNILKLMEGDRALQSERRIELRHVKEWEECR 430 Query 308 EILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIKQ 367 L E + G YYD K++ +I G Y ++QE K L +++ + +Q Sbjct 431 RKLAE-MEGNYYDEEKDVYGQID-WGDKAIEYIVFQERGKPLWVNVVHNIKNLSQS--QQ 486 Query 368 LVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLVKLWY 427 +++ +K+ E I+ GK P LP ++E W TW+P + + Sbjct 487 IIKAAQKLTQEVIIRIGKIPWILLPGKEEDW-ILELQIGNITWMPSFWSCYRGSIRWKKR 545 Query 428 QLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAILMALQ 487 + TE + G T+Y DG ++ G GF+ G K + TNQ+ EL+AI A + Sbjct 546 NVITEVVEGP-TYYTDGG--KKNGKGSLGFIASTG-VKFRKHEEGTNQQLELRAIEEACK 601 Query 488 ESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAHKGIGGN 545 + +NIVTDS+YA + D+ ++ + ++I++ + KE++ + WVP HKGI N Sbjct 602 QGPEKMNIVTDSRYAYEFMRRNWDEEVIKNPIQARIMKLVHDKEQIGVHWVPGHKGIPQN 661 Query 546 EQVDKLVS 553 E++DK +S Sbjct 662 EEIDKYIS 669 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol; Contains: RecName: Full=Matrix protein p16; Short=MA; Contains: RecName: Full=Capsid protein p26; Short=CA; Contains: RecName: Full=Transframe peptide; AltName: Full=p11; Contains: RecName: Full=Protease; AltName: Full=P119; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; AltName: Full=P72; Contains: RecName: Full=Integrase; Short=IN [Jembrana disease virus] Sequence ID: Q82851.1 Length: 1432 Range 1: 542 to 1079 Score:368 bits(945), Expect:1e-112, Method:Compositional matrix adjust., Identities:221/556(40%), Positives:332/556(59%), Gaps:21/556(3%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I+ +PVKL GP+V QWPLT EK +AL+EI E+ K+GKISR +NP+NTP+F IK Sbjct 542 IQPLPVKLHG--PGPRVPQWPLTLEKYKALKEIVEELLKDGKISRTPWDNPFNTPVFVIK 599 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK +KWR L+DFR LNK T E Q+G+P+P G++Q + +T +D+ DAYF+ PLD++F Sbjct 600 KKGGSKWRMLMDFRALNKVTNKGQEFQIGLPYPPGIQQCEHITAIDIKDAYFTIPLDENF 659 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YTAF++ +N E P RY +NVLPQGW SPAI+Q+T +I+ +++ P+I++YQYM Sbjct 660 RQYTAFSVVPVNREGPLERYHWNVLPQGWVCSPAIYQTTTQEIIAEIKDRFPDIVLYQYM 719 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL +GSD H+ V ++R+ L +GF TP++K Q+E W+GYEL P +W QP Sbjct 720 DDLLIGSD--RPDHKRVVSEIREELGAYGFKTPEEKIQEE-QVQWLGYELTPKRWRFQPR 776 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRV--KQLCKLIRGTKALTEVVNFTEEAELE 302 ++ K V TVN++Q+++G W + P +++ L L++G L + + TEEA Sbjct 777 QIKIKKVVTVNELQQMIGNCVW---VQPEVKIPLSPLSDLLKGKTDLKDKIKLTEEAIQC 833 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 L + LK+P G ELV +IQ +G Y + Q+ N G H Sbjct 834 LETVNKRLKDPEWKERIKEGTELVVKIQLIPEGV-VYDLLQD--GNPIWGGVKGWDYNHA 890 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 N IK+++ +++K++ +++ G+ F +P E WE+ T IPE +F Sbjct 891 NKIKKMLSIMKKLSRIVMIMTGREVSFLIPGDSEDWESALQRINTLTEIPEVKFYKH--- 947 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 W + I T+Y DG + +K A + + R++V TNQ+AEL+A+ Sbjct 948 ACRWTSVCGPVIERYPTYYTDG-GKKGSKAAAAYWREGKIRREVFP---GTNQQAELKAV 1003 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKSESE-LVSQIIEELIKKERVYLSWVPAHKG 541 LMALQ+ +NI+TDS+YA + +P+ E L +I EEL +KE V +SWVP HKG Sbjct 1004 LMALQDGPAKMNIITDSRYAFEGMREEPETWGREGLWKEIGEELRRKEYVGVSWVPGHKG 1063 Query 542 IGGNEQVDKLVSSGIR 557 IGGN +VD+ V ++ Sbjct 1064 IGGNTEVDQEVQKALQ 1079 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p16; Contains: RecName: Full=Capsid protein p25; Contains: RecName: Full=Nucleocapsid protein p14; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Visna/maedi virus EV1 KV1772] Sequence ID: P35956.2 Length: 1506 Range 1: 548 to 1089 Score:364 bits(934), Expect:1e-110, Method:Compositional matrix adjust., Identities:220/553(40%), Positives:321/553(58%), Gaps:15/553(2%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I + V+LK G GP + QWPLT EK+E L+EI +EKEGK+ R P NTPIF IK Sbjct 548 IPSTRVRLKEGCKGPHIAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIK 607 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + + Sbjct 608 KK-SGKWRMLIDFRELNKQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPY 666 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YT FT+ S NN P +RY + VLPQGWK SPA++Q TM KIL + E+HP I YM Sbjct 667 RQYTCFTMLSPNNLGPCVRYYWKVLPQGWKLSPAVYQFTMQKILRGWIEEHPMIQFGIYM 726 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GSDL L +HR V +L ++ ++GF P+ K Q+ P W+G+ELHP+KW Q Sbjct 727 DDIYIGSDLGLEEHRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKH 786 Query 245 KLPE--KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 LPE + T+N +QKLVG L W + G + + KL+ G +AL E Sbjct 787 TLPEITEGPITLNKLQKLVGDLVWRQSLI-GKSIPNILKLMEGDRALQSERYIESIHVRE 845 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 R+ LKE + G YYD K++ ++ G Y ++QE K L +++ Sbjct 846 WEACRQKLKE-MEGNYYDEEKDIYGQLD-WGNKAIEYIVFQEKGKPLWVNVVHSIKN--L 901 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 + +Q+++ +K+ E I+ GK P LP ++E W W+P + + Sbjct 902 SQAQQIIKAAQKLTQEVIIRTGKIPWILLPGREEDW-ILELQMGNINWMPSFWSCYKGSV 960 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 + E + G T+Y DG ++ G G++T G +K + TNQ+ EL+AI Sbjct 961 RWKKRNVIAEVVPGP-TYYTDGG--KKNGRGSLGYITSTG-EKFRIHEEGTNQQLELRAI 1016 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAHK 540 A ++ +NIVTDS+YA + D+ + + ++I+E + KE++ + WVP HK Sbjct 1017 EEACKQGPEKMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHK 1076 Query 541 GIGGNEQVDKLVS 553 GI NE++D+ +S Sbjct 1077 GIPQNEEIDRYIS 1089 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p16; Contains: RecName: Full=Capsid protein p25; Contains: RecName: Full=Nucleocapsid protein p14; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Visna lentivirus (strain 1514 / clone LV1-1KS1)] Sequence ID: P23426.2 Length: 1506 Range 1: 548 to 1089 Score:363 bits(933), Expect:1e-110, Method:Compositional matrix adjust., Identities:219/553(40%), Positives:320/553(57%), Gaps:15/553(2%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I V+LK G GP + QWPLT EK+E L+EI +EKEGK+ R P NTPIF IK Sbjct 548 IPITEVRLKEGCKGPHIAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIK 607 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + + Sbjct 608 KK-SGKWRMLIDFRELNKQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPY 666 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YT FT+ S NN P +RY + VLPQGWK SP+++Q TM KIL + E+HP I YM Sbjct 667 RQYTCFTMLSPNNLGPCVRYYWKVLPQGWKLSPSVYQFTMQKILRGWIEEHPMIQFGIYM 726 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GSDL L +HR V +L ++ ++GF P+ K Q+ P W+G+ELHP+KW Q Sbjct 727 DDIYIGSDLGLEEHRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKH 786 Query 245 KLPE--KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 LPE + T+N +QKLVG L W + G + + KL+ G +AL E Sbjct 787 TLPEITEGPITLNKLQKLVGDLVWRQSLI-GKSIPNILKLMEGDRALQSERYIESIHVRE 845 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 R+ LKE + G YYD K++ ++ G Y ++QE K L +++ Sbjct 846 WEACRQKLKE-MEGNYYDEEKDIYGQLD-WGNKAIEYIVFQEKGKPLWVNVVHSIKN--L 901 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 + +Q+++ +K+ E I+ GK P LP ++E W W+P + + Sbjct 902 SQAQQIIKAAQKLTQEVIIRTGKIPWILLPGREEDW-ILELQMGNINWMPSFWSCYKGSV 960 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 + E +SG T+Y DG ++ G G++ G +K + TNQ+ EL+AI Sbjct 961 RWKKRNVIAEVVSGP-TYYTDGG--KKNGRGSLGYIASTG-EKFRIYEEGTNQQLELRAI 1016 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAHK 540 A ++ +NIVTDS+YA + D+ + + ++I+E + KE++ + WVP HK Sbjct 1017 EEACKQGPEKMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELMHNKEKIGVHWVPGHK 