RID: 1BY6D0VC013 Job Title:POL_SRV1 P04025 Gag-Pro-Pol polyprotein Program: BLASTP Query: POL_SRV1 P04025 Gag-Pro-Pol polyprotein (Reverse transcriptase/ribonuclease H) (RT) (2.7.7.49 {ECO:0000255|PROSITE-ProRule:PRU00405}) (2.7.7.7 {ECO:0000255|PROSITE-ProRule:PRU00405}) (3.1.26.4 {ECO:0000255|PROSITE-ProRule:PRU00408}) ID: lcl|Query_2166599(amino acid) Length: 585 Database: swissprot Non-redundant UniProtKB/SwissProt sequences 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-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 11942 1201 1201 100% 0.0 100.00 1772 P04025.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr180;... Mason-Pfizer... NA 11855 1165 1165 100% 0.0 96.24 1771 P07572.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 39068 1028 1028 100% 0.0 83.93 1768 P51517.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Squirrel mon... NA 11856 644 644 98% 0.0 56.41 1880 P03364.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Jaagsiekte s... NA 11746 627 627 98% 0.0 55.46 1726 P31623.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Mouse mammar... NA 11758 572 572 97% 0.0 51.22 1755 P03365.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Mouse mammar... NA 11759 570 570 97% 0.0 51.39 1755 P11283.2 RecName: Full=Endogenous retrovirus group K member 11 Pol... Homo sapiens human 9606 530 530 96% 1e-177 50.00 969 Q9UQG0.2 RecName: Full=Endogenous retrovirus group K member 6 Pol... Homo sapiens human 9606 530 530 96% 2e-177 50.00 956 Q9BXR3.2 RecName: Full=Endogenous retrovirus group K member 18 Pol... Homo sapiens human 9606 524 524 96% 5e-177 49.64 812 Q9QC07.2 RecName: Full=Endogenous retrovirus group K member 8 Pol... Homo sapiens human 9606 528 528 96% 8e-177 49.82 956 P63133.1 RecName: Full=Endogenous retrovirus group K member 25 Pol... Homo sapiens human 9606 524 524 96% 3e-175 49.64 954 P63136.1 RecName: Full=Endogenous retrovirus group K member 10 Pol... Homo sapiens human 9606 523 523 96% 2e-174 49.64 1014 P10266.2 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Mouse intrac... NA 11753 516 516 98% 2e-173 47.57 867 P11368.1 RecName: Full=Endogenous retrovirus group K member 7 Pol... Homo sapiens human 9606 531 531 96% 5e-173 50.18 1459 P63135.1 RecName: Full=Endogenous retrovirus group K member 113 Pol... Homo sapiens human 9606 518 518 96% 6e-173 49.03 959 P63132.2 RecName: Full=Endogenous retrovirus group K member 19 Pol... Homo sapiens human 9606 517 517 96% 2e-172 49.03 959 Q9WJR5.2 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Golden hamst... NA 11752 509 509 99% 9e-171 46.82 863 P04026.1 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Mouse intrac... NA 11754 365 365 76% 2e-115 43.92 814 P12894.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 269447 293 293 95% 4e-85 33.92 1603 O92956.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 11864 292 292 95% 9e-85 33.22 1603 Q7SQ98.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 11888 292 292 95% 1e-84 34.27 1603 P03354.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 363745 291 291 95% 2e-84 33.74 1603 Q04095.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-lymp... NA 11909 219 219 94% 1e-59 32.99 1461 P03363.4 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-3 strai... NA 402036 218 218 94% 2e-59 30.17 1440 Q0R5R2.3 RecName: Full=Endogenous retrovirus group K member 9 Pol... Homo sapiens human 9606 217 217 27% 2e-59 62.50 1117 P63128.3 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 406769 213 213 94% 5e-58 29.62 1440 Q4U0X6.4 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Bovine leuke... NA 11903 204 204 93% 7e-55 31.27 1416 P25059.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Bovine leuke... NA 11907 202 202 93% 4e-54 32.39 1416 P03361.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-1 isola... NA 402046 201 201 94% 7e-54 30.76 1462 P0C211.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 11926 194 194 94% 1e-51 30.07 1462 P03362.3 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 11927 191 191 94% 2e-50 30.02 1462 P14078.3 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11670 191 191 84% 2e-50 30.26 1146 P11204.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 31675 191 191 84% 2e-50 30.26 1146 P32542.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11672 189 189 94% 9e-50 29.57 1145 P03371.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Jembrana dis... NA 36370 186 186 83% 1e-48 29.68 1432 Q82851.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11674 179 179 95% 1e-46 28.95 1124 P16088.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Bovine immun... NA 417296 174 174 94% 7e-45 28.30 1475 P19560.2 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 31676 172 172 95% 4e-44 28.89 1124 P31822.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11675 170 170 95% 2e-43 28.07 1124 P19028.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11720 159 159 41% 1e-39 38.11 1464 P04584.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11719 157 157 41% 3e-39 37.70 1461 P05962.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11715 157 157 41% 5e-39 37.30 1462 P24107.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11713 157 157 41% 5e-39 37.30 1462 P17757.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 73484 156 156 41% 7e-39 36.59 1463 Q74120.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11717 156 156 41% 1e-38 37.30 1464 P18042.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_UC1 NA 388822 155 155 41% 2e-38 35.77 1471 Q76634.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_EHO NA 388821 155 155 41% 2e-38 35.37 1464 Q89928.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz TAN1 NA 388910 154 154 52% 5e-38 32.37 1462 Q8AII1.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11718 154 154 41% 5e-38 36.89 1462 P12451.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11714 153 153 41% 1e-37 36.99 1550 P18096.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11721 152 152 41% 2e-37 36.48 1463 P20876.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 362651 151 151 41% 3e-37 36.29 1435 P35963.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11727 150 150 45% 8e-37 32.47 1470 P27973.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11738 149 149 41% 2e-36 36.07 1449 P19505.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11737 149 149 41% 3e-36 36.07 1449 P12502.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11731 148 148 43% 3e-36 32.18 1467 P05895.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_SE... NA 388824 148 148 43% 3e-36 35.52 1433 O89940.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11734 148 148 41% 4e-36 35.66 1448 P05897.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11730 147 147 45% 7e-36 31.99 1465 P27980.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11733 147 147 41% 7e-36 35.37 1448 P05896.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz GAB1 NA 402771 146 146 41% 2e-35 35.22 1384 P17283.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF30 NA 388818 146 146 41% 2e-35 35.22 1449 O91080.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF106 NA 388819 146 146 41% 2e-35 35.22 1449 Q9IDV9.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 82834 146 146 41% 2e-35 35.89 1435 P0C6F2.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_HXB2R NA 11706 146 146 41% 2e-35 35.89 1435 P04585.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11686 145 145 41% 2e-35 35.89 1447 P03367.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388904 145 145 41% 3e-35 34.15 1432 Q9WC63.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388905 145 145 47% 3e-35 33.10 1432 Q9WC54.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_92... NA 388825 145 145 41% 3e-35 35.48 1435 O41798.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_ANT70 NA 327105 145 145 41% 4e-35 35.22 1435 Q77373.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11698 145 145 41% 4e-35 35.89 1435 P12497.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11701 145 145 47% 5e-35 33.22 1436 P05959.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11678 144 144 41% 6e-35 35.48 1447 P03366.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11688 144 144 41% 6e-35 35.48 1439 P20875.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11683 144 144 41% 6e-35 35.08 1436 P12499.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_89.6 NA 401671 144 144 41% 8e-35 35.89 1435 Q73368.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_VI991 NA 388888 144 144 47% 9e-35 33.68 1436 Q9Q720.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_MVP5180 NA 388816 144 144 50% 1e-34 32.54 1446 Q79666.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11716 144 144 41% 1e-34 35.37 1465 P15833.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_AR... NA 11685 143 143 41% 1e-34 35.08 1437 P03369.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11695 143 143 41% 1e-34 35.08 1432 P18802.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_MN NA 11696 142 142 41% 2e-34 35.08 1441 P05961.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz EK505 NA 388912 142 142 47% 3e-34 32.63 1448 Q1A249.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11682 142 142 41% 3e-34 35.08 1447 P04587.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_ET... NA 388796 142 142 41% 4e-34 34.82 1439 Q75002.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388823 142 142 41% 5e-34 34.68 1434 Q9QBZ1.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz MB66 NA 388911 142 142 41% 5e-34 35.22 1438 Q1A267.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_90... NA 388826 142 142 47% 5e-34 33.92 1435 O93215.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11699 141 141 41% 6e-34 34.68 1434 P20892.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_96... NA 388906 141 141 41% 6e-34 34.82 1430 Q9QBY3.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388815 141 141 41% 6e-34 34.68 1430 Q9QBZ5.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_9... NA 388814 140 140 41% 2e-33 35.08 1430 O89290.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11703 139 139 41% 2e-33 34.68 1428 P24740.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_V... NA 388813 139 139 45% 5e-33 33.46 1430 Q9QSR3.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11697 138 138 41% 5e-33 33.87 1440 P04588.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_92... NA 388812 138 138 41% 7e-33 34.68 1431 O12158.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11732 136 136 50% 3e-32 31.00 1441 P22382.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_97... NA 388907 136 136 41% 3e-32 34.27 1429 Q9QBZ9.2 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Ovine lentiv... NA 11664 135 135 50% 4e-32 32.32 1086 P16901.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 31684 135 135 92% 5e-32 25.59 1472 Q02836.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11689 135 135 41% 6e-32 33.87 1435 P04589.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr125Pol;... Koala retrov... NA 394239 130 130 97% 2e-30 26.14 1687 Q9TTC1.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11743 130 130 47% 3e-30 32.51 1506 P23426.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11742 130 130 47% 4e-30 32.51 1506 P03370.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11744 130 130 47% 4e-30 32.51 1506 P23427.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna/maedi ... NA 36374 130 130 47% 4e-30 32.51 1506 P35956.2 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Caprine arth... NA 11661 129 129 49% 7e-30 32.21 1109 P33459.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Reticuloendo... NA 11636 128 128 95% 1e-29 25.76 1152 P03360.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Gibbon ape l... NA 11840 120 120 95% 5e-27 25.32 1686 P21414.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Woolly monke... NA 11970 119 119 95% 8e-27 24.20 1687 P03359.2 RecName: Full=Pol polyprotein; Contains: RecName: Full=Reverse... Feline endog... NA 11766 115 115 95% 1e-25 25.44 1046 P31792.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Baboon endog... NA 11764 114 114 95% 6e-25 24.88 1727 P10272.2 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 356663 112 112 95% 2e-24 23.92 1733 Q2F7J3.1 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 373193 111 111 95% 3e-24 24.04 1733 A1Z651.1 RecName: Full=Gag-pol polyprotein; Contains: RecName:... Murine leuke... NA 31687 110 110 95% 6e-24 24.39 1734 Q7SVK7.2 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 356664 110 110 95% 6e-24 23.89 1733 Q2F7J0.1 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Moloney muri... NA 928306 110 110 95% 9e-24 24.68 1738 P03355.5 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Walleye derm... NA 39720 109 109 45% 2e-23 30.80 1752 O92815.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... AKR (endogen... NA 11791 109 109 95% 2e-23 24.39 1734 P03356.3 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Friend murin... NA 11798 108 108 96% 3e-23 23.59 1738 P26808.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Friend murin... NA 11797 108 108 96% 4e-23 23.59 1738 P26809.2 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Cas-Br-E mur... NA 11792 107 107 96% 6e-23 24.60 1733 P08361.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Friend murin... NA 11796 107 107 96% 8e-23 23.60 1739 P26810.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Radiation mu... NA 11787 104 104 95% 7e-22 23.73 1734 P11227.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Feline leuke... NA 11768 94.0 94.0 37% 1e-18 29.73 1712 P10273.2 RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol;... Macaque simi... NA 338478 88.6 88.6 45% 6e-17 26.84 1149 P23074.3 RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol;... Simian foamy... NA 11644 87.8 87.8 44% 9e-17 27.34 1143 P27401.2 RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol;... Human spumar... NA 11963 82.4 82.4 51% 5e-15 26.20 1143 P14350.2 RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol;... Feline foamy... NA 53182 80.5 80.5 42% 2e-14 27.45 1156 O93209.1 RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol;... Pan troglody... NA 298339 77.4 77.4 56% 2e-13 23.37 1146 Q87040.1 RecName: Full=Retrovirus-related Pol polyprotein from transpos... Drosophila m... fruit fly 7227 69.3 69.3 47% 5e-11 21.13 1003 Q8I7P9.1 RecName: Full=Putative enzymatic polyprotein; Includes: RecNam... Cassava vein... NA 38062 64.7 64.7 42% 1e-09 24.52 652 Q89703.1 RecName: Full=Enzymatic polyprotein; Includes: RecName:... Cestrum yell... NA 175814 60.1 60.1 43% 4e-08 23.36 643 Q7TD08.1 RecName: Full=Polyprotein P3; AltName: Full=P194 protein;... Rice tungro ... NA 10655 59.3 59.3 29% 8e-08 25.99 1675 P27502.1 RecName: Full=Retrovirus-related Pol polyprotein from transpos... Drosophila m... fruit fly 7227 57.0 57.0 38% 4e-07 24.78 1058 P04323.1 RecName: Full=Protein P; Includes: RecName: Full=DNA-directed... Hepatitis B ... NA 490134 44.7 44.7 24% 0.002 21.19 835 O71304.1 RecName: Full=Protein P; Includes: RecName: Full=DNA-directed... Hepatitis B ... NA 10412 40.8 40.8 24% 0.039 19.08 843 P17393.1 Alignments: >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: 913 to 1497 Score:1201 bits(3106), Expect:0.0, Method:Compositional matrix adjust., Identities:585/585(100%), Positives:585/585(100%), Gaps:0/585(0%) Query 1 LTAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW 60 LTAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW Sbjct 913 LTAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW 972 Query 61 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS 120 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS Sbjct 973 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS 1032 Query 121 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQ 180 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQ Sbjct 1033 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQ 1092 Query 181 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPK 240 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPK Sbjct 1093 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPK 1152 Query 241 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS Sbjct 1153 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 1212 Query 301 KEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK 360 KEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK Sbjct 1213 KEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK 1272 Query 361 VLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGI 420 VLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGI Sbjct 1273 VLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGI 1332 Query 421 LDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTN 480 LDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTN Sbjct 1333 LDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTN 1392 Query 481 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ 540 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ Sbjct 1393 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ 1452 Query 541 QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT 585 QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT Sbjct 1453 QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT 1497 >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: 912 to 1496 Score:1165 bits(3014), Expect:0.0, Method:Compositional matrix adjust., Identities:563/585(96%), Positives:576/585(98%), Gaps:0/585(0%) Query 1 LTAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW 60 LTAAID+LAPQQCAEPITWKSDEPVWVDQWPLT++KLAAAQQLVQEQLEAGHITES+SPW Sbjct 912 LTAAIDILAPQQCAEPITWKSDEPVWVDQWPLTNDKLAAAQQLVQEQLEAGHITESSSPW 971 Query 61 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS 120 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS Sbjct 972 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS 1031 Query 121 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQ 180 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQ MANSPTLCQKYVATAIHKVRHAWKQ Sbjct 1032 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQGMANSPTLCQKYVATAIHKVRHAWKQ 1091 Query 181 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPK 240 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELT AGLHIAPEK+QLQDPYTYLGFELNGPK Sbjct 1092 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTAAGLHIAPEKVQLQDPYTYLGFELNGPK 1151 Query 241 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTT DLKPLFDTLKGDS+PNSHRSLS Sbjct 1152 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTGDLKPLFDTLKGDSDPNSHRSLS 1211 Query 301 KEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK 360 KEALA L+KVETAIAEQFVTHINYSLPL+FLIFNTALTPTGLFWQ+NPIMW+HLPASPKK Sbjct 1212 KEALASLEKVETAIAEQFVTHINYSLPLIFLIFNTALTPTGLFWQDNPIMWIHLPASPKK 