1076 Query 541 GIGGNEQVDKLVS 553 GI NE++D+ +S Sbjct 1077 GIPQNEEIDRYIS 1089 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p16; Contains: RecName: Full=Capsid protein p25; Contains: RecName: Full=Nucleocapsid protein p14; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Visna lentivirus (strain 1514 / clone LV1-1KS2)] Sequence ID: P23427.2 Length: 1506 Range 1: 548 to 1089 Score:362 bits(929), Expect:5e-110, Method:Compositional matrix adjust., Identities:219/553(40%), Positives:320/553(57%), Gaps:15/553(2%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I + V+LK G GP + QWPLT EK+E L+EI +EKEGK+ R P NTPIF IK Sbjct 548 IPSTRVRLKEGCKGPHIAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIK 607 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + + Sbjct 608 KK-SGKWRMLIDFRELNKQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPY 666 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YT FT+ S NN P +RY + VLPQGWK SPA++Q TM KIL + E+HP I YM Sbjct 667 RQYTCFTMLSPNNLGPCVRYYWKVLPQGWKLSPAVYQFTMQKILRGWIEEHPMIQFGIYM 726 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GSDL L +HR V +L ++ ++GF P+ K Q+ P W+G+ELHP+KW Q Sbjct 727 DDIYIGSDLGLEEHRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKH 786 Query 245 KLPE--KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 LPE + T+N +QKLVG L W + G + + KL+ G +AL E Sbjct 787 TLPEITEGPITLNKLQKLVGDLVWRQSLI-GKSIPNILKLMEGDRALQSERYIESIHVRE 845 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 R+ LKE + G YYD K++ ++ G Y ++QE K L +++ Sbjct 846 WEACRQKLKE-MEGNYYDEEKDIYGQLD-WGNKAIEYIVFQEKGKPLWVNVVHSIKN--L 901 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 + +Q+++ +K+ E I+ GK P LP ++E W W+P + + Sbjct 902 SQAQQIIKAAQKLTQEVIIRTGKIPWILLPGREEDW-ILELQMGNINWMPSFWSCYKGSV 960 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 + E + G T+Y DG ++ G G++ G +K + TNQ+ EL+AI Sbjct 961 RWKKRNVIAEVVPGP-TYYTDGG--KKNGRGSLGYIASTG-EKFRIHEEGTNQQLELRAI 1016 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAHK 540 A ++ +NIVTDS+YA + D+ + + ++I+E + KE++ + WVP HK Sbjct 1017 EEACKQGPEKMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHK 1076 Query 541 GIGGNEQVDKLVS 553 GI NE++D+ +S Sbjct 1077 GIPQNEEIDRYIS 1089 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p16; Contains: RecName: Full=Capsid protein p25; Contains: RecName: Full=Nucleocapsid protein p14; Contains: RecName: Full=Protease; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; Contains: RecName: Full=Deoxyuridine 5'-triphosphate nucleotidohydrolase; Short=dUTPase; Contains: RecName: Full=Integrase; Short=IN [Visna lentivirus (strain 1514)] Sequence ID: P03370.2 Length: 1506 Range 1: 548 to 1089 Score:362 bits(928), Expect:7e-110, Method:Compositional matrix adjust., Identities:219/553(40%), Positives:320/553(57%), Gaps:15/553(2%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 I + V+LK G GP + QWPLT EK+E L+EI +EKEGK+ R P NTPIF IK Sbjct 548 IPSTRVRLKEGCKGPHIAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIK 607 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK S KWR L+DFRELNK+T+D E QLG+PHP GL++KK VT+LD+GDAYF+ PL + + Sbjct 608 KK-SGKWRMLIDFRELNKQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPY 666 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R+YT FT+ S NN P +RY + VLPQGWK SPA++Q TM KIL + E+HP I YM Sbjct 667 RQYTCFTMLSPNNLGPCVRYYWKVLPQGWKLSPAVYQFTMQKILRGWIEEHPMIQFGIYM 726 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DD+Y+GSDL L +HR V +L ++ ++GF P+ K Q+ P W+G+ELHP+KW Q Sbjct 727 DDIYIGSDLGLEEHRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKH 786 Query 245 KLPE--KDVWTVNDIQKLVGKLNWASQIYPGIRVKQLCKLIRGTKALTEVVNFTEEAELE 302 LPE + T+N +QKLVG L W + G + + KL+ G +AL E Sbjct 787 TLPEITEGPITLNKLQKLVGDLVWRQSLI-GKSIPNILKLMEGDRALQSERYIESIHVRE 845 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 R+ LKE + G YYD K++ ++ G Y ++QE K L +++ Sbjct 846 WEACRQKLKE-MEGNYYDEEKDIYGQLD-WGNKAIEYIVFQEKGKPLWVNVVHSIKN--L 901 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 + +Q+++ +K+ E I+ GK P LP ++E W W+P + + Sbjct 902 SQAQQIIKAAQKLTQEVIIRTGKIPWILLPGREEDW-ILELQMGNINWMPSFWSCYKGSV 960 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 + E + G T+Y DG ++ G G++ G +K + TNQ+ EL+AI Sbjct 961 RWKKRNVIAELVPGP-TYYTDGG--KKNGRGSLGYIASTG-EKFRIHEEGTNQQLELRAI 1016 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKS--ESELVSQIIEELIKKERVYLSWVPAHK 540 A ++ +NIVTDS+YA + D+ + + ++I+E + KE++ + WVP HK Sbjct 1017 EEACKQGPEKMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHK 1076 Query 541 GIGGNEQVDKLVS 553 GI NE++D+ +S Sbjct 1077 GIPQNEEIDRYIS 1089 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol; Contains: RecName: Full=Matrix protein p16; Short=MA; Contains: RecName: Full=p2L; Contains: RecName: Full=Capsid protein p26; Short=CA; Contains: RecName: Full=p3; Contains: RecName: Full=Transframe peptide; AltName: Full=p11; Contains: RecName: Full=Protease; AltName: Full=P119; AltName: Full=Retropepsin; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=Exoribonuclease H; AltName: Full=P72; Contains: RecName: Full=Integrase; Short=IN [Bovine immunodeficiency virus R29] Sequence ID: P19560.2 Length: 1475 Range 1: 582 to 1121 Score:348 bits(893), Expect:4e-105, Method:Compositional matrix adjust., Identities:216/558(39%), Positives:320/558(57%), Gaps:21/558(3%) Query 5 IETVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIK 64 IE +PVK++ GPKV QWPLT EK +AL+EI ++ EGKIS +NPYNTP+F IK Sbjct 582 IEPLPVKVR--GPGPKVPQWPLTKEKYQALKEIVKDLLAEGKISEAAWDNPYNTPVFVIK 639 Query 65 KKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDF 124 KK + +WR L+DFRELNK T E G+P+P G+K+ + +T +D+ DAYF+ PL +DF Sbjct 640 KKGTGRWRMLMDFRELNKITVKGQEFSTGLPYPPGIKECEHLTAIDIKDAYFTIPLHEDF 699 Query 125 RKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYM 184 R +TAF++ +N E P R+Q+NVLPQGW SPAI+Q+T KI+E ++ HP++++YQYM Sbjct 700 RPFTAFSVVPVNREGPIERFQWNVLPQGWVCSPAIYQTTTQKIIENIKKSHPDVMLYQYM 759 Query 185 DDLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI 244 DDL +GS+ + H++ V+++RD L +GF TPD+K Q+E W+G+EL P KW QP Sbjct 760 DDLLIGSNRD--DHKQIVQEIRDKLGSYGFKTPDEKVQEE-RVKWIGFELTPKKWRFQPR 816 Query 245 KLPEKDVWTVNDIQKLVGKLNWASQIYPGIRVK--QLCKLIRGTKALTEVVNFTEEAELE 302 +L K+ TVN++Q+LVG W + P +++ L L+R L E + T EA Sbjct 817 QLKIKNPLTVNELQQLVGNCVW---VQPEVKIPLYPLTDLLRDKTNLQEKIQLTPEAIKC 873 Query 303 LAENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 + E LK+P G ELV +IQ +G + + Q+ N G + H+ Sbjct 874 VEEFNLKLKDPEWKDRIREGAELVIKIQMVPRG-IVFDLLQD--GNPIWGGVKGLNYDHS 930 Query 363 NDIKQLVEVVRKVATESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPL 422 N IK+++ + ++ +++ G+ F LP E WEA T I +F Sbjct 931 NKIKKILRTMNELNRTVVIMTGREASFLLPGSSEDWEAALQKEESLTQIFPVKFYRHS-- 988 Query 423 VKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQKAELQAI 482 W + T+Y DG +T A GR K + TNQ+AEL+AI Sbjct 989 -CRWTSICGPVRENLTTYYTDGGKKGKT---AAAVYWCEGRTK-SKVFPGTNQQAELKAI 1043 Query 483 LMALQESGRDVNIVTDSQYAMGIIHSQPDKSESELV-SQIIEELIKKERVYLSWVPAHKG 541 MAL + +NI+TDS+YA + +P+ E + +I + L K+ V + WVPAHKG Sbjct 1044 CMALLDGPPKMNIITDSRYAYEGMREEPETWAREGIWLEIAKILPFKQYVGVGWVPAHKG 1103 Query 542 IGGNEQVDKLVSSGIRKI 559 IGGN + D+ V + ++ Sbjct 1104 IGGNTEADEGVKKALEQM 1121 >RecName: Full=Endogenous retrovirus group K member 7 Pol protein; AltName: Full=HERV-K(III) Pol protein; AltName: Full=HERV-K102 Pol protein; AltName: Full=HERV-K_1q22 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: P63135.1 Length: 1459 Range 1: 36 to 591 Score:197 bits(502), Expect:8e-53, Method:Compositional matrix adjust., Identities:174/590(29%), Positives:282/590(47%), Gaps:86/590(14%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ A+ Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCA-----AET 205 Query 199 REAVED----LRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTV 254 R+ + D L+ + G K Q PF ++G ++ K Q I++ + + T+ Sbjct 206 RDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKQQKIEIRKDTLKTL 265 Query 255 NDIQKLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE----- 305 ND QKL+G +NW P + L ++RG L T EA E++L E Sbjct 266 NDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQS 325 Query 306 ---NREILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAH 361 NR PL + + I Q +W++ H +KT Sbjct 326 AQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------F 372 Query 362 TNDIKQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV- 417 T + Q+ ++ + I + G P K +P+ KE V +A+ + WQ I FV Sbjct 373 TLYLDQIATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVG 429 Query 418 ---NTPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGR 463 N P K++ L+ EP+ A T + DG++N GKA + + R Sbjct 430 IIDNHYPKTKIFQFLKLTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER 484 Query 464 QKVVSIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSES 515 V+ + Q+AEL A++ LQ+ + +NI++DS Y + +I D + Sbjct 485 --VIKTPYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLN 542 Query 516 ELVSQIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 +L + ++++ ++K Y++ + AH + G NEQ D LVSS + K Sbjct 543 QLFN-LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSALIK 591 >RecName: Full=Endogenous retrovirus group K member 18 Pol protein; AltName: Full=HERV-K(C1a) Pol protein; AltName: Full=HERV-K110 Pol protein; AltName: Full=HERV-K18 Pol protein; AltName: Full=HERV-K_1q23.3 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Includes: RecName: Full=Ribonuclease H; Short=RNase H [Homo sapiens] Sequence ID: Q9QC07.2 Length: 812 Range 1: 36 to 591 Score:195 bits(496), Expect:1e-52, Method:Compositional matrix adjust., Identities:169/586(29%), Positives:278/586(47%), Gaps:78/586(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S+KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SSKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P R+K + I Y DD+ ++ + + Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVRDKFSDCYIIHYFDDILCAAETK-DKL 209 Query 199 REAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQ 258 + L+ + G K Q PF ++G ++ K Q I++ + + T+ND Q Sbjct 210 IDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKTLNDFQ 269 Query 259 KLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------N 306 KL+G +NW P + L ++RG L T EA E++L E N Sbjct 270 KLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQSAQIN 329 Query 307 REILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDI 365 R PL + + I Q +W++ H +KT T + Sbjct 330 RIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYL 376 Query 366 KQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV----N 418 Q+ ++ I + G P K +P+ KE V +A+ + WQ I FV N Sbjct 377 DQIATLIGPTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGIIDN 433 Query 419 TPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVV 467 P K++ L+ EP+ A T + DG++N GK + + R V+ Sbjct 434 HYPKTKIFQFLKLTTWILPKITRREPLENALTVFTDGSSN-----GKVAYTGPKER--VI 486 Query 468 SIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVS 519 + Q+AEL A++ LQ+ + +NI++DS Y + +I D ++L + Sbjct 487 KTPYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLNQLFN 546 Query 520 QIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++ + AH + G NEQ D LVSS K Sbjct 547 -LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSAFIK 591 >RecName: Full=Endogenous retrovirus group K member 11 Pol protein; AltName: Full=HERV-K_3q27.2 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: Q9UQG0.2 Length: 969 Range 1: 36 to 591 Score:196 bits(498), Expect:1e-52, Method:Compositional matrix adjust., Identities:170/586(29%), Positives:281/586(47%), Gaps:78/586(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ ++ + + Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAETK-DKL 209 Query 199 REAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQ 258 + L+ + G K Q PF ++G ++ K Q I++ + + T+ND Q Sbjct 210 IDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKTLNDFQ 269 Query 259 KLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------N 306 KL+G +NW P + L ++RG L T EA E++L E N Sbjct 270 KLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQSAQIN 329 Query 307 REILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDI 365 R PL + + I Q +W++ H +KT T + Sbjct 330 RIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYL 376 Query 366 KQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV----N 418 Q+ ++ + I + G P K +P+ KE V +A+ + WQ I FV N Sbjct 377 DQIATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGIIDN 433 Query 419 TPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVV 467 P K++ L+ EP+ A T + DG++N GKA + + R V+ Sbjct 434 HYPKTKIFQFLKMTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER--VI 486 Query 468 SIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVS 519 + Q+AEL A++ LQ+ + +NI++DS Y + +I D ++L + Sbjct 487 KTPYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLNQLFN 546 Query 520 QIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++ + AH + G NE+ D LVSS + K Sbjct 547 -LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEEADLLVSSALIK 591 >RecName: Full=Endogenous retrovirus group K member 8 Pol protein; AltName: Full=HERV-K115 Pol protein; AltName: Full=HERV-K_8p23.1 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: P63133.1 Length: 956 Range 1: 36 to 591 Score:195 bits(496), Expect:3e-52, Method:Compositional matrix adjust., Identities:170/586(29%), Positives:281/586(47%), Gaps:78/586(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P R+K + I Y+DD+ ++ + + Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVRKKFSDCYIIHYIDDILCAAETK-DKL 209 Query 199 REAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQ 258 + L+ + G K Q PF ++G ++ K Q I++ + + T+ND Q Sbjct 210 IDCYTFLQAEVASAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKTLNDFQ 269 Query 259 KLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------N 306 KL+G +NW P + L ++RG L T EA E++L E N Sbjct 270 KLLGDINWIQPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQSAQIN 329 Query 307 REILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDI 365 R PL + + I Q +W++ H +KT T + Sbjct 330 RIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYL 376 Query 366 KQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV----N 418 Q+ ++ + I + G P K +P+ KE V +A+ + WQ I FV N Sbjct 377 DQIATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGIIDN 433 Query 419 TPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVV 467 P K++ L+ EP+ A T + DG++N GKA + + R V+ Sbjct 434 HYPKTKIFQFLKLTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER--VI 486 Query 468 SIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVS 519 + Q+AEL A++ LQ+ + +NI++DS Y + +I D ++L + Sbjct 487 KTPYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRVVETALIKYSMDDQLNQLFN 546 Query 520 QIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++ + AH + G NEQ D LVSS + K Sbjct 547 -LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSALIK 591 >RecName: Full=Endogenous retrovirus group K member 6 Pol protein; AltName: Full=HERV-K(C7) Pol protein; AltName: Full=HERV-K(HML-2.HOM) Pol protein; AltName: Full=HERV-K108 Pol protein; AltName: Full=HERV-K_7p22.1 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: Q9BXR3.2 Length: 956 Range 1: 36 to 591 Score:193 bits(491), Expect:1e-51, Method:Compositional matrix adjust., Identities:167/586(28%), Positives:279/586(47%), Gaps:78/586(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P REK + I +DD+ ++ + + Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHCIDDILCAAETK-DKL 209 Query 199 REAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQ 258 + L+ + G K Q PF ++G ++ K Q I++ + + T+ND Q Sbjct 210 IDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKTLNDFQ 269 Query 259 KLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------N 306 KL+G +NW P + L ++RG L T EA E++L E N Sbjct 270 KLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQSAQIN 329 Query 307 REILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDI 365 R PL + + I Q +W++ H +KT T + Sbjct 330 RIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYL 376 Query 366 KQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWWT----------------DHWQ 407 Q+ ++ + I + G P K +P+ KE V +A+ +H+ Sbjct 377 DQIATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWKIGLANFVGIIDNHYP 436 Query 408 ATWIPEWEFVNTPPLVKLWYQLETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVV 467 T I ++ + T L K+ EP+ A T + DG++N GKA + + R V+ Sbjct 437 KTKIFQFLKLTTWILPKI---TRREPLENALTVFTDGSSN-----GKAAYTGPKER--VI 486 Query 468 SIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVS 519 + Q+AEL A++ LQ+ + +NI++DS Y + +I D ++L + Sbjct 487 KTPYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLNQLFN 546 Query 520 QIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++ + AH + G NEQ D LVSS + K Sbjct 547 -LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSALIK 591 >RecName: Full=Endogenous retrovirus group K member 25 Pol protein; AltName: Full=HERV-K_11q22.1 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: P63136.1 Length: 954 Range 1: 36 to 589 Score:192 bits(488), Expect:3e-51, Method:Compositional matrix adjust., Identities:170/586(29%), Positives:280/586(47%), Gaps:80/586(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNE 138 +N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 92 VNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNK 150 Query 139 TPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQH 198 P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ ++ + + Sbjct 151 EPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAETK-DKL 209 Query 199 REAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQ 258 + L+ + G K Q PF ++G ++ K Q I++ + + +ND Q Sbjct 210 IDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKALNDFQ 269 Query 259 KLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------N 306 KL+G +NW P + L ++RG L T EA E++L E N Sbjct 270 KLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQSAQIN 329 Query 307 REILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDI 365 R PL + + I Q +W++ H +KT T + Sbjct 330 RIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYL 376 Query 366 KQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV----N 418 Q+ ++ + I + G P K +P+ KE V +A+ + WQ I FV N Sbjct 377 DQIATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGIIDN 433 Query 419 TPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVV 467 P K++ L+ EP+ A T + DG++N GKA + + R V+ Sbjct 434 HYPKTKIFQFLKLTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER--VI 486 Query 468 SIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVS 519 + Q+AEL A++ LQ+ D+NI++DS Y + +I D ++L + Sbjct 487 KTPYQSAQRAELVAVITVLQDF--DINIISDSAYVVQATRDVETALIKYSMDDQLNQLFN 544 Query 520 QIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++ + AH + G N+Q D LVSS + K Sbjct 545 -LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANKQADLLVSSALIK 589 >RecName: Full=Endogenous retrovirus group K member 10 Pol protein; AltName: Full=HERV-K10 Pol protein; AltName: Full=HERV-K107 Pol protein; AltName: Full=HERV-K_5q33.3 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: P10266.2 Length: 1014 Range 1: 36 to 591 Score:192 bits(489), Expect:3e-51, Method:Compositional matrix adjust., Identities:167/585(29%), Positives:278/585(47%), Gaps:76/585(12%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPL +K+EAL + E ++G I +P+N+P+F I+KK S KW L D R + Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE--PSFSPWNSPVFVIQKK-SGKWHTLTDLRAV 92 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSINNET 139 N Q +Q G+P PA + + + ++D+ D +F+ PL ++D K+ AFTIP+INN+ Sbjct 93 NAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAINNKE 151 Query 140 PGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHR 199 P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ ++ + + Sbjct 152 PATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAETK-DKLI 210 Query 200 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 259 + L+ + G K Q PF ++G ++ K Q I++ + + T+ND QK Sbjct 211 DCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKTLNDFQK 270 Query 260 LVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE--------NR 307 L+G +NW P + L ++RG L T EA E++L E NR Sbjct 271 LLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSQRILTPEATKEIKLVEEKIQSAQINR 330 Query 308 EILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIK 366 PL + + I Q +W++ H +KT T + Sbjct 331 IDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FTLYLD 377 Query 367 QLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV----NT 419 Q+ ++ + + G P K +P+ KE V +A+ + WQ I FV N Sbjct 378 QIATLIGQTRLRITKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGLIDNH 434 Query 420 PPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVS 468 P K++ L+ EP+ A T + DG++N GKA + + R V+ Sbjct 435 YPKTKIFQFLKLTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER--VIK 487 Query 469 IADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESELVSQ 520 + Q+ EL A++ LQ+ + +NI++DS Y + +I D ++L + Sbjct 488 TPYQSAQRDELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLNQLFN- 546 Query 521 IIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++++ ++K Y++++ AH + G NEQ D LVSS + K Sbjct 547 LLQQTVRKRNFPFYITYIRAHTNLPGPLTKANEQADLLVSSALIK 591 >RecName: Full=Endogenous retrovirus group K member 113 Pol protein; AltName: Full=HERV-K113 Pol protein; AltName: Full=HERV-K_19p13.11 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: P63132.2 Length: 959 Range 1: 36 to 594 Score:185 bits(469), Expect:9e-49, Method:Compositional matrix adjust., Identities:169/592(29%), Positives:281/592(47%), Gaps:87/592(14%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRT---QDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSI 135 +N Q +Q G+P A + + + ++D+ D +F+ PL ++D K+ AFTIP+I Sbjct 92 VNAVNAVIQPMGPLQPGLPSLAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAI 150 Query 136 NNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLEL 195 NN+ P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ ++ + Sbjct 151 NNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAETK- 209 Query 196 AQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVN 255 + + L+ + G K Q PF ++G ++ K I++ + + T+N Sbjct 210 DKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPPKIEIRKDTLKTLN 269 Query 256 DIQKLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE------ 305 D QKL+G +NW P + L ++RG L T EA E++L E Sbjct 270 DFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQSA 329 Query 306 --NR----EILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRS 359 NR L+ + + P + IQ +W++ H +KT Sbjct 330 QINRIDPLATLQLLIFATAHSPTGII---IQNTDLVEWSFLP----HSTVKT-------- 374 Query 360 AHTNDIKQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEF 416 T + Q+ ++ + I + G P K +P+ KE V +A+ + WQ I F Sbjct 375 -FTLYLDQMATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANF 430 Query 417 V----NTPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDR 461 V N P K++ L+ EP+ A T + DG++N GKA + + Sbjct 431 VGIIDNHYPKTKIFQFLKMTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPK 485 Query 462 GRQKVVSIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKS 513 R V+ + Q+AEL A++ LQ+ + +NI++DS Y + +I D Sbjct 486 ER--VIKTQYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQ 543 Query 514 ESELVSQIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 ++L + ++++ ++K Y++ + AH + G NEQ D LVSS + K Sbjct 544 LNQLFN-LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSALIK 594 >RecName: Full=Endogenous retrovirus group K member 19 Pol protein; AltName: Full=HERV-K(C19) Pol protein; AltName: Full=HERV-K_19q11 provirus ancestral Pol protein; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H; Short=RNase H; Includes: RecName: Full=Integrase; Short=IN [Homo sapiens] Sequence ID: Q9WJR5.2 Length: 959 Range 1: 36 to 594 Score:184 bits(467), Expect:2e-48, Method:Compositional matrix adjust., Identities:168/589(29%), Positives:279/589(47%), Gaps:81/589(13%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPL +K+EAL + E ++G I P +P+N+P+F I+KK S KWR L D R Sbjct 36 VNQWPLPKQKLEALHLLANEQLEKGHIE---PSFSPWNSPVFVIQKK-SGKWRMLTDLRA 91 Query 80 LNKRT---QDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPL-DKDFRKYTAFTIPSI 135 +N Q +Q G+P A + + + ++D+ D +F+ PL ++D K+ AFTIP+I Sbjct 92 VNAVNAVIQPMGPLQPGLPSLAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKF-AFTIPAI 150 Query 136 NNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLEL 195 NN+ P R+Q+ VLPQG SP I Q+ + + L+P REK + I Y+DD+ ++++ Sbjct 151 NNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAEMK- 209 Query 196 AQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVN 255 + + L+ + G K Q PF ++ ++ K I++ + + T+N Sbjct 210 DKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLEMQIENRKIKPPKIEIRKDTLKTLN 269 Query 256 DIQKLVGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEA--ELELAE------ 305 D QKL+G +NW P + L ++RG L T EA E++L E Sbjct 270 DFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQSA 329 Query 306 --NREILKEPLHGVYYDPGKELVAEI-QKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHT 362 NR PL + + I Q +W++ H +KT T Sbjct 330 QINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLP----HSTVKT---------FT 376 Query 363 NDIKQLVEVVRKVATESIVIWGKTP-KFRLPVQKE-VWEAWW-TDHWQATWIPEWEFV-- 417 + Q+ ++ + I + G P K +P+ KE V +A+ + WQ I FV Sbjct 377 LYLDQMATLIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQ---IGLANFVGI 433 Query 418 --NTPPLVKLWYQLET-----------EPISGAETFYVDGAANRETKLGKAGFVTDRGRQ 464 N P K++ L+ EP+ A T + DG++N GKA + + R Sbjct 434 IDNHYPKTKIFQFLKMTTWILPKITRREPLENALTVFTDGSSN-----GKAAYTGPKER- 487 Query 465 KVVSIADTTNQKAELQAILMALQESGRDVNIVTDSQYAM--------GIIHSQPDKSESE 516 V+ + Q+AEL A++ LQ+ + +NI++DS Y + +I D ++ Sbjct 488 -VIKTQYQSAQRAELVAVITVLQDFDQPINIISDSAYVVQATRDVETALIKYSMDDQLNQ 546 Query 517 LVSQIIEELIKKER--VYLSWVPAHKGIGG-----NEQVDKLVSSGIRK 558 L + ++++ ++K Y++ + AH + G NEQ D LVSS + K Sbjct 547 LFN-LLQQTVRKRNFPFYITHIRAHTNLPGPLTKANEQADLLVSSALIK 594 >RecName: Full=Intracisternal A-particle Pol-related polyprotein; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Mouse intracisternal A-particle MIA14] Sequence ID: P11368.1 Length: 867 Range 1: 31 to 584 Score:177 bits(449), Expect:3e-46, Method:Compositional matrix adjust., Identities:164/588(28%), Positives:265/588(45%), Gaps:86/588(14%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKKKDSTKWRKLVDFRE 79 V QW L++EK+EA+ ++ +E++ K+ I P +P+NTPIF IKKK S KWR L D R Sbjct 31 VPQWHLSSEKLEAVIQL---VEEQLKLGHIDPSTSPWNTPIFVIKKK-SGKWRLLHDLRP 86 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNET 139 +N++ F VQ G+P + L + ++ ++D+ D +FS PL R AFTIPSIN++ Sbjct 87 INEQMNLFGPVQRGLPVLSALPRGWNLIIIDIKDCFFSIPLCPRDRPRFAFTIPSINSDE 146 Query 140 PGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHR 199 P RYQ+ VLPQG SP + Q + + L P RE+ P +I+ YMDD+ + EL + Sbjct 147 PDNRYQWKVLPQGMSNSPTMCQLYVQEALLPVREQFPSLILLLYMDDILLCHK-ELTMLQ 205 Query 200 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 259 +A L L +WG +K Q ++G + PDK Q +++ + T+N+ QK Sbjct 206 KAYPFLLKTLSQWGLQIATEKVQISDTGQFLGSVVSPDKIVPQKVEIRRDHLHTLNNFQK 265 Query 260 LVGKLNWASQIY--PGIRVKQLCKLIRG--------------TKALTEVVNFTEEAELEL 303 L+G +NW P ++ L + G +AL +V + A+L+ Sbjct 266 LLGDINWLRPFLKIPSAELRPLFWYLEGDPHISSPRTLTLAANQALQKVEKALQNAQLQA 325 Query 304 AENREILKEPLHGVYYDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTN 363 E+ +P + + A + + G W +H N+ AK+ + + Sbjct 326 IED----SQPFSLCVFKTAQLPTAVLWQNGPLLW-------IHPNVSP---AKIIDWYPD 371 Query 364 DIKQLVEVVRKVATESIVIWGKTPKF-----------RLPVQKEVWEAWWT-------DH 405 I QL K A I +G++P L W T +H Sbjct 372 AIAQLALKGLKAA---ITHFGRSPYLLIVPYTAAQVQTLAATSNDWAVLVTSFSGKIDNH 428 Query 406 WQATWIPEWEFVNTPPLVKLWYQLET-EPISGAETFYVDGAANRETKLGKAGFVTDRGRQ 464 + P +F +V + Q+ P+ Y DG +K G +V + Sbjct 429 YPKH--PILQFAQNQSVV--FPQITVRNPLKNGIVVYTDG-----SKTGIGAYVAN---G 476 Query 465 KVVS--IADTTNQKAELQAILMALQESGRDVNIVTDSQYAMGIIH-------SQPDKSES 515 KVVS + + + E +L L+ +NIV+DS Y + ++ +P + Sbjct 477 KVVSKQYNENSPRMVECLVVLEVLKTFLEPLNIVSDSCYVVNAVNLLEGGWSDKPSSRVA 536 Query 516 ELVSQIIEELIKKERVYLSWVPAHKG-------IGGNEQVDKLVSSGI 556 + QI L+ + VY++ V AH G + GN+ DK S G Sbjct 537 NIFQQIQLVLLSRSPVYITHVRAHSGLPTSAPWLSGNDLADKATSGGC 584 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein; Contains: RecName: Full=p12; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease 17 kDa; Contains: RecName: Full=Protease 13 kDa; Contains: RecName: Full=G-patch peptide; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Jaagsiekte sheep retrovirus] Sequence ID: P31623.2 Length: 1726 Range 1: 890 to 1379 Score:177 bits(448), Expect:9e-46, Method:Compositional matrix adjust., Identities:138/510(27%), Positives:234/510(45%), Gaps:44/510(8%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPLT EK+ A +++ E + G I + +N+PIF IKKK S KWR L D R++ Sbjct 890 VDQWPLTQEKLSAAQQLVQEQLRLGHIEP--STSAWNSPIFVIKKK-SGKWRLLQDLRKV 946 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 140 N+ +Q G+P P+ + K + V+D+ D +++ PL K AF++PS+N + P Sbjct 947 NETMMHMGALQPGLPTPSAIPDKSYIIVIDLKDCFYTIPLAPQDCKRFAFSLPSVNFKEP 1006 Query 141 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHRE 200 RYQ+ VLPQG SP + Q + + P R++ P++ + YMDD+ + E + + Sbjct 1007 MQRYQWRVLPQGMTNSPTLCQKFVATAIAPVRQRFPQLYLVHYMDDILLAHTDEHLLY-Q 1065 Query 201 AVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQKL 260 A L+ HL G D+K Q P+ ++G+ L+P + Q +KL + T+ND QKL Sbjct 1066 AFSILKQHLSLNGLVIADEKIQTHFPYNYLGFSLYPRVYNTQLVKLQTDHLKTLNDFQKL 1125 Query 261 VGKLNWASQI--YPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENREILKEPLHGVY 318 +G +NW P ++ L +++G + E L E +++ Y Sbjct 1126 