1271 Query 361 VLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGI 420 VLLPYYDAIADLIILGRDHSKKYFGIEPS IIQPYSKSQIDWLMQNTEMWPIACAS+VGI Sbjct 1272 VLLPYYDAIADLIILGRDHSKKYFGIEPSTIIQPYSKSQIDWLMQNTEMWPIACASFVGI 1331 Query 421 LDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTN 480 LDNHYPPNKLIQFCKLH F+FPQIISKTPLNNALLVFTDGSSTGMAAYTL DTTIKFQTN Sbjct 1332 LDNHYPPNKLIQFCKLHTFVFPQIISKTPLNNALLVFTDGSSTGMAAYTLTDTTIKFQTN 1391 Query 481 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ 540 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ Sbjct 1392 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ 1451 Query 541 QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT 585 QLIYNRSIPFYIGHVRAHSGLPGPIA GNQ+ADLATK VASNINT Sbjct 1452 QLIYNRSIPFYIGHVRAHSGLPGPIAQGNQRADLATKIVASNINT 1496 >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: 909 to 1493 Score:1028 bits(2658), Expect:0.0, Method:Compositional matrix adjust., Identities:491/585(84%), Positives:533/585(91%), Gaps:0/585(0%) Query 1 LTAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW 60 L A+D+LAPQ+ A+PITWKSDEPVWVDQWPLT EKLAAAQQLVQEQL+AGHI ESNSPW Sbjct 909 LATAVDILAPQRYADPITWKSDEPVWVDQWPLTQEKLAAAQQLVQEQLQAGHIIESNSPW 968 Query 61 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFS 120 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGY KI+IDLKDCFF+ Sbjct 969 NTPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYFKIVIDLKDCFFT 1028 Query 121 IPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQ 180 IPL P DQKRFAFSLPSTNFK+PM+R+QWKVLPQ MANSPTLCQKYVA AI VR +W Q Sbjct 1029 IPLQPVDQKRFAFSLPSTNFKQPMKRYQWKVLPQGMANSPTLCQKYVAAAIEPVRKSWAQ 1088 Query 181 MYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPK 240 MYIIHYMDDILIAGK G+QVLQCF QLKQ LT GL IAPEK+QLQDPYTYLGF++NGPK Sbjct 1089 MYIIHYMDDILIAGKLGEQVLQCFAQLKQALTTTGLQIAPEKVQLQDPYTYLGFQINGPK 1148 Query 241 ITNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 ITNQKAVIR+DKLQTLNDFQKLLGDINWLRPYL LTT DLKPLFD LKGDSNPNS RSLS Sbjct 1149 ITNQKAVIRRDKLQTLNDFQKLLGDINWLRPYLHLTTGDLKPLFDILKGDSNPNSPRSLS 1208 Query 301 KEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK 360 + ALA L KVETAIAEQFVT I+Y+ PL FLIFNT LTPTGLFWQNNP+MWVHLPASPKK Sbjct 1209 EAALASLQKVETAIAEQFVTQIDYTQPLTFLIFNTTLTPTGLFWQNNPVMWVHLPASPKK 1268 Query 361 VLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGI 420 VLLPYYDAIADLIILGRD+SKKYFG+EPS IIQPYSKSQI WLMQNTE WPIACASY G Sbjct 1269 VLLPYYDAIADLIILGRDNSKKYFGLEPSTIIQPYSKSQIHWLMQNTETWPIACASYAGN 1328 Query 421 LDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTN 480 +DNHYPPNKLIQFCKLHA +FP+IISKTPL+NALLVFTDGSSTG+AAYT TT++F+T+ Sbjct 1329 IDNHYPPNKLIQFCKLHAVVFPRIISKTPLDNALLVFTDGSSTGIAAYTFEKTTVRFKTS 1388 Query 481 LNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQ 540 SAQLVELQALIAVLSAFP++ LN+YTDSAYLAHSIPLLETV+ IKHIS+TAK FLQCQ Sbjct 1389 HTSAQLVELQALIAVLSAFPHRALNVYTDSAYLAHSIPLLETVSHIKHISDTAKFFLQCQ 1448 Query 541 QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT 585 QLIYNRSIPFY+GH+RAHSGLPGP++ GN DLATK VA+ + T Sbjct 1449 QLIYNRSIPFYLGHIRAHSGLPGPLSQGNHITDLATKVVATTLTT 1493 >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: 1000 to 1582 Score:644 bits(1660), Expect:0.0, Method:Compositional matrix adjust., Identities:330/585(56%), Positives:411/585(70%), Gaps:11/585(1%) Query 2 TAAIDMLAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWN 61 + AID+ P A+ I+WK +PVWVDQWPLT EK AA LVQEQL AGHI +NSPWN Sbjct 1000 SRAIDIPVPH--ADKISWKITDPVWVDQWPLTYEKTLAAIALVQEQLAAGHIEPTNSPWN 1057 Query 62 TPIFVIKKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSI 121 TPIF+IKKKSG WRLLQDLRAVN MV MGALQPGLPSPVAIP Y KI+IDLKDCFF+I Sbjct 1058 TPIFIIKKKSGSWRLLQDLRAVNKVMVPMGALQPGLPSPVAIPLNYHKIVIDLKDCFFTI 1117 Query 122 PLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQM 181 PLHP D+ FAFS+P NF+ PM R+QWKVLPQ MANSPTLCQK+VA AI VR W + Sbjct 1118 PLHPEDRPYFAFSVPQINFQSPMPRYQWKVLPQGMANSPTLCQKFVAAAIAPVRSQWPEA 1177 Query 182 YIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKI 241 YI+HYMDDIL+A + C+ + LT GL IAP+K+Q+ +P++YLGFEL+ ++ Sbjct 1178 YILHYMDDILLACDSAEAAKACYAHIISCLTSYGLKIAPDKVQVSEPFSYLGFELHHQQV 1237 Query 242 TNQKAVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSK 301 + ++ D L+TLNDFQKLLGDI WLRPYLKL T+ L PL + LKGD NP S R+L+ Sbjct 1238 FTPRVCLKTDHLKTLNDFQKLLGDIQWLRPYLKLPTSALVPLNNILKGDPNPLSVRALTP 1297 Query 302 EALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNN---------PIMWV 352 EA L + AI Q V I+Y+LPL+ L+ T TPT +FWQ N P++W+ Sbjct 1298 EAKQSLALINKAIQNQSVQQISYNLPLVLLLLPTPHTPTAVFWQPNGTDPTKNGSPLLWL 1357 Query 353 HLPASPKKVLLPYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPI 412 HLPASP KVLL Y +A LII GR ++ FG +P II PY++ Q+ WL+Q ++ W I Sbjct 1358 HLPASPSKVLLTYPSLLAMLIIKGRYTGRQLFGRDPHSIIIPYTQDQLTWLLQTSDEWAI 1417 Query 413 ACASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLAD 472 A +S+ G +DNHYP + +IQF KLH FIFP+I P+ A LVFTDGSS G+AAY + + Sbjct 1418 ALSSFTGDIDNHYPSDPVIQFAKLHQFIFPKITKCAPIPQATLVFTDGSSNGIAAYVIDN 1477 Query 473 TTIKFQTNLNSAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISET 532 I ++ SAQLVEL A++ V + +QP N+YTDSAY+A S+PLLETV IK + Sbjct 1478 QPISIKSPYLSAQLVELYAILQVFTVLAHQPFNLYTDSAYIAQSVPLLETVPFIKSSTNA 1537 Query 533 AKLFLQCQQLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATK 577 LF + QQLI NR PF+IGH+RAH LPGP+A GN AD AT+ Sbjct 1538 TPLFSKLQQLILNRQHPFFIGHLRAHLNLPGPLAEGNALADAATQ 1582 >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: 872 to 1442 Score:627 bits(1617), Expect:0.0, Method:Compositional matrix adjust., Identities:320/577(55%), Positives:404/577(70%), Gaps:12/577(2%) Query 9 APQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIK 68 +P A+PI WKS+EPVWVDQWPLT EKL+AAQQLVQEQL GHI S S WN+PIFVIK Sbjct 872 SPVTHADPIDWKSEEPVWVDQWPLTQEKLSAAQQLVQEQLRLGHIEPSTSAWNSPIFVIK 931 Query 69 KKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQ 128 KKSGKWRLLQDLR VN TM+ MGALQPGLP+P AIP I+IDLKDCF++IPL P D Sbjct 932 KKSGKWRLLQDLRKVNETMMHMGALQPGLPTPSAIPDKSYIIVIDLKDCFYTIPLAPQDC 991 Query 129 KRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMD 188 KRFAFSLPS NFKEPMQR+QW+VLPQ M NSPTLCQK+VATAI VR + Q+Y++HYMD Sbjct 992 KRFAFSLPSVNFKEPMQRYQWRVLPQGMTNSPTLCQKFVATAIAPVRQRFPQLYLVHYMD 1051 Query 189 DILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAV- 247 DIL+A D + Q F LKQ L++ GL IA EKIQ PY YLGF L P++ N + V Sbjct 1052 DILLAHTDEHLLYQAFSILKQHLSLNGLVIADEKIQTHFPYNYLGFSLY-PRVYNTQLVK 1110 Query 248 IRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL 307 ++ D L+TLNDFQKLLGDINW+RPYLKL T L+PLFD LKGDS+P S R+LS E L Sbjct 1111 LQTDHLKTLNDFQKLLGDINWIRPYLKLPTYTLQPLFDILKGDSDPASPRTLSLEGRTAL 1170 Query 308 DKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYD 367 +E AI +Q +T+ +Y I T PTG+ +Q+ P+ W++L A+P K LLPYY+ Sbjct 1171 QSIEEAIRQQQITYCDYQRSWGLYILPTPRAPTGVLYQDKPLRWIYLSATPTKHLLPYYE 1230 Query 368 AIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPP 427 +A +I GR + +YFG+EP I PY+ Q DWL Q ++ W IA A+Y G + +HYP Sbjct 1231 LVAKIIAKGRHEAIQYFGMEPPFICVPYALEQQDWLFQFSDNWSIAFANYPGQITHHYPS 1290 Query 428 NKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLV 487 +KL+QF HAFIFP+I+ + P+ A L+FTDGSS G AA + T QT+ +SAQ+V Sbjct 1291 DKLLQFASSHAFIFPKIVRRQPIPEATLIFTDGSSNGTAALIINHQTYYAQTSFSSAQVV 1350 Query 488 EL----QALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHIS-ETAKLFLQCQQL 542 EL QAL+ V ++F N++TDS+Y+ ++ ++ETV I S E LF QQ+ Sbjct 1351 ELFAVHQALLTVPTSF-----NLFTDSSYVVGALQMIETVPIIGTTSPEVLNLFTLIQQV 1405 Query 543 IYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTV 579 ++ R P + GH+RAHS LPG + GN AD+ TK V Sbjct 1406 LHCRQHPCFFGHIRAHSTLPGALVQGNHTADVLTKQV 1442 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein pp21; Contains: RecName: Full=Protein p3; Contains: RecName: Full=Protein p8; Contains: RecName: Full=Protein n; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Mouse mammary tumor virus (STRAIN BR6)] Sequence ID: P03365.3 Length: 1755 Range 1: 871 to 1437 Score:572 bits(1473), Expect:0.0, Method:Compositional matrix adjust., Identities:294/574(51%), Positives:375/574(65%), Gaps:13/574(2%) Query 14 AEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGK 73 A+ I+WKSD+PVW++QWPL EKL A QQLV EQL+ GH+ ESNSPWNTP+FVIKKKSGK Sbjct 871 ADQISWKSDQPVWLNQWPLKQEKLQALQQLVTEQLQLGHLEESNSPWNTPVFVIKKKSGK 930 Query 74 WRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAF 133 WRLLQDLRAVNATM MGALQPGLPSPVA+P+G+ IIIDL+DCFF+I LHP D KRFAF Sbjct 931 WRLLQDLRAVNATMHDMGALQPGLPSPVAVPKGWEIIIIDLQDCFFNIKLHPEDCKRFAF 990 Query 134 SLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 S+PS NFK P QRFQWKVLPQ M NSPTLCQK+V AI VR ++ YI+HYMDDIL+A Sbjct 991 SVPSPNFKRPYQRFQWKVLPQGMKNSPTLCQKFVDKAILTVRDKYQDSYIVHYMDDILLA 1050 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKL 253 V + + Q L GL ++ EKIQ D YLG + G ++ QK IR DKL Sbjct 1051 HPSRSIVDEILTSMIQALNKHGLVVSTEKIQKYDNLKYLGTHIQGDSVSYQKLQIRTDKL 1110 Query 254 QTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETA 313 +TLNDFQKLLG+INW+RP+LKLTT +LKPLF+ L GDSNP S R L+ EA L + Sbjct 1111 RTLNDFQKLLGNINWIRPFLKLTTGELKPLFEILNGDSNPISTRKLTPEACKALQLMNER 1170 Query 314 IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLI 373 ++ V ++ S P I T TPT WQ+ + W+HLP KV+ PY LI Sbjct 1171 LSTARVKRLDLSQPWSLCILKTEYTPTACLWQDGVVEWIHLPHISPKVITPYDIFCTQLI 1230 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 I GR SK+ F +P I+ PY+K Q D L+Q E WPI+ ++G + H P + L+ F Sbjct 1231 IKGRHRSKELFSKDPDYIVVPYTKVQFDLLLQEKEDWPISLLGFLGEVHFHLPKDPLLTF 1290 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDGSSTGMA-AYTLADTTIKFQTNLNSAQLVELQAL 492 A IFP + S TPL +++FTDGS+ G + Y I + N+AQ E + Sbjct 1291 TLQTAIIFPHMTSTTPLEKGIVIFTDGSANGRSVTYIQGREPIIKENTQNTAQQAE---I 1347 Query 493 IAVLSAFP--NQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQ---CQQLIYNRS 547 +AV++AF +QP N+YTDS Y+ P +ET +S K++ + Q+LI+ R Sbjct 1348 VAVITAFEEVSQPFNLYTDSKYVTGLFPEIETAT----LSPRTKIYTELKHLQRLIHKRQ 1403 Query 548 IPFYIGHVRAHSGLPGPIAHGNQKADLATKTVAS 581 FYIGH+R H+GLPGP+A GN AD T+ + + Sbjct 1404 EKFYIGHIRGHTGLPGPLAQGNAYADSLTRILTA 1437 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Contains: RecName: Full=Phosphorylated protein pp21; Contains: RecName: Full=Protein p3; Contains: RecName: Full=Protein p8; Contains: RecName: Full=Protein n; Contains: RecName: Full=Capsid protein p27; Contains: RecName: Full=Nucleocapsid protein-dUTPase; Short=NC-dUTPase; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Mouse mammary tumor virus (STRAIN C3H)] Sequence ID: P11283.2 Length: 1755 Range 1: 871 to 1437 Score:570 bits(1469), Expect:0.0, Method:Compositional matrix adjust., Identities:295/574(51%), Positives:374/574(65%), Gaps:13/574(2%) Query 14 AEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGK 73 A+ I+WKSD+PVW++QWPL EKL A QQLV EQL+ GH+ ESNSPWNTP+FVIKKKSGK Sbjct 871 ADQISWKSDQPVWLNQWPLKQEKLQALQQLVTEQLQLGHLEESNSPWNTPVFVIKKKSGK 930 Query 74 WRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAF 133 WRLLQDLRAVNATM MGALQPGLPSPVA+P+G+ IIIDL+DCFF+I LHP D KRFAF Sbjct 931 WRLLQDLRAVNATMHDMGALQPGLPSPVAVPKGWEIIIIDLQDCFFNIKLHPEDCKRFAF 990 Query 134 SLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 S+PS NFK P QRFQWKVLPQ M NSPTLCQK+V AI VR ++ YI+HYMDDIL+A Sbjct 991 SVPSPNFKRPYQRFQWKVLPQGMKNSPTLCQKFVDKAILTVRDKYQDSYIVHYMDDILLA 1050 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKL 253 V + + Q L GL ++ EKIQ D YLG + G ++ QK IR DKL Sbjct 1051 HPSRSIVDEILTSMIQALNKHGLVVSTEKIQKYDNLKYLGTHIQGDAVSYQKLQIRTDKL 1110 Query 254 QTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETA 313 +TLNDFQKLLG+INW+RP+LKLTT +LKPLF+ L GDSNP S R L+ EA L V Sbjct 1111 RTLNDFQKLLGNINWIRPFLKLTTGELKPLFEILNGDSNPISIRKLTPEACKALQLVNER 1170 Query 314 IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLI 373 ++ V ++ S P I T TPT WQN + W+HLP KV+ PY LI Sbjct 1171 LSIARVKRLDLSRPWSLCILKTEYTPTACLWQNGVLEWIHLPHISPKVITPYDIFCTQLI 1230 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 I GR SK+ F +P I+ PY+K Q D L+Q E WPI+ ++G + H P + L+ F Sbjct 1231 IKGRHRSKELFSKDPDYIVVPYTKVQFDLLLQEKEDWPISLLGFLGEVHFHLPKDPLLTF 1290 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDGSSTGMA-AYTLADTTIKFQTNLNSAQLVELQAL 492 A IFP + S TPL +++FTDGS+ G + Y I + N+AQ E + Sbjct 1291 TLQTAIIFPHMTSTTPLEKGIVIFTDGSANGRSVTYIQGREPIIKENTQNTAQQAE---I 1347 Query 493 IAVLSAFP--NQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQ---CQQLIYNRS 547 +AV++AF +Q N+YTDS Y+ P +ET +S K++ + Q+LI+ R Sbjct 1348 VAVITAFEEVSQSFNLYTDSKYVTGLFPEIETAT----LSPRTKIYTELRHLQRLIHKRQ 1403 Query 548 IPFYIGHVRAHSGLPGPIAHGNQKADLATKTVAS 581 FYIGH+R H+GLPGP+A GN AD T+ + + Sbjct 1404 EKFYIGHIRGHTGLPGPLAQGNAYADSLTRILTA 1437 >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: 25 to 583 Score:530 bits(1366), Expect:1e-177, Method:Compositional matrix adjust., Identities:281/562(50%), Positives:362/562(64%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 QTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 K+ +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KMTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 562 THIRAHTNLPGPLTKANEEADL 583 >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: 25 to 583 Score:530 bits(1364), Expect:2e-177, Method:Compositional matrix adjust., Identities:281/562(50%), Positives:361/562(64%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIH +DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHCIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 QTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWKIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 562 THIRAHTNLPGPLTKANEQADL 583 >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: 25 to 583 Score:524 bits(1349), Expect:5e-177, Method:Compositional matrix adjust., Identities:279/562(50%), Positives:358/562(63%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++ VWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKS KWR Sbjct 25 PLTWKTEKLVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSSKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVRDKFSDCYIIHYFDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 PTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKVAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 562 THIRAHTNLPGPLTKANEQADL 583 >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: 25 to 583 Score:528 bits(1360), Expect:8e-177, Method:Compositional matrix adjust., Identities:280/562(50%), Positives:362/562(64%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++ VWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKLVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVRKKFSDCYIIHYIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TKDKLIDCYTFLQAEVASAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW++P L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIQPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 QTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + ++ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRVVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 562 THIRAHTNLPGPLTKANEQADL 583 >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: 25 to 581 Score:524 bits(1349), Expect:3e-175, Method:Compositional matrix adjust., Identities:279/562(50%), Positives:358/562(63%), Gaps:8/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+ Sbjct 205 TKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKA 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 QTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF---DINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 559 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 560 THIRAHTNLPGPLTKANKQADL 581 >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: 25 to 583 Score:523 bits(1348), Expect:2e-174, Method:Compositional matrix adjust., Identities:279/562(50%), Positives:360/562(64%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKW Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWH 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 TLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSQRILTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VG++DNHYP K+ QF Sbjct 385 QTRLRITKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGLIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRDELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 ++RAH+ LPGP+ N++ADL Sbjct 562 TYIRAHTNLPGPLTKANEQADL 583 >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: 12 to 585 Score:516 bits(1330), Expect:2e-173, Method:Compositional matrix adjust., Identities:274/576(48%), Positives:367/576(63%), Gaps:4/576(0%) Query 8 LAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVI 67 LA A PI WK+ +PVWV QW L+SEKL A QLV+EQL+ GHI S SPWNTPIFVI Sbjct 12 LAAIGAARPIPWKTGDPVWVPQWHLSSEKLEAVIQLVEEQLKLGHIDPSTSPWNTPIFVI 71 Query 68 KKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSD 127 KKKSGKWRLL DLR +N M L G +Q GLP A+P+G+ IIID+KDCFFSIPL P D Sbjct 72 KKKSGKWRLLHDLRPINEQMNLFGPVQRGLPVLSALPRGWNLIIIDIKDCFFSIPLCPRD 131 Query 128 QKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYM 187 + RFAF++PS N EP R+QWKVLPQ M+NSPT+CQ YV A+ VR + + ++ YM Sbjct 132 RPRFAFTIPSINSDEPDNRYQWKVLPQGMSNSPTMCQLYVQEALLPVREQFPSLILLLYM 191 Query 188 DDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAV 247 DDIL+ K+ + + + L + L+ GL IA EK+Q+ D +LG ++ KI QK Sbjct 192 DDILLCHKELTMLQKAYPFLLKTLSQWGLQIATEKVQISDTGQFLGSVVSPDKIVPQKVE 251 Query 248 IRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL 307 IR+D L TLN+FQKLLGDINWLRP+LK+ +A+L+PLF L+GD + +S R+L+ A L Sbjct 252 IRRDHLHTLNNFQKLLGDINWLRPFLKIPSAELRPLFWYLEGDPHISSPRTLTLAANQAL 311 Query 308 DKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYD 367 KVE A+ + I S P +F TA PT + WQN P++W+H SP K++ Y D Sbjct 312 QKVEKALQNAQLQAIEDSQPFSLCVFKTAQLPTAVLWQNGPLLWIHPNVSPAKIIDWYPD 371 Query 368 AIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPP 427 AIA L + G + +FG P ++I PY+ +Q+ L + W + S+ G +DNHYP Sbjct 372 AIAQLALKGLKAAITHFGRSPYLLIVPYTAAQVQTLAATSNDWAVLVTSFSGKIDNHYPK 431 Query 428 NKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLV 487 + ++QF + + +FPQI + PL N ++V+TDGS TG+ AY + Q N NS ++V Sbjct 432 HPILQFAQNQSVVFPQITVRNPLKNGIVVYTDGSKTGIGAYVANGKVVSKQYNENSPRMV 491 Query 488 ELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIYNRS 547 E ++ VL F +PLNI +DS Y+ +++ LLE K S A +F Q Q ++ +RS Sbjct 492 ECLVVLEVLKTF-LEPLNIVSDSCYVVNAVNLLEGGWSDKPSSRVANIFQQIQLVLLSRS 550 Query 548 IPFYIGHVRAHSGLP--GPIAHGNQKADLATKTVAS 581 P YI HVRAHSGLP P GN AD AT S Sbjct 551 -PVYITHVRAHSGLPTSAPWLSGNDLADKATSGGCS 585 >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: 25 to 583 Score:531 bits(1369), Expect:5e-173, Method:Compositional matrix adjust., Identities:282/562(50%), Positives:362/562(64%), Gaps:6/562(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 85 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 144 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK 195 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL A + Sbjct 145 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILCAAE 204 Query 196 DGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQT 255 +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI QK IRKD L+T Sbjct 205 TRDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKQQKIEIRKDTLKT 264 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIA 315 LNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE I Sbjct 265 LNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRILTPEATKEIKLVEEKIQ 324 Query 316 EQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIADLII 374 + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D IA LI Sbjct 325 SAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQIATLIG 384 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ QF Sbjct 385 QTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIFQFL 444 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIA 494 KL +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A+I Sbjct 445 KLTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTPYQSAQRAELVAVIT 503 Query 495 VLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIPFYI 552 VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ PFYI Sbjct 504 VLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFPFYI 561 Query 553 GHVRAHSGLPGPIAHGNQKADL 574 H+RAH+ LPGP+ N++ADL Sbjct 562 THIRAHTNLPGPLTKANEQADL 583 >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: 25 to 586 Score:518 bits(1334), Expect:6e-173, Method:Compositional matrix adjust., Identities:277/565(49%), Positives:359/565(63%), Gaps:9/565(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVL---MGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFA 132 +L DLRAVNA + MG LQPGLPS IP+ + IIIDLKDCFF+IPL D ++FA Sbjct 85 MLTDLRAVNAVNAVIQPMGPLQPGLPSLAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFA 144 Query 133 FSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILI 192 F++P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL Sbjct 145 FTIPAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILC 204 Query 193 AGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDK 252 A + +++ C+ L+ E+ AGL IA +KIQ P+ YLG ++ KI K IRKD Sbjct 205 AAETKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLGMQIENRKIKPPKIEIRKDT 264 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVET 312 L+TLNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE Sbjct 265 LKTLNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEE 324 Query 313 AIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIAD 371 I + I+ L LIF TA +PTG+ QN ++ W LP S K Y D +A Sbjct 325 KIQSAQINRIDPLATLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQMAT 384 Query 372 LIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLI 431 LI R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ Sbjct 385 LIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIF 444 Query 432 QFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQA 491 QF K+ +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A Sbjct 445 QFLKMTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTQYQSAQRAELVA 503 Query 492 LIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIP 549 +I VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ P Sbjct 504 VITVLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFP 561 Query 550 FYIGHVRAHSGLPGPIAHGNQKADL 574 FYI H+RAH+ LPGP+ N++ADL Sbjct 562 FYITHIRAHTNLPGPLTKANEQADL 586 >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: 25 to 586 Score:517 bits(1331), Expect:2e-172, Method:Compositional matrix adjust., Identities:277/565(49%), Positives:359/565(63%), Gaps:9/565(1%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 25 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 84 Query 76 LLQDLRAVNATMVL---MGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFA 132 +L DLRAVNA + MG LQPGLPS IP+ + IIIDLKDCFF+IPL D ++FA Sbjct 85 MLTDLRAVNAVNAVIQPMGPLQPGLPSLAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFA 144 Query 133 FSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILI 192 F++P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ VR + YIIHY+DDIL Sbjct 145 FTIPAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVREKFSDCYIIHYIDDILC 204 Query 193 AGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDK 252 A + +++ C+ L+ E+ AGL IA +KIQ P+ YL ++ KI K IRKD Sbjct 205 AAEMKDKLIDCYTFLQAEVANAGLAIASDKIQTSTPFHYLEMQIENRKIKPPKIEIRKDT 264 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVET 312 L+TLNDFQKLLGDINW+RP L + T + LF L+GDS+ NS R L+ EA + VE Sbjct 265 LKTLNDFQKLLGDINWIRPTLGIPTYAMSNLFSILRGDSDLNSKRMLTPEATKEIKLVEE 324 Query 313 AIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIM-WVHLPASPKKVLLPYYDAIAD 371 I + I+ PL LIF TA +PTG+ QN ++ W LP S K Y D +A Sbjct 325 KIQSAQINRIDPLAPLQLLIFATAHSPTGIIIQNTDLVEWSFLPHSTVKTFTLYLDQMAT 384 Query 372 LIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLI 431 LI R K G +P I+ P +K Q+ N+ W I A++VGI+DNHYP K+ Sbjct 385 LIGQTRLRIIKLCGNDPDKIVVPLTKEQVRQAFINSGAWQIGLANFVGIIDNHYPKTKIF 444 Query 432 QFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQA 491 QF K+ +I P+I + PL NAL VFTDGSS G AAYT + +T SAQ EL A Sbjct 445 QFLKMTTWILPKITRREPLENALTVFTDGSSNGKAAYTGPKERV-IKTQYQSAQRAELVA 503 Query 492 LIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHI--SETAKLFLQCQQLIYNRSIP 549 +I VL F +QP+NI +DSAY+ + +ET A IK+ + +LF QQ + R+ P Sbjct 504 VITVLQDF-DQPINIISDSAYVVQATRDVET-ALIKYSMDDQLNQLFNLLQQTVRKRNFP 561 Query 550 FYIGHVRAHSGLPGPIAHGNQKADL 574 FYI H+RAH+ LPGP+ N++ADL Sbjct 562 FYITHIRAHTNLPGPLTKANEQADL 586 >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: 1 to 542 Score:509 bits(1311), Expect:9e-171, Method:Compositional matrix adjust., Identities:272/581(47%), Positives:358/581(61%), Gaps:42/581(7%) Query 8 LAPQQCAEPITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVI 67 L + + PI WK++EP+WV QWPL+SEKL A +LVQEQ GH+ S SPWNTPIFVI Sbjct 1 LGAVEASRPIPWKTEEPLWVSQWPLSSEKLEAVTRLVQEQERLGHLEPSTSPWNTPIFVI 60 Query 68 KKKSGKWRLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSD 127 KKKSGKWRLL DLRA+N M L G +Q GLP A+PQ + IIID+KDCFFSIPL+P D Sbjct 61 KKKSGKWRLLHDLRAINNQMHLFGPVQRGLPLLSALPQDWKLIIIDIKDCFFSIPLYPRD 120 Query 128 QKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYM 187 + RFAF++PS N EP +RFQWKVLPQ MANSPT+CQ YV A+ +R + + +IHYM Sbjct 121 RPRFAFTIPSLNHMEPDKRFQWKVLPQGMANSPTICQLYVQEALEPIRKQFTSLIVIHYM 180 Query 188 DDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAV 247 DDILI K+ + + F L EL GL IA EK+Q+ D +LG ++ I QK Sbjct 181 DDILICHKELDVLQKAFPMLVAELKQWGLEIASEKVQIADTGLFLGSKITPKNIVPQKIE 240 Query 248 IRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL 307 IRKD LQTLNDFQKLLGDINWLRP+LK+ +ADLKPLFD L+G+ + +S R + A L Sbjct 241 IRKDHLQTLNDFQKLLGDINWLRPFLKIPSADLKPLFDLLEGEPHISSPRKFTPAAHRAL 300 Query 308 DKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYD 367 VE A+ E +T SP K++ Y D Sbjct 301 QMVEEALQEAQITT----------------------------------NSPAKIIDWYPD 326 Query 368 AIADLIILGRDHSK---KYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNH 424 A+A R K +FG +P +I PY+ +Q+ L + W + S+ G +DNH Sbjct 327 AVAQ----PRSRIKAAVTHFGRDPDSLIVPYTAAQVQTLAATSSDWAVLVTSFSGQIDNH 382 Query 425 YPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSA 484 +P + ++QF A +FPQ+ +K PL + +V+TDGS TG+ AY + D I Q N S Sbjct 383 FPKHPILQFALNQAIVFPQVTAKDPLPDGTVVYTDGSKTGLGAYVVKDRVISKQYNETSP 442 Query 485 QLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIY 544 Q+VE ++ VL AFP PLNI +DS+Y+ +++ LLE I+ S A +F + Q + Sbjct 443 QVVECLIVLEVLEAFPG-PLNIVSDSSYVVNAVNLLEIAGIIRSSSRVANIFQKIQAALL 501 Query 545 NRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTVASNINT 585 NR P +I HVRAHSGLPGP++ GN AD ATK VA+ ++T Sbjct 502 NRRFPVFITHVRAHSGLPGPMSLGNDLADKATKLVATALST 542 >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 MIAIL3] Sequence ID: P12894.1 Length: 814 Range 1: 65 to 507 Score:365 bits(936), Expect:2e-115, Method:Compositional matrix adjust., Identities:195/444(44%), Positives:278/444(62%), Gaps:1/444(0%) Query 142 EPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL 201 +P +R+QWKVLPQ M+NSPT+CQ YV A+ VR + + ++ YMDDIL+ KD + Sbjct 65 KPDKRYQWKVLPQGMSNSPTMCQLYVQKALLPVREQFPSLILLLYMDDILLCHKDLTMLQ 124 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + + L + L+ GL IA EK+Q+ D +LG ++ KI QK IR+D L TLNDFQK Sbjct 125 KAYPFLLKTLSQWGLQIATEKVQISDTGQFLGSVVSPDKIVPQKVEIRRDHLHTLNDFQK 184 Query 262 LLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTH 321 LLGDINWLRP+LK+ +A+L+PLF L+GD + +S R+L+ A L KVE A+ + Sbjct 185 LLGDINWLRPFLKIPSAELRPLFSILEGDPHISSPRTLTLAANQALQKVEKALQNAQLQR 244 Query 322 INYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLIILGRDHSK 381 I S P +F TA PT + WQN P++W+H SP K++ Y DAIA L + G + Sbjct 245 IEDSQPFSLCVFKTAQLPTAVLWQNGPLLWIHPNVSPAKIIDWYPDAIAQLALKGLKAAI 304 Query 382 KYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFCKLHAFIF 441 +FG P ++I PY+ +Q+ L + W + S+ G +DNHYP + ++QF + + +F Sbjct 305 THFGQSPYLLIVPYTAAQVQTLAAASNDWAVLVTSFSGKIDNHYPKHPILQFAQNQSVVF 364 Query 442 PQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNLNSAQLVELQALIAVLSAFPN 501 PQI + PL N ++V+TDGS TG+ AY + Q N NS Q+VE ++ VL F Sbjct 365 PQITVRNPLKNGIVVYTDGSKTGIGAYVANGKVVSKQYNENSPQVVECLVVLEVLKTFL- 423 Query 502 QPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSGL 561 +PLNI +DS Y+ +++ LLE IK S A +F Q Q ++ +R P YI HVRAHSGL Sbjct 424 KPLNIVSDSYYVVNAVNLLEVAGVIKPSSRVANIFQQIQLVLLSRRSPVYITHVRAHSGL 483 Query 562 PGPIAHGNQKADLATKTVASNINT 585 PGP+A GN AD ATK VA+ +++ Sbjct 484 PGPMALGNDLADKATKVVAAALSS 507 >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: 717 to 1272 Score:293 bits(750), Expect:4e-85, Method:Compositional matrix