LGDINWIRPYLKLPTYTLQPLFDILKGDSDPASPRTLSLEGRTALQSIEEAIRQQ-QITY 1184 Query 319 YDPGKELVAEIQKQGQGQWTYQIYQELHKNLKTGKYAKMRSAHTNDIKQLV-EVVRKVAT 377 D + I + T +YQ+ K L+ + + H +LV +++ K Sbjct 1185 CDYQRSWGLYILPTPRAP-TGVLYQD--KPLRWIYLSATPTKHLLPYYELVAKIIAKGRH 1241 Query 378 ESIVIWGKTPKFRL---PVQKEVWEAWWTDHWQATWIPEWEFVNTPPLVKLWYQ------ 428 E+I +G P F ++++ W ++D+W F N P + Y Sbjct 1242 EAIQYFGMEPPFICVPYALEQQDWLFQFSDNWSIA------FANYPGQITHHYPSDKLLQ 1295 Query 429 ------------LETEPISGAETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQK 476 + +PI A + DG++N G A + + + + ++ Q Sbjct 1296 FASSHAFIFPKIVRRQPIPEATLIFTDGSSN-----GTAALIINH-QTYYAQTSFSSAQV 1349 Query 477 AELQAILMALQESGRDVNIVTDSQYAMGII 506 EL A+ AL N+ TDS Y +G + Sbjct 1350 VELFAVHQALLTVPTSFNLFTDSSYVVGAL 1379 >RecName: Full=Intracisternal A-particle Pol-related polyprotein; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Golden hamster intracisternal A-particle H18] Sequence ID: P04026.1 Length: 863 Range 1: 20 to 309 Score:173 bits(439), Expect:5e-45, Method:Compositional matrix adjust., Identities:107/294(36%), Positives:157/294(53%), Gaps:6/294(2%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPL++EK+EA+ + E E+ G + +P+NTPIF IKKK S KWR L D R + Sbjct 20 VSQWPLSSEKLEAVTRLVQEQERLGHLE--PSTSPWNTPIFVIKKK-SGKWRLLHDLRAI 76 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 140 N + F VQ G+P + L Q + ++D+ D +FS PL R AFTIPS+N+ P Sbjct 77 NNQMHLFGPVQRGLPLLSALPQDWKLIIIDIKDCFFSIPLYPRDRPRFAFTIPSLNHMEP 136 Query 141 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHRE 200 R+Q+ VLPQG SP I Q + + LEP R++ +I+ YMDD+ + EL ++ Sbjct 137 DKRFQWKVLPQGMANSPTICQLYVQEALEPIRKQFTSLIVIHYMDDILICHK-ELDVLQK 195 Query 201 AVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQKL 260 A L L +WG +K Q L++G ++ P Q I++ + + T+ND QKL Sbjct 196 AFPMLVAELKQWGLEIASEKVQIADTGLFLGSKITPKNIVPQKIEIRKDHLQTLNDFQKL 255 Query 261 VGKLNWASQIY--PGIRVKQLCKLIRGTKALTEVVNFTEEAELELAENREILKE 312 +G +NW P +K L L+ G ++ FT A L E L+E Sbjct 256 LGDINWLRPFLKIPSADLKPLFDLLEGEPHISSPRKFTPAAHRALQMVEEALQE 309 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p19; Contains: RecName: Full=p2A; Contains: RecName: Full=p2B; Contains: RecName: Full=p10; Contains: RecName: Full=Capsid protein p27, alternate cleaved 1; Contains: RecName: Full=Capsid protein p27, alternate cleaved 2; Contains: RecName: Full=Spacer peptide; Short=SP; AltName: Full=p3; Contains: RecName: Full=Nucleocapsid protein p12; AltName: Full=NCp12; Contains: RecName: Full=Protease p15; Contains: RecName: Full=Reverse transcriptase beta-subunit; Short=RT-beta; Contains: RecName: Full=Reverse transcriptase alpha-subunit; Short=RT-alpha; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=pp32; Contains: RecName: Full=p4 [Rous sarcoma virus - Prague C] Sequence ID: P03354.2 Length: 1603 Range 1: 715 to 969 Score:163 bits(412), Expect:3e-41, Method:Compositional matrix adjust., Identities:100/262(38%), Positives:146/262(55%), Gaps:9/262(3%) Query 7 TVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKK 65 +P+K KP + QWPL K+ AL ++ +EKE ++ I P + +NTP+F I+K Sbjct 715 AIPLKWKPDHTPVWIDQWPLPEGKLVALTQL---VEKELQLGHIEPSLSCWNTPVFVIRK 771 Query 66 KDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFR 125 S +R L D R +N + F VQ G P + L + + VLD+ D +FS PL + R Sbjct 772 A-SGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDR 830 Query 126 KYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMD 185 + AFT+PS+NN+ P R+Q+ VLPQG SP I Q + ++LEP R KHP + + YMD Sbjct 831 EAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLCMLHYMD 890 Query 186 DLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIK 245 DL + + A E++ L + GFT K Q+EP ++GY+L V P+ Sbjct 891 DLLLAASSHDGLE-AAGEEVISTLERAGFTISPDKVQREPGVQYLGYKL--GSTYVAPVG 947 Query 246 L-PEKDVWTVNDIQKLVGKLNW 266 L E + T+ D+QKLVG L W Sbjct 948 LVAEPRIATLWDVQKLVGSLQW 969 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p19; Contains: RecName: Full=p2A; Contains: RecName: Full=p2B; Contains: RecName: Full=p10; Contains: RecName: Full=Capsid protein p27, alternate cleaved 1; Contains: RecName: Full=Capsid protein p27, alternate cleaved 2; Contains: RecName: Full=Spacer peptide; Short=SP; AltName: Full=p3; Contains: RecName: Full=Nucleocapsid protein p12; AltName: Full=NCp12; Contains: RecName: Full=Protease p15; Contains: RecName: Full=Reverse transcriptase beta-subunit; Short=RT-beta; Contains: RecName: Full=Reverse transcriptase alpha-subunit; Short=RT-alpha; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=pp32; Contains: RecName: Full=p4 [Rous sarcoma virus - Schmidt-Ruppin B] Sequence ID: O92956.2 Length: 1603 Range 1: 715 to 969 Score:162 bits(410), Expect:6e-41, Method:Compositional matrix adjust., Identities:100/262(38%), Positives:147/262(56%), Gaps:9/262(3%) Query 7 TVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKK 65 +P+K KP + QWPL K+ AL ++ +EKE ++ I P + +NTP+F I+K Sbjct 715 AIPLKWKPDHTPVWIDQWPLPEGKLVALTQL---VEKELQLGHIEPSLSCWNTPVFVIRK 771 Query 66 KDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFR 125 S +R L D R +N + F VQ G P + L + + VLD+ D +FS PL + R Sbjct 772 A-SGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDR 830 Query 126 KYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMD 185 + AFT+PS+NN+ P R+Q+ VLPQG SP I Q + ++LEP R KHP + + YMD Sbjct 831 EAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMD 890 Query 186 DLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIK 245 DL + + A E++ + L + GFT K Q+EP ++GY+L V P+ Sbjct 891 DLLLAASSHDGLE-AAGEEVINTLERAGFTISPDKIQREPGVQYLGYKL--GSTYVAPVG 947 Query 246 L-PEKDVWTVNDIQKLVGKLNW 266 L E + T+ D+QKLVG L W Sbjct 948 LVAEPRIATLWDVQKLVGSLQW 969 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p19; Contains: RecName: Full=p2A; Contains: RecName: Full=p2B; Contains: RecName: Full=p10; Contains: RecName: Full=Capsid protein p27, alternate cleaved 1; Contains: RecName: Full=Capsid protein p27, alternate cleaved 2; Contains: RecName: Full=Spacer peptide; Short=SP; AltName: Full=p3; Contains: RecName: Full=Nucleocapsid protein p12; AltName: Full=NCp12; Contains: RecName: Full=Protease p15; Contains: RecName: Full=Reverse transcriptase beta-subunit; Short=RT-beta; Contains: RecName: Full=Reverse transcriptase alpha-subunit; Short=RT-alpha; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=pp32; Contains: RecName: Full=p4 [Avian leukosis virus - RSA] Sequence ID: Q04095.2 Length: 1603 Range 1: 715 to 969 Score:162 bits(409), Expect:9e-41, Method:Compositional matrix adjust., Identities:100/262(38%), Positives:146/262(55%), Gaps:9/262(3%) Query 7 TVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKK 65 +P+K KP + QWPL K+ AL ++ +EKE ++ I P + +NTP+F I+K Sbjct 715 AIPLKWKPDHTPVWIDQWPLPEGKLVALTQL---VEKELQLGHIEPSLSCWNTPVFVIRK 771 Query 66 KDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFR 125 S +R L D R +N + F VQ G P + L + + VLD+ D +FS PL + R Sbjct 772 A-SGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDR 830 Query 126 KYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMD 185 + AFT+PS+NN+ P R+Q+ VLPQG SP I Q + ++LEP R KHP + + YMD Sbjct 831 EAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMD 890 Query 186 DLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIK 245 DL + + A E++ L + GFT K Q+EP ++GY+L V P+ Sbjct 891 DLLLAASSHDGLE-AAGEEVISTLERAGFTISPDKIQREPGVQYLGYKL--GSTYVAPVG 947 Query 246 L-PEKDVWTVNDIQKLVGKLNW 266 L E + T+ D+QKLVG L W Sbjct 948 