adjust., Identities:193/569(34%), Positives:297/569(52%), Gaps:24/569(4%) Query 16 PITWKSDE-PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKW 74 P+ WK D PVW+DQWPL KL A QLV+++L+ GHI S S WNTP+FVI+K SG + Sbjct 717 PLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQLGHIEPSLSCWNTPVFVIRKASGSY 776 Query 75 RLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFS 134 RLL DLRAVNA +V GA+Q G P A+P+G+ +++DLKDCFFSIPL D++ FAF+ Sbjct 777 RLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDREAFAFT 836 Query 135 LPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG 194 LPS N + P +RFQWKVLPQ M SPT+CQ V + +R + ++HYMDD+L+A Sbjct 837 LPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMDDLLLAA 896 Query 195 KDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ 254 + +++ L AG I+P+KIQ + YLG++L G ++ + ++ Sbjct 897 SSHDGLEAAGEEVINTLERAGFTISPDKIQREPGVQYLGYKL-GSTYVAPVGLVAEPRIA 955 Query 255 TLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAI 314 TL D QKL+G + WLRP L + + P ++ L+G S+PN R + + ++ Sbjct 956 TLWDVQKLVGSLQWLRPALGIPPRLMGPFYEQLRG-SDPNEAREWNLDMKMAWREIVQLS 1014 Query 315 AEQFVTHINYSLPLMFLIFNTALTPTGLFWQN-----NPIMWVHLPASPKKVLLPYYDAI 369 + + +LPL + G+ Q P +W+ P K + + + Sbjct 1015 TTAALERWDPALPLEGAVVRCEQGAIGVLGQGLSTHPRPCLWL-FSTQPTKAFTAWLEVL 1073 Query 370 ADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNK 429 LI R + + FG E +++ P + L + + A + G + + P+ Sbjct 1074 TLLITKLRASAVRTFGKEVDILLLPACFREDLPLPEGILL---ALRGFAGKIRSSDTPSI 1130 Query 430 LIQFCKLHAFIFPQIISKTPLNNALLVFTDGSST---GMAAYTLADT-TIKFQTNLN-SA 484 LH + + ++ P+ VFTD SS+ G+ + IK +L S Sbjct 1131 FDIARPLHVSLKVR-VTDHPVPGP-TVFTDASSSTHKGVVVWREGPRWEIKEIADLGASV 1188 Query 485 QLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIY 544 Q +E +A+ L +P P N+ TDSA++A +L + Q + + TA F+ + + Sbjct 1189 QQLEARAVAMALLLWPTTPTNVVTDSAFVAK---MLLKMGQ-EGVPSTAAAFI-LEDALS 1243 Query 545 NRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 RS + HVR+HS +PG GN AD Sbjct 1244 QRSAMAAVLHVRSHSEVPGFFTEGNDVAD 1272 >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: 717 to 1272 Score:292 bits(747), Expect:9e-85, Method:Compositional matrix adjust., Identities:189/569(33%), Positives:295/569(51%), Gaps:24/569(4%) Query 16 PITWKSDE-PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKW 74 P+ WK D PVW+DQWPL KL A QLV+++L+ GHI S S WNTP+FVI+K SG + Sbjct 717 PLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQLGHIEPSLSCWNTPVFVIRKASGSY 776 Query 75 RLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFS 134 RLL DLRAVNA +V GA+Q G P A+P+G+ +++DLKDCFFSIPL D++ FAF+ Sbjct 777 RLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDREAFAFT 836 Query 135 LPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG 194 LPS N + P +RFQWKVLPQ M SPT+CQ V + +R + ++HYMDD+L+A Sbjct 837 LPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMDDLLLAA 896 Query 195 KDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ 254 + +++ L AG I+P+KIQ + YLG++L G ++ + ++ Sbjct 897 SSHDGLEAAGEEVISTLERAGFTISPDKIQREPGVQYLGYKL-GSTYVAPVGLVAEPRIA 955 Query 255 TLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAI 314 TL D QKL+G + WLRP L + + P ++ L+G S+PN R + + ++ Sbjct 956 TLWDVQKLVGSLQWLRPALGIPPRLMGPFYEQLRG-SDPNEAREWNLDMKMAWREIVQLS 1014 Query 315 AEQFVTHINYSLPLMFLIFNTALTPTGLFWQN-----NPIMWVHLPASPKKVLLPYYDAI 369 + + +LPL + G+ Q P +W+ P K + + + Sbjct 1015 TTAALERWDPALPLEGAVARCEQGAIGVLGQGLSTHPRPCLWL-FSTQPTKAFTAWLEVL 1073 Query 370 ADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNK 429 LI R + + FG E +++ P + L + + A + G + + P+ Sbjct 1074 TLLITKLRASAVRTFGKEVDILLLPACFREDLPLPEGILL---ALKGFAGKIRSSDTPSI 1130 Query 430 LIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQ-----TNLNSA 484 LH + + ++ P+ VFTD SS+ + +++ + S Sbjct 1131 FDIARPLHVSLKVR-VTDHPVPGP-TVFTDASSSTHKGVVVWREGPRWEIKEIADSGASV 1188 Query 485 QLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIY 544 Q +E +A+ L +P P N+ TDSA++A +L + Q + + TA F+ + + Sbjct 1189 QQLEARAVAMALLLWPTTPTNVVTDSAFVAK---MLLKMGQ-EGVPSTAAAFI-LEDALS 1243 Query 545 NRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 RS + HVR+HS +PG GN AD Sbjct 1244 QRSAMAAVLHVRSHSEVPGFFTEGNDVAD 1272 >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: 717 to 1272 Score:292 bits(747), Expect:1e-84, Method:Compositional matrix adjust., Identities:196/572(34%), Positives:301/572(52%), Gaps:30/572(5%) Query 16 PITWKSDE-PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKW 74 P+ WK D PVW+DQWPL KL A QLV+++L+ GHI S S WNTP+FVI+K SG + Sbjct 717 PLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQLGHIEPSLSCWNTPVFVIRKASGSY 776 Query 75 RLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFS 134 RLL DLRAVNA +V GA+Q G P A+P+G+ +++DLKDCFFSIPL D++ FAF+ Sbjct 777 RLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDREAFAFT 836 Query 135 LPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG 194 LPS N + P +RFQWKVLPQ M SPT+CQ V + +R + ++HYMDD+L+A Sbjct 837 LPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLCMLHYMDDLLLAA 896 Query 195 KDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ 254 + +++ L AG I+P+K+Q + YLG++L G ++ + ++ Sbjct 897 SSHDGLEAAGEEVISTLERAGFTISPDKVQREPGVQYLGYKL-GSTYVAPVGLVAEPRIA 955 Query 255 TLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS---KEALALLDKVE 311 TL D QKL+G + WLRP L + + P ++ L+G S+PN R + K A + ++ Sbjct 956 TLWDVQKLVGSLQWLRPALGIPPRLMGPFYEQLRG-SDPNEAREWNLDMKMAWREIVRLS 1014 Query 312 TAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQN-----NPIMWVHLPASPKKVLLPYY 366 T A + + +LPL + G+ Q P +W+ P K + Sbjct 1015 TTAA---LERWDPALPLEGAVARCEQGAIGVLGQGLSTHPRPCLWL-FSTQPTKAFTAWL 1070 Query 367 DAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYP 426 + + LI R + + FG E +++ P + L + + A + G + + Sbjct 1071 EVLTLLITKLRASAVRTFGKEVDILLLPACFREDLPLPEGILL---ALKGFAGKIRSSDT 1127 Query 427 PNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSST---GMAAYTLADT-TIKFQTNLN 482 P+ LH + + ++ P+ VFTD SS+ G+ + IK +L Sbjct 1128 PSIFDIARPLHVSLKVR-VTDHPVPGP-TVFTDASSSTHKGVVVWREGPRWEIKEIADLG 1185 Query 483 -SAQLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQ 541 S Q +E +A+ L +P P N+ TDSA++A +L + Q + + TA F+ + Sbjct 1186 ASVQQLEARAVAMALLLWPTTPTNVVTDSAFVAK---MLLKMGQ-EGVPSTAAAFI-LED 1240 Query 542 LIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 + RS + HVR+HS +PG GN AD Sbjct 1241 ALSQRSAMAAVLHVRSHSEVPGFFTEGNDVAD 1272 >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: 717 to 1272 Score:291 bits(744), Expect:2e-84, Method:Compositional matrix adjust., Identities:192/569(34%), Positives:296/569(52%), Gaps:24/569(4%) Query 16 PITWKSDE-PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKW 74 P+ WK D PVW+DQWPL KL A QLV+++L+ GHI S S WNTP+FVI+K SG + Sbjct 717 PLKWKPDHTPVWIDQWPLPEGKLVALTQLVEKELQLGHIEPSLSCWNTPVFVIRKASGSY 776 Query 75 RLLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFS 134 RLL DLRAVNA +V GA+Q G P A+P+G+ +++DLKDCFFSIPL D++ FAF+ Sbjct 777 RLLHDLRAVNAKLVPFGAVQQGAPVLSALPRGWPLMVLDLKDCFFSIPLAEQDREAFAFT 836 Query 135 LPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG 194 LPS N + P +RFQWKVLPQ M SPT+CQ V + +R + ++HYMDD+L+A Sbjct 837 LPSVNNQAPARRFQWKVLPQGMTCSPTICQLVVGQVLEPLRLKHPSLRMLHYMDDLLLAA 896 Query 195 KDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ 254 + +++ L AG I+P+KIQ + YLG++L G ++ + ++ Sbjct 897 SSHDGLEAAGEEVISTLERAGFTISPDKIQREPGVQYLGYKL-GSTYVAPVGLVAEPRIA 955 Query 255 TLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAI 314 TL D QKL+G + WLRP L + + P ++ L+G S+PN R + + ++ Sbjct 956 TLWDVQKLVGSLQWLRPALGIPPRLMGPFYEQLRG-SDPNEAREWNLDMKMAWREIVQLS 1014 Query 315 AEQFVTHINYSLPLMFLIFNTALTPTGLFWQN-----NPIMWVHLPASPKKVLLPYYDAI 369 + + +LPL + G+ Q P +W+ P K + + + Sbjct 1015 TTAALERWDPALPLEGAVARCEQGAIGVLGQGLSTHPRPCLWL-FSTQPTKAFTAWLEVL 1073 Query 370 ADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNK 429 LI R + + FG E +++ P + L + + A + G + + P+ Sbjct 1074 TLLITKLRASAVRTFGKEVDILLLPACFREDLPLPEGILL---ALRGFAGKIRSSDTPSI 1130 Query 430 LIQFCKLHAFIFPQIISKTPLNNALLVFTDGSST---GMAAYTLADT-TIKFQTNLN-SA 484 LH + + ++ P+ FTD SS+ G+ + IK +L S Sbjct 1131 FDIARPLHVSLKVR-VTDHPVPGP-TAFTDASSSTHKGVVVWREGPRWEIKEIADLGASV 1188 Query 485 QLVELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIY 544 Q +E +A+ L +P P N+ TDSA++A +L + Q + + TA F+ + + Sbjct 1189 QQLEARAVAMALLLWPTTPTNVVTDSAFVAK---MLLKMGQ-EGVPSTAAAFI-LEDALS 1243 Query 545 NRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 RS + HVR+HS +PG GN AD Sbjct 1244 QRSAMAAVLHVRSHSEVPGFFTEGNDVAD 1272 >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-lymphotropic virus 2] Sequence ID: P03363.4 Length: 1461 Range 1: 587 to 1156 Score:219 bits(557), Expect:1e-59, Method:Compositional matrix adjust., Identities:192/582(33%), Positives:284/582(48%), Gaps:44/582(7%) Query 24 PVWVDQWPLT-SEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRA 82 P VDQ+PL E+L A LV + LEAGHI + P N P+F +KK +GKWR + DLRA Sbjct 587 PPQVDQFPLNLPERLQALNDLVSKALEAGHIEPYSGPGNNPVFPVKKPNGKWRFIHDLRA 646 Query 83 VNATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFK 141 NA + + PG P ++P + IDL D FF IPL Q FAF++P Sbjct 647 TNAITTTLTSPSPGPPDLTSLPTALPHLQTIDLTDAFFQIPLPKQYQPYFAFTIPQPCNY 706 Query 142 EPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL 201 P R+ W VLPQ NSPTL ++ +A ++ +R + I+ YMDDIL+A +++ Sbjct 707 GPGTRYAWTVLPQGFKNSPTLFEQQLAAVLNPMRKMFPTSTIVQYMDDILLASPTNEELQ 766 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDP--YTYLGFELNGPKITNQKAVIRKDKLQ-TLND 258 Q Q LT GL I+ EK Q Q P +LG ++ IT + K Q TL + Sbjct 767 QLSQLTLQALTTHGLPISQEKTQ-QTPGQIRFLGQVISPNHITYESTPTIPIKSQWTLTE 825 Query 259 FQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQF 318 Q +LG+I W+ + L+ L+ L G +P + +L+ + L L ++ A+ Sbjct 826 LQVILGEIQWVSKGTPILRKHLQSLYSALHGYRDPRACITLTPQQLHALHAIQQALQHNC 885 Query 319 VTHINYSLPLMFLI-FNTALTPTGLFW--QNNPIMWVHLPASPKKVLLPYYDAIADLIIL 375 +N +LPL+ LI +T+ T + +F QN P+ W+H P P L P+ +A I+ Sbjct 886 RGRLNPALPLLGLISLSTSGTTSVIFQPKQNWPLAWLHTPHPPTS-LCPWGHLLACTILT 944 Query 376 GRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIAC-ASYVGILDN----------- 423 ++ +++G SK + ++N+ + ++G N Sbjct 945 LDKYTLQHYGQLCQSFHHNMSKQALCDFLRNSPHPSVGILIHHMGRFHNLGSQPSGPWKT 1004 Query 424 --HYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQT-- 479 H P L+Q +L IF +S L+ A +F+DGS AAY L D TI Q Sbjct 1005 LLHLP--TLLQEPRLLRPIF--TLSPVVLDTAPCLFSDGSPQ-KAAYVLWDQTILQQDIT 1059 Query 480 -----NLNSAQLVELQALIAVLSAFPNQP-LNIYTDSAYLAHSIPLLETVAQIKHISETA 533 +SAQ EL ALI L A P LNI+ DS YL I L ++A + +A Sbjct 1060 PLPSHETHSAQKGELLALICGLRAAKPWPSLNIFLDSKYL---IKYLHSLAIGAFLGTSA 1116 Query 534 KLFLQCQ--QLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 LQ L+ ++I Y+ HVR+H+ LP PI+ N+ D Sbjct 1117 HQTLQAALPPLLQGKTI--YLHHVRSHTNLPDPISTFNEYTD 1156 >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: 569 to 1135 Score:218 bits(554), Expect:2e-59, Method:Compositional matrix adjust., Identities:175/580(30%), Positives:274/580(47%), Gaps:43/580(7%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAV 83 P V Q+PL E+L A LV LEA HI P N PIF +KK +GKWR + DLRA Sbjct 569 PPEVSQFPLNPERLQALTDLVSRALEAKHIEPYQGPGNNPIFPVKKPNGKWRFIHDLRAT 628 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKE 142 N+ + + PG P ++PQG + IDL D FF IPL Q FAF+LP N Sbjct 629 NSVTRDLASPSPGPPDLTSLPQGLPHLRTIDLTDAFFQIPLPTIFQPYFAFTLPQPNNYG 688 Query 143 PMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQ 202 P R+ W+VLPQ NSPTL ++ ++ + VR + II YMDDIL+A ++ Sbjct 689 PGTRYSWRVLPQGFKNSPTLFEQQLSHILTPVRKTFPNSLIIQYMDDILLASPAPGELAA 748 Query 203 CFDQLKQELTIAGLHIAPEKIQLQ-DPYTYLGFELNGPKITNQK-AVIRKDKLQTLNDFQ 260 D++ LT GL ++PEK Q P +LG ++ IT + I +L + Q Sbjct 749 LTDKVTNALTKEGLPLSPEKTQATPGPIHFLGQVISQDCITYETLPSINVKSTWSLAELQ 808 Query 261 KLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVT 320 +LG++ W+ + + L L+ L+G +P L+ + L ++ A+ + Sbjct 809 SMLGELQWVSKGTPVLRSSLHQLYLALRGHRDPRDTIKLTSIQVQALRTIQKALTLNCRS 868 Query 321 HINYSLPLMFLIFNTALTPTGLFWQNN---PIMWVHLPASPKKVLLPYYDAIADLIILGR 377 + LP++ LI T + +Q P++W+H P P L P+ +A+ +I+ Sbjct 869 RLVNQLPILALIMLRPTGTTAVLFQTKQKWPLVWLHTP-HPATSLRPWGQLLANAVIILD 927 Query 378 DHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHY------------ 425 +S +++G S + + + ++ S V IL H Sbjct 928 KYSLQHYGQVCKSFHHNISNQALTYYLHTSDQ------SSVAILLQHSHRFHNLGAQPSG 981 Query 426 PPNKLIQ----FCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNL 481 P L+Q F + P IS +N+A +F+DGS++ AA+ + D + Q L Sbjct 982 PWRSLLQMPQIFQNIDVLRPPFTISPVVINHAPCLFSDGSAS-KAAFIIWDRQVIHQQVL 1040 Query 482 N-----SAQLVELQALIAVLSAFPNQP---LNIYTDSAYLAHSIPLLETVAQIKHISETA 533 + SAQ EL L+A L +QP LNI+ DS +L + + + S Sbjct 1041 SLPSTCSAQAGELFGLLAGLQK--SQPWVALNIFLDSKFLIGHLRRM-ALGAFPGPSTQC 1097 Query 534 KLFLQCQQLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 +L Q L+ +++ Y+ HVR+H+ L PI+ N+ D Sbjct 1098 ELHTQLLPLLQGKTV--YVHHVRSHTLLQDPISRLNEATD 1135 >RecName: Full=Endogenous retrovirus group K member 9 Pol protein; AltName: Full=HERV-K(C6) Gag-Pol protein; AltName: Full=HERV-K109 Gag-Pol protein; AltName: Full=HERV-K_6q14.1 provirus ancestral Gag-Pol polyprotein; Includes: RecName: Full=Protease; AltName: Full=PR; AltName: Full=Retropepsin; Includes: RecName: Full=Reverse transcriptase/ribonuclease H; AltName: Full=p66 RT [Homo sapiens] Sequence ID: P63128.3 Length: 1117 Range 1: 948 to 1107 Score:217 bits(553), Expect:2e-59, Method:Compositional matrix adjust., Identities:100/160(63%), Positives:123/160(76%), Gaps:0/160(0%) Query 16 PITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWR 75 P+TWK+++PVWV+QWPL +KL A L EQLE GHI S SPWN+P+FVI+KKSGKWR Sbjct 948 PLTWKTEKPVWVNQWPLPKQKLEALHLLANEQLEKGHIEPSFSPWNSPVFVIQKKSGKWR 1007 Query 76 LLQDLRAVNATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSL 135 +L DLRAVNA + MG LQPGLPSP IP+ + IIIDLKDCFF+IPL D ++FAF++ Sbjct 1008 MLTDLRAVNAVIQPMGPLQPGLPSPAMIPKDWPLIIIDLKDCFFTIPLAEQDCEKFAFTI 1067 Query 136 PSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVR 175 P+ N KEP RFQWKVLPQ M NSPT+CQ +V A+ V+ Sbjct 1068 PAINNKEPATRFQWKVLPQGMLNSPTICQTFVGRALQPVK 1107 >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: 569 to 1135 Score:213 bits(543), Expect:5e-58, Method:Compositional matrix adjust., Identities:173/584(30%), Positives:270/584(46%), Gaps:51/584(8%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAV 83 P V Q+PL E+L A LV LEA HI P N PIF +KK +GKWR + DLRA Sbjct 569 PPEVSQFPLNPERLQALTDLVSRALEAKHIEPYQGPGNNPIFPVKKPNGKWRFIHDLRAT 628 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKE 142 N+ + + PG P ++PQ + IDL D FF IPL Q FAF+LP N Sbjct 629 NSLTRDLASPSPGPPDLTSLPQDLPHLRTIDLTDAFFQIPLPAVFQPYFAFTLPQPNNHG 688 Query 143 PMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQ 202 P R+ W+VLPQ NSPTL ++ ++ + VR A+ II YMDDIL+A +++ Sbjct 689 PGTRYSWRVLPQGFKNSPTLFEQQLSHILAPVRKAFPNSLIIQYMDDILLASPALRELTA 748 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAV--IRKDKLQTLNDFQ 260 D++ LT GL ++ EK Q + ++ P + + I + +L + Q Sbjct 749 LTDKVTNALTKEGLPMSLEKTQATPGSIHFLGQVISPDCITYETLPSIHVKSIWSLAELQ 808 Query 261 KLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVT 320 +LG++ W+ + + L L+ L+G +P L+ + L ++ A+A + Sbjct 809 SMLGELQWVSKGTPVLRSSLHQLYLALRGHRDPRDTIELTSTQVQALKTIQKALALNCRS 868 Query 321 HINYSLPLMFLIFNTALTPTGLFWQNN---PIMWVHLPASPKKVLLPYYDAIADLIILGR 377 + LP++ LI T + +Q P++W+H P P L P+ +A+ II Sbjct 869 RLVSQLPILALIILRPTGTTAVLFQTKQKWPLVWLHTP-HPATSLRPWGQLLANAIITLD 927 Query 378 DHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHY------------ 425 +S +++G S + + + ++ S V IL H Sbjct 928 KYSLQHYGQICKSFHHNISNQALTYYLHTSDQ------SSVAILLQHSHRFHNLGAQPSG 981 Query 426 PPNKLIQ----FCKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQTNL 481 P L+Q F + P IIS +++A +F+DG +T AA+ L D + Q L Sbjct 982 PWRSLLQVPQIFQNIDVLRPPFIISPVVIDHAPCLFSDG-ATSKAAFILWDKQVIHQQVL 1040 Query 482 -----NSAQLVELQALIAVL-SAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKL 535 SAQ EL L+A L + P LNI+ DS +L + ++ ++ A L Sbjct 1041 PLPSTCSAQAGELFGLLAGLQKSKPWPALNIFLDSKFL---------IGHLRRMALGAFL 1091 Query 536 FLQCQQLIYNRSIPF------YIGHVRAHSGLPGPIAHGNQKAD 573 Q ++ R P Y+ HVR+H+ L PI+ N+ D Sbjct 1092 GPSTQCDLHARLFPLLQGKTVYVHHVRSHTLLQDPISRLNEATD 1135 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p12-pro; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Bovine leukemia virus (AUSTRALIAN ISOLATE)] Sequence ID: P25059.2 Length: 1416 Range 1: 570 to 1118 Score:204 bits(519), Expect:7e-55, Method:Compositional matrix adjust., Identities:177/566(31%), Positives:268/566(47%), Gaps:41/566(7%) Query 32 LTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMVLMG 91 L E+L A Q LV LEAG+I+ + P N P+F ++K +G WR + DLR NA + Sbjct 570 LNLERLQALQDLVHRSLEAGYISPWDGPGNNPVFPVRKPNGAWRFVHDLRVTNALTKPIP 629 Query 92 ALQPGLPSPVAIPQGYLKII-IDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQRFQWK 150 AL PG P AIP II +DLKD FF IP+ + FAF+LP+ +P +RF W+ Sbjct 630 ALSPGPPDLTAIPTHLPHIICLDLKDAFFQIPVEDRFRSYFAFTLPTPGGLQPHRRFAWR 689 Query 151 VLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLKQE 210 VLPQ NSP L ++ + + +V A+ Q ++ YMDDIL +Q LQC+ + Sbjct 690 VLPQGFINSPALFERALQEPLRQVSAAFSQSLLVSYMDDILYVSPTEEQRLQCYQTMAAH 749 Query 211 LTIAGLHIAPEKI-QLQDPYTYLGFELNGPKITNQK-AVIRKDKLQTLNDFQKLLGDINW 268 L G +A EK Q P +LG ++ +T Q ++ +L+ Q +LGD+ W Sbjct 750 LRDLGFQVASEKTRQTPSPVPFLGQMVHERMVTYQSLPTLQISSPISLHQLQTVLGDLQW 809 Query 269 LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTHINYSLPL 328 + T L+ L+ +LKG +P + LS E + ++ A++ + N PL Sbjct 810 VSRGTPTTRRPLQLLYSSLKGIDDPRAIIHLSPEQQQGIAELRQALSHNARSRYNEQEPL 869 Query 329 MFLIFNTALTPTGLFWQNN---PIMWVHLP-----ASP----KKVLLPYYDAIADLIILG 376 + + T T + +Q P+ + P ASP + Y A A L Sbjct 870 LAYVHLTRAGSTLVLFQKGAQFPLAYFQTPLTDNQASPWGLLLLLGCQYLQAQA-LSSYA 928 Query 377 RDHSKKYFGIEPSVIIQPYSKSQIDWLMQN-TEMWPIACASYVGILDNHYPPNKLIQFC- 434 + K Y + P + + +S D +Q ++WP + + PP Sbjct 929 KTILKYYHNL-PKTSLDNWIQSSEDPRVQELLQLWPQISSQGI------QPPGPWKTLVT 981 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQT--NLNSAQLVELQAL 492 + F+ PQ S P+ AL +F+DG++ A D + FQ SAQ EL L Sbjct 982 RAEVFLTPQ-FSPEPIPAALCLFSDGAARRGAYCLWKDHLLDFQAVPAPESAQKGELAGL 1040 Query 493 IAVLSAFPNQPLNIYTDSAYLAHSIPLLETVA-----QIKHISETAKLFLQCQQLIYNRS 547 +A L+A P +PLNI+ DS YL LL T+ Q + A L+ + L+ + + Sbjct 1041 LAGLAAAPPEPLNIWVDSKYLYS---LLRTLVLGAWLQPDPVPSYALLY---KSLLRHPA 1094 Query 548 IPFYIGHVRAHSGLPGPIAHGNQKAD 573 I ++GHVR+HS PIA N D Sbjct 1095 I--FVGHVRSHSSASHPIASLNNYVD 1118 >RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=Capsid protein p24; Short=CA; Contains: RecName: Full=Nucleocapsid protein p12-pro; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Bovine leukemia virus (JAPANESE ISOLATE BLV-1)] Sequence ID: P03361.2 Length: 1416 Range 1: 570 to 1118 Score:202 bits(513), Expect:4e-54, Method:Compositional matrix adjust., Identities:184/568(32%), Positives:274/568(48%), Gaps:45/568(7%) Query 32 LTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMVLMG 91 L E+L A Q LV LEAG+I+ + P N P+F ++K +G WR + DLRA NA + Sbjct 570 LNLERLQALQDLVHRSLEAGYISPWDGPGNNPVFPVRKPNGAWRFVHDLRATNALTKPIP 629 Query 92 ALQPGLPSPVAIPQGYLKII-IDLKDCFFSIPLHPSDQKRF--AFSLPSTNFKEPMQRFQ 148 AL PG P AIP II +DLKD FF IP+ D+ RF +F+LPS +P +RF Sbjct 630 