LVAEPRIATLWDVQKLVGSLQW 969 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p19; Contains: RecName: Full=p2A; Contains: RecName: Full=p2B; Contains: RecName: Full=p10; Contains: RecName: Full=Capsid protein p27, alternate cleaved 1; Contains: RecName: Full=Capsid protein p27, alternate cleaved 2; Contains: RecName: Full=Spacer peptide; Short=SP; AltName: Full=p3; Contains: RecName: Full=Nucleocapsid protein p12; AltName: Full=NCp12; Contains: RecName: Full=Protease p15; Contains: RecName: Full=Reverse transcriptase beta-subunit; Short=RT-beta; Contains: RecName: Full=Reverse transcriptase alpha-subunit; Short=RT-alpha; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=pp32; Contains: RecName: Full=p4 [Avian leukosis virus] Sequence ID: Q7SQ98.2 Length: 1603 Range 1: 715 to 969 Score:161 bits(408), Expect:1e-40, Method:Compositional matrix adjust., Identities:100/262(38%), Positives:146/262(55%), Gaps:9/262(3%) Query 7 TVPVKLKPGMDGPKVKQWPLTTEKIEALREICTEMEKEGKISRIGPE-NPYNTPIFAIKK 65 +P+K KP + QWPL K+ AL ++ +EKE ++ I P + +NTP+F I+K Sbjct 715 AIPLKWKPDHTPVWIDQWPLPEGKLVALTQL---VEKELQLGHIEPSLSCWNTPVFVIRK 771 Query 66 KDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFR 125 S +R L D R +N + F VQ G P + L + + VLD+ D +FS PL + R Sbjct 772 A-SGSYRLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDR 830 Query 126 KYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMD 185 + AFT+PS+NN+ P R+Q+ VLPQG SP I Q + ++LEP R KHP + + YMD Sbjct 831 EAFAFTLPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMD 890 Query 186 DLYVGSDLELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIK 245 DL + + A E++ L + GFT K Q+EP ++GY+L V P+ Sbjct 891 DLLLAASSHDGLE-AAGEEVISTLERAGFTISPDKIQREPGVQYLGYKL--GSTYVAPVG 947 Query 246 L-PEKDVWTVNDIQKLVGKLNW 266 L E + T+ D+QKLVG L W Sbjct 948 LVAEPRIATLWDVQKLVGSLQW 969 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p19; Contains: RecName: Full=Core protein p16; Contains: RecName: Full=Capsid protein p35; AltName: Full=Capsid protein p34; Contains: RecName: Full=Probable nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease 17 kDa; Contains: RecName: Full=Protease 13 kDa; Contains: RecName: Full=G-patch peptide; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Squirrel monkey retrovirus] Sequence ID: P03364.3 Length: 1880 Range 1: 1023 to 1321 Score:158 bits(400), Expect:1e-39, Method:Compositional matrix adjust., Identities:103/304(34%), Positives:147/304(48%), Gaps:9/304(2%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPEN-PYNTPIFAIKKKDSTKWRKLVDFRE 79 V QWPLT EK A + E G I P N P+NTPIF IKKK S WR L D R Sbjct 1023 VDQWPLTYEKTLAAIALVQEQLAAGHIE---PTNSPWNTPIFIIKKK-SGSWRLLQDLRA 1078 Query 80 LNKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNET 139 +NK +Q G+P P + V+D+ D +F+ PL + R Y AF++P IN ++ Sbjct 1079 VNKVMVPMGALQPGLPSPVAIPLNYHKIVIDLKDCFFTIPLHPEDRPYFAFSVPQINFQS 1138 Query 140 PGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHR 199 P RYQ+ VLPQG SP + Q + + P R + PE I YMDD+ + D A + Sbjct 1139 PMPRYQWKVLPQGMANSPTLCQKFVAAAIAPVRSQWPEAYILHYMDDILLACDSAEAA-K 1197 Query 200 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 259 + L +G K Q PF ++G+ELH + + L + T+ND QK Sbjct 1198 ACYAHIISCLTSYGLKIAPDKVQVSEPFSYLGFELHHQQVFTPRVCLKTDHLKTLNDFQK 1257 Query 260 LVGKLNWASQI--YPGIRVKQLCKLIRGTKALTEVVNFTEEAELELAE-NREILKEPLHG 316 L+G + W P + L +++G V T EA+ LA N+ I + + Sbjct 1258 LLGDIQWLRPYLKLPTSALVPLNNILKGDPNPLSVRALTPEAKQSLALINKAIQNQSVQQ 1317 Query 317 VYYD 320 + Y+ Sbjct 1318 ISYN 1321 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein pp24; Contains: RecName: Full=Phosphorylated protein pp18; Contains: RecName: Full=p12; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease 17 kDa; Contains: RecName: Full=Protease 13 kDa; Contains: RecName: Full=G-patch peptide; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Simian retrovirus 2] Sequence ID: P51517.2 Length: 1768 Range 1: 935 to 1176 Score:153 bits(387), Expect:6e-38, Method:Compositional matrix adjust., Identities:89/246(36%), Positives:133/246(54%), Gaps:4/246(1%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPLT EK+ A +++ E + G I I +P+NTPIF IKKK S KWR L D R + Sbjct 935 VDQWPLTQEKLAAAQQLVQEQLQAGHI--IESNSPWNTPIFVIKKK-SGKWRLLQDLRAV 991 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 140 N +Q G+P P + Q V+D+ D +F+ PL +K AF++PS N + P Sbjct 992 NATMVLMGALQPGLPSPVAIPQGYFKIVIDLKDCFFTIPLQPVDQKRFAFSLPSTNFKQP 1051 Query 141 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQHRE 200 RYQ+ VLPQG SP + Q + +EP R+ ++ I YMDD+ + L Q + Sbjct 1052 MKRYQWKVLPQGMANSPTLCQKYVAAAIEPVRKSWAQMYIIHYMDDILIAGKLG-EQVLQ 1110 Query 201 AVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQKL 260 L+ L G +K Q + P+ ++G++++ K T Q + + T+ND QKL Sbjct 1111 CFAQLKQALTTTGLQIAPEKVQLQDPYTYLGFQINGPKITNQKAVIRRDKLQTLNDFQKL 1170 Query 261 VGKLNW 266 +G +NW Sbjct 1171 LGDINW 1176 >RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr160Gag-Pro-Pol; Contains: RecName: Full=Matrix protein p19; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p15-pro; Short=NC'; Short=NC-pro; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=p1; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Human T-cell leukemia virus 3 (strain Pyl43)] Sequence ID: Q4U0X6.4 Length: 1440 Range 1: 570 to 849 Score:152 bits(383), Expect:2e-37, Method:Compositional matrix adjust., Identities:94/286(33%), Positives:149/286(52%), Gaps:13/286(4%) Query 19 PKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFR 78 P+V Q+PL E+++AL ++ + + I + P N PIF +KK + KWR + D R Sbjct 570 PEVSQFPLNPERLQALTDLVSRALEAKHIEPY--QGPGNNPIFPVKKPNG-KWRFIHDLR 626 Query 79 ELNKRTQDFWEVQLGIPHPAGLKQK-KSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINN 137 N T+D G P L Q + +D+ DA+F PL F+ Y AFT+P NN Sbjct 627 ATNSLTRDLASPSPGPPDLTSLPQDLPHLRTIDLTDAFFQIPLPAVFQPYFAFTLPQPNN 686 Query 138 ETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDLELAQ 197 PG RY + VLPQG+K SP +F+ ++ IL P R+ P +I QYMDD+ + S L + Sbjct 687 HGPGTRYSWRVLPQGFKNSPTLFEQQLSHILAPVRKAFPNSLIIQYMDDILLASP-ALRE 745 Query 198 HREAVEDLRDHLLKWGFTTPDKKHQKEPPFL-WMGYELHPDKWTVQPIKLPE---KDVWT 253 + + + L K G +K Q P + ++G + PD T + LP K +W+ Sbjct 746 LTALTDKVTNALTKEGLPMSLEKTQATPGSIHFLGQVISPDCITYE--TLPSIHVKSIWS 803 Query 254 VNDIQKLVGKLNWASQIYPGIR--VKQLCKLIRGTKALTEVVNFTE 297 + ++Q ++G+L W S+ P +R + QL +RG + + + T Sbjct 804 LAELQSMLGELQWVSKGTPVLRSSLHQLYLALRGHRDPRDTIELTS 849 >RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr160Gag-Pro-Pol; Contains: RecName: Full=Matrix protein p19; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p15-pro; Short=NC'; Short=NC-pro; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=p1; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [HTLV-3 strain 2026ND] Sequence ID: Q0R5R2.3 Length: 1440 Range 1: 549 to 849 Score:149 bits(375), Expect:2e-36, Method:Compositional matrix adjust., Identities:104/313(33%), Positives:159/313(50%), Gaps:31/313(9%) Query 4 PIETVPVKLKPGMDG-------PKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPY 56 P + +PV L P + G P+V Q+PL E+++AL ++ + + I + P Sbjct 549 PSKVLPV-LAPKLIGLEHLPPPPEVSQFPLNPERLQALTDLVSRALEAKHIEPY--QGPG 605 Query 57 NTPIFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPH----PAGLKQKKSVTVLDVG 112 N PIF +KK + KWR + D R N T+D G P P GL +++ D+ Sbjct 606 NNPIFPVKKPNG-KWRFIHDLRATNSVTRDLASPSPGPPDLTSLPQGLPHLRTI---DLT 661 Query 113 DAYFSCPLDKDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFR 172 DA+F PL F+ Y AFT+P NN PG RY + VLPQG+K SP +F+ ++ IL P R Sbjct 662 DAFFQIPLPTIFQPYFAFTLPQPNNYGPGTRYSWRVLPQGFKNSPTLFEQQLSHILTPVR 721 Query 173 EKHPEIIIYQYMDDLYVGSDL--ELAQHREAVEDLRDHLLKWGFTTPDKKHQKEP-PFLW 229 + P +I QYMDD+ + S ELA + V + L K G +K Q P P + Sbjct 722 KTFPNSLIIQYMDDILLASPAPGELAALTDKVTNA---LTKEGLPLSPEKTQATPGPIHF 778 Query 230 MGYELHPDKWTVQPIKLPE---KDVWTVNDIQKLVGKLNWASQIYPGIR--VKQLCKLIR 284 +G + D T + LP K W++ ++Q ++G+L W S+ P +R + QL +R Sbjct 779 LGQVISQDCITYE--TLPSINVKSTWSLAELQSMLGELQWVSKGTPVLRSSLHQLYLALR 836 Query 285 GTKALTEVVNFTE 297 G + + + T Sbjct 837 GHRDPRDTIKLTS 849 >RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr180; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein pp24; Contains: RecName: Full=Phosphorylated protein pp18; Contains: RecName: Full=p12; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease 17 kDa; Contains: RecName: Full=Protease 13 kDa; Contains: RecName: Full=G-patch peptide; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Mason-Pfizer monkey virus] Sequence ID: P07572.2 Length: 1771 Range 1: 938 to 1179 Score:148 bits(374), Expect:2e-36, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:134/247(54%), Gaps:6/247(2%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPLT +K+ A +++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 938 VDQWPLTNDKLAAAQQLVQEQLEAGHITE--SSSPWNTPIFVIKKK-SGKWRLLQDLRAV 994 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 140 N +Q G+P P + Q ++D+ D +FS PL +K AF++PS N + P Sbjct 995 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 1054 Query 141 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV-GSDLELAQHR 199 R+Q+ VLPQG SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 1055 MQRFQWKVLPQGMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 1112 Query 200 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 259 + + L+ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND QK Sbjct 1113 QCFDQLKQELTAAGLHIAPEKVQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 1172 Query 260 LVGKLNW 266 L+G +NW Sbjct 1173 LLGDINW 1179 >RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr160Gag-Pro-Pol; Contains: RecName: Full=Matrix protein p19; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p15-pro; Short=NC'; Short=NC-pro; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=p1; Contains: RecName: Full=Reverse transcriptase/ribonuclease H, p49 subunit; Short=p49 RT; Contains: RecName: Full=Reverse transcriptase/ribonuclease H, p62 subunit; Short=p62 RT; Contains: RecName: Full=Integrase; Short=IN [Human T-cell lymphotrophic virus type 1 (Caribbean isolate)] Sequence ID: P14078.3 Length: 1462 Range 1: 591 to 860 Score:148 bits(373), Expect:3e-36, Method:Compositional matrix adjust., Identities:92/278(33%), Positives:145/278(52%), Gaps:18/278(6%) Query 19 PKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFR 78 P++ Q+PL E+++AL+ + + + G I P N P+F +KK + T WR + D R Sbjct 591 PEISQFPLNPERLQALQHLVRKALEAGHIEPY--TGPGNNPVFPVKKANGT-WRFIHDLR 647 Query 79 ELNKRTQDFWEVQLGIPHPAGLKQKKS-VTVLDVGDAYFSCPLDKDFRKYTAFTIPSINN 137 N T D G P + L + + +D+ DA+F PL K F+ Y AFT+P N Sbjct 648 ATNSLTIDLSSSSPGPPDLSSLPTTLAHLQTIDLKDAFFQIPLPKQFQPYFAFTVPQQCN 707 Query 138 ETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGS----DL 193 PG RY + VLPQG+K SP +F+ + IL+P R+ P+ I QYMDD+ + S DL Sbjct 708 YGPGTRYAWRVLPQGFKNSPTLFEMQLAHILQPIRQAFPQCTILQYMDDILLASPSHADL 767 Query 194 ELAQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFL-WMGYELHPDKWTVQPI-KLPEKDV 251 +L E L+ G + K Q+ P + ++G + P+ T + K+P + Sbjct 768 QLLS-----EATMASLISHGLPVSENKTQQTPGTIKFLGQIISPNHLTYDAVPKVPIRSR 822 Query 252 WTVNDIQKLVGKLNWASQIYPGIR--VKQL-CKLIRGT 286 W + ++Q L+G++ W S+ P +R + L C L R T Sbjct 823 WALPELQALLGEIQWVSKGTPTLRQPLHSLYCALQRHT 860 >RecName: Full=Pol polyprotein [Simian immunodeficiency virus (AGM385 ISOLATE)] Sequence ID: P12501.1 Length: 100 Range 1: 2 to 100 Score:131 bits(330), Expect:1e-35, Method:Compositional matrix adjust., Identities:54/99(55%), Positives:77/99(77%), Gaps:0/99(0%) Query 378 ESIVIWGKTPKFRLPVQKEVWEAWWTDHWQATWIPEWEFVNTPPLVKLWYQLETEPISGA 437 E++VIWG+ P LPV++EVWE WW D+WQ +WIPEW+FV+TPP +KLWY L EP++ Sbjct 2 EALVIWGELPTLELPVEREVWEQWWADYWQVSWIPEWDFVSTPPWLKLWYTLTKEPLAKE 61 Query 438 ETFYVDGAANRETKLGKAGFVTDRGRQKVVSIADTTNQK 476 + +YVDGA NR ++ GKAG++T G+Q+V + +TTNQ+ Sbjct 62 DVYYVDGACNRNSREGKAGYITQYGKQRVEKLENTTNQQ 100 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein pp24; Contains: RecName: Full=Phosphorylated protein pp18; Contains: RecName: Full=p12; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease 17 kDa; Contains: RecName: Full=Protease 13 kDa; Contains: RecName: Full=G-patch peptide; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Simian retrovirus 1] Sequence ID: P04025.2 Length: 1772 Range 1: 939 to 1180 Score:145 bits(367), Expect:2e-35, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:134/247(54%), Gaps:6/247(2%) Query 21 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 80 V QWPLT+EK+ A +++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 939 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 995 Query 81 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 140 N +Q G+P P + Q ++D+ D +FS PL +K AF++PS N + P Sbjct 996 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 1055 Query 141 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV-GSDLELAQHR 199 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 1056 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 1113 Query 200 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 259 + + L+ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND QK Sbjct 1114 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 1173 Query 260 LVGKLNW 266 L+G +NW Sbjct 1174 LLGDINW 1180 >RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr160Gag-Pro-Pol; Contains: RecName: Full=Matrix protein p19; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p15-pro; Short=NC'; Short=NC-pro; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=p1; Contains: RecName: Full=Reverse transcriptase/ribonuclease H, p49 subunit; Short=p49 RT; Contains: RecName: Full=Reverse transcriptase/ribonuclease H, p62 subunit; Short=p62 RT; Contains: RecName: Full=Integrase; Short=IN [HTLV-1 isolate Mel 15] Sequence ID: P0C211.2 Length: 1462 Range 1: 591 to 846 Score:145 bits(367), Expect:2e-35, Method:Compositional matrix adjust., Identities:86/262(33%), Positives:138/262(52%), Gaps:11/262(4%) Query 19 PKVKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFR 78 P++ Q+PL E+++AL+ + + + G I P N P+F +KK + T WR + D R Sbjct 591 PEISQFPLNPERLQALQHLVRKALEAGHIEPY--TGPGNNPVFPVKKANGT-WRFIHDLR 647 Query 79 ELNKRTQDFWEVQLGIPHPAGLKQKKS-VTVLDVGDAYFSCPLDKDFRKYTAFTIPSINN 137 N T D G P + L + + +D+ DA+F PL K F+ Y AFT+P N Sbjct 648 ATNSLTVDLSSSSPGPPDLSSLPTTLAHLQTIDLKDAFFQIPLPKQFQPYFAFTVPQQCN 707 Query 138 ETPGIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYVGSDL--EL 195 PG RY + VLPQG+K SP +F+ + IL+P R+ P+ +I QYMDD+ + S +L Sbjct 708 YGPGTRYAWKVLPQGFKNSPTLFEMQLASILQPIRQAFPQCVILQYMDDILLASPSPEDL 767 Query 196 AQHREAVEDLRDHLLKWGFTTPDKKHQKEPPFL-WMGYELHPDKWTVQPI-KLPEKDVWT 253 Q EA L+ G K Q+ P + ++G + P+ T + +P + W Sbjct 768 QQLSEAT---MASLISHGLPVSQDKTQQTPGTIKFLGQIISPNHITYDAVPTVPIRSRWA 824 Query 254 VNDIQKLVGKLNWASQIYPGIR 275 + ++Q L+G++ W S+ P +R Sbjct 825 LPELQALLGEIQWVSKGTPTLR 846