ALSPGPPDLTAIPTHPPHIICLDLKDAFFQIPVE--DRFRFYLSFTLPSPGGLQPHRRFA 687 Query 149 WKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLK 208 W+VLPQ NSP L ++ + + +V A+ Q ++ YMDDIL A +Q QC+ L Sbjct 688 WRVLPQGFINSPALFERALQEPLRQVSAAFSQSLLVSYMDDILYASPTEEQRSQCYQALA 747 Query 209 QELTIAGLHIAPEKI-QLQDPYTYLGFELNGPKITNQK-AVIRKDKLQTLNDFQKLLGDI 266 L G +A EK Q P +LG ++ +T Q ++ +L+ Q +LGD+ Sbjct 748 ARLRDLGFQVASEKTSQTPSPVPFLGQMVHEQIVTYQSLPTLQISSPISLHQLQAVLGDL 807 Query 267 NWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTHINYSL 326 W+ T L+ L+ +LK +P + LS E L + ++ A++ + N Sbjct 808 QWVSRGTPTTRRPLQLLYSSLKRHHDPRAIIQLSPEQLQGIAELRQALSHNARSRYNEQE 867 Query 327 PLMFLIFNTALTPTGLFWQNN---PIMWVHLP-----ASPKKVLLPYYDAIADLIILGRD 378 PL+ + T T + +Q P+ + P ASP +LL L Sbjct 868 PLLAYVHLTRAGSTLVLFQKGAQFPLAYFQTPLTDNQASPWGLLLLLGCQYLQTQALS-S 926 Query 379 HSK---KYFGIEPSVIIQPYSKSQIDWLMQN-TEMWPIACASYVGILDNHYPPNKLIQF- 433 ++K KY+ P + + +S D +Q ++WP + + PP Sbjct 927 YAKPILKYYHNLPKTSLDNWIQSSEDPRVQELLQLWPQISSQGI------QPPGPWKTLI 980 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDGSSTGMAAYTL-ADTTIKFQT--NLNSAQLVELQ 490 + F+ PQ S P+ AL +F+DG +TG AY L D + FQ SAQ EL Sbjct 981 TRAEVFLTPQ-FSPDPIPAALCLFSDG-ATGRGAYCLWKDHLLDFQAVPAPESAQKGELA 1038 Query 491 ALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVA-----QIKHISETAKLFLQCQQLIYN 545 L+A L+A P +P+NI+ DS YL LL T+ Q + A L+ + L+ + Sbjct 1039 GLLAGLAAAPPEPVNIWVDSKYLYS---LLRTLVLGAWLQPDPVPSYALLY---KSLLRH 1092 Query 546 RSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 +I +GHVR+HS PIA N D Sbjct 1093 PAI--VVGHVRSHSSASHPIASLNNYVD 1118 >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: 589 to 1157 Score:201 bits(512), Expect:7e-54, Method:Compositional matrix adjust., Identities:179/582(31%), Positives:276/582(47%), Gaps:44/582(7%) Query 23 EPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRA 82 P + Q+PL E+L A Q LV++ LEAGHI P N P+F +KK +G WR + DLRA Sbjct 589 RPPEISQFPLNPERLQALQHLVRKALEAGHIEPYTGPGNNPVFPVKKANGTWRFIHDLRA 648 Query 83 VNATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFK 141 N+ V + + PG P ++P + IDLKD FF IPL Q FAF++P Sbjct 649 TNSLTVDLSSSSPGPPDLSSLPTTLAHLQTIDLKDAFFQIPLPKQFQPYFAFTVPQQCNY 708 Query 142 EPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL 201 P R+ WKVLPQ NSPTL + +A+ + +R A+ Q I+ YMDDIL+A + + Sbjct 709 GPGTRYAWKVLPQGFKNSPTLFEMQLASILQPIRQAFPQCVILQYMDDILLASPSPEDLQ 768 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYT--YLGFELNGPKIT-NQKAVIRKDKLQTLND 258 Q + L GL ++ +K Q Q P T +LG ++ IT + + L + Sbjct 769 QLSEATMASLISHGLPVSQDKTQ-QTPGTIKFLGQIISPNHITYDAVPTVPIRSRWALPE 827 Query 259 FQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQF 318 Q LLG+I W+ L L+ L+G ++P L+ + L +++ A+++ Sbjct 828 LQALLGEIQWVSKGTPTLRQPLHSLYCALQGHTDPRDQIYLNPSQVQSLMQLQQALSQNC 887 Query 319 VTHINYSLPLMFLIFNTALTPTGLFWQNN---PIMWVHLPASPKKVLLPYYDAIADLIIL 375 + + +LPL+ I T T + +Q+ P++W+H P P P+ +A ++L Sbjct 888 RSRLAQTLPLLGAIMLTLTGTTTVVFQSKQQWPLVWLHAPL-PHTSQCPWGQLLASAVLL 946 Query 376 GRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLI---- 431 ++ + +G+ I S + +Q ++ V IL +H K + Sbjct 947 LDKYTLQSYGLLCQTIHHNISIQTFNQFIQTSDH------PSVPILLHHSHRFKNLGAQT 1000 Query 432 -----QFCKLHAFIFPQIISKTP--------LNNALLVFTDGSSTGMAAYTLADTTIKFQ 478 F K A + P + + TP +N A +F+DG ST AAY L D I Q Sbjct 1001 GELWNTFLKTAAPLAP-VKALTPVFTLSPIIINTAPCLFSDG-STSQAAYILWDKHILSQ 1058 Query 479 TNL------NSAQLVE-LQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISE 531 + SAQ E L L + SA LNI+ DS YL H + L + + S Sbjct 1059 RSFPLPPPHKSAQQAELLGLLHGLSSARSWHCLNIFLDSKYLYHYLRTL-ALGTFQGKSS 1117 Query 532 TAKLFLQCQQLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 A +L+ ++ I Y+ HVR+H+ LP PI+ N D Sbjct 1118 QAPFQALLPRLLAHKVI--YLHHVRSHTNLPDPISKLNALTD 1157 >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 (strain ATK)] Sequence ID: P03362.3 Length: 1462 Range 1: 589 to 1157 Score:194 bits(494), Expect:1e-51, Method:Compositional matrix adjust., Identities:175/582(30%), Positives:270/582(46%), Gaps:44/582(7%) Query 23 EPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRA 82 P + Q+PL E+L A Q LV++ LEAGHI P N P+F +KK +G WR + DLRA Sbjct 589 RPPQISQFPLNPERLQALQHLVRKALEAGHIEPYTGPGNNPVFPVKKANGTWRFIHDLRA 648 Query 83 VNATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFK 141 N+ + + + PG P ++P + IDL+D FF IPL Q FAF++P Sbjct 649 TNSLTIDLSSSSPGPPDLSSLPTTLAHLQTIDLRDAFFQIPLPKQFQPYFAFTVPQQCNY 708 Query 142 EPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL 201 P R+ WKVLPQ NSPTL + +A + +R A+ Q I+ YMDDIL+A + +L Sbjct 709 GPGTRYAWKVLPQGFKNSPTLFEMQLAHILQPIRQAFPQCTILQYMDDILLASPSHEDLL 768 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYT--YLGFELNGPKITNQKAV--IRKDKLQTLN 257 + L GL ++ K Q Q P T +LG ++ P AV + L Sbjct 769 LLSEATMASLISHGLPVSENKTQ-QTPGTIKFLG-QIISPNHLTYDAVPTVPIRSRWALP 826 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQ 317 + Q LLG+I W+ L L+ L+ ++P L+ + L ++ A+++ Sbjct 827 ELQALLGEIQWVSKGTPTLRQPLHSLYCALQRHTDPRDQIYLNPSQVQSLVQLRQALSQN 886 Query 318 FVTHINYSLPLMFLIFNTALTPTGLFWQNN---PIMWVHLPASPKKVLLPYYDAIADLII 374 + + +LPL+ I T T + +Q+ P++W+H P P P+ +A ++ Sbjct 887 CRSRLVQTLPLLGAIMLTLTGTTTVVFQSKEQWPLVWLHAPL-PHTSQCPWGQLLASAVL 945 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLI--- 431 L ++ + +G+ I S + +Q ++ V IL +H K + Sbjct 946 LLDKYTLQSYGLLCQTIHHNISTQTFNQFIQTSDH------PSVPILLHHSHRFKNLGAQ 999 Query 432 ------QFCKLHAFIFPQ-------IISKTPLNNALLVFTDGSSTGMAAYTLADTTIKFQ 478 F K A + P +S +N A +F+DG ST AAY L D I Q Sbjct 1000 TGELWNTFLKTAAPLAPVKALMPVFTLSPVIINTAPCLFSDG-STSRAAYILWDKQILSQ 1058 Query 479 TNL------NSAQLVE-LQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISE 531 + SAQ E L L + SA + LNI+ DS YL H + L + + S Sbjct 1059 RSFPLPPPHKSAQRAELLGLLHGLSSARSWRCLNIFLDSKYLYHYLRTL-ALGTFQGRSS 1117 Query 532 TAKLFLQCQQLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 A +L+ + + Y+ HVR+H+ LP PI+ N D Sbjct 1118 QAPFQALLPRLLSRKVV--YLHHVRSHTNLPDPISRLNALTD 1157 >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: 589 to 1157 Score:191 bits(485), Expect:2e-50, Method:Compositional matrix adjust., Identities:175/583(30%), Positives:269/583(46%), Gaps:46/583(7%) Query 23 EPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRA 82 P + Q+PL E+L A Q LV++ LEAGHI P N P+F +KK +G WR + DLRA Sbjct 589 RPPEISQFPLNPERLQALQHLVRKALEAGHIEPYTGPGNNPVFPVKKANGTWRFIHDLRA 648 Query 83 VNATMVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFK 141 N+ + + + PG P ++P + IDLKD FF IPL Q FAF++P Sbjct 649 TNSLTIDLSSSSPGPPDLSSLPTTLAHLQTIDLKDAFFQIPLPKQFQPYFAFTVPQQCNY 708 Query 142 EPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL 201 P R+ W+VLPQ NSPTL + +A + +R A+ Q I+ YMDDIL+A + Sbjct 709 GPGTRYAWRVLPQGFKNSPTLFEMQLAHILQPIRQAFPQCTILQYMDDILLASPSHADLQ 768 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYT--YLGFELNGPKITNQ---KAVIRKDKLQTL 256 + L GL ++ K Q Q P T +LG ++ +T K IR L Sbjct 769 LLSEATMASLISHGLPVSENKTQ-QTPGTIKFLGQIISPNHLTYDAVPKVPIRSR--WAL 825 Query 257 NDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE 316 + Q LLG+I W+ L L+ L+ ++P L+ + L ++ A+++ Sbjct 826 PELQALLGEIQWVSKGTPTLRQPLHSLYCALQRHTDPRDQIYLNPSQVQSLVQLRQALSQ 885 Query 317 QFVTHINYSLPLMFLIFNTALTPTGLFWQNN---PIMWVHLPASPKKVLLPYYDAIADLI 373 + + +LPL+ I T T + +Q+ P++W+H P P P+ +A + Sbjct 886 NCRSRLVQTLPLLGAIMLTLTGTTTVVFQSKQQWPLVWLHAPL-PHTSQCPWGQLLASAV 944 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLI-- 431 +L ++ + +G+ I S + +Q ++ V IL +H K + Sbjct 945 LLLDKYTLQSYGLLCQTIHHNISTQTFNQFIQTSDH------PSVPILLHHSHRFKNLGA 998 Query 432 -------QFCKLHAFIFPQ-------IISKTPLNNALLVFTDGSSTGMAAYTLADTTIKF 477 F K A + P +S +N A +F+DG ST AAY L D I Sbjct 999 QTGELWNTFLKTTAPLAPVKALMPVFTLSPVIINTAPCLFSDG-STSQAAYILWDKHILS 1057 Query 478 QTNL------NSAQLVE-LQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHIS 530 Q + SAQ E L L + SA + LNI+ DS YL H + L + + S Sbjct 1058 QRSFPLPPPHKSAQRAELLGLLHGLSSARSWRCLNIFLDSKYLYHYLRTL-ALGTFQGRS 1116 Query 531 ETAKLFLQCQQLIYNRSIPFYIGHVRAHSGLPGPIAHGNQKAD 573 A +L+ + + Y+ HVR+H+ LP PI+ N D Sbjct 1117 SQAPFQALLPRLLSRKVV--YLHHVRSHTNLPDPISRLNALTD 1157 >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: 207 to 688 Score:191 bits(484), Expect:2e-50, Method:Compositional matrix adjust., Identities:154/509(30%), Positives:247/509(48%), Gaps:45/509(8%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL A+++VQ L G I+E+ N+P+N+PIFVIKK+SGKWRLLQDLR +N Sbjct 207 IPQWPLTKEKLEGAKEIVQRLLSEGKISEASDNNPYNSPIFVIKKRSGKWRLLQDLRELN 266 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 T+ + + GLP P + + ++D+ D +F+IPL P + AF++PS N +EP Sbjct 267 KTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTAFTIPSINHQEPD 326 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG--QQVLQ 202 +R+ W LPQ SP + QK + + R + ++ + YMDD+ + G +G +Q + Sbjct 327 KRYVWNCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV-GSNGSKKQHKE 385 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L+ L G +K+Q PY++LG++L QK + K TLND QKL Sbjct 386 LIIELRAILLEEGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMVKNPTLNDVQKL 445 Query 263 LGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL----DKVETAIAEQF 318 +G+I W+ + T +K + T KG N ++EA L +K++ A Q+ Sbjct 446 MGNITWMSSGVPGLT--VKHIAATTKGCLELNQKVIWTEEAQKELEENNEKIKNAQGLQY 503 Query 319 VTHINYSLPLMFLIFNTALT-----PTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLI 373 L + + N T G+ W IM + S K L+ +A Sbjct 504 YNPEEEMLCEVEITKNYEATYVIKQSQGILWAGKKIMKANKGWSTVKNLMLLLQHVA--- 560 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 S G P+ + P++K Q+ W MQ + W Y L P + Sbjct 561 ----TESITRVGKCPTFKV-PFTKEQVMWEMQ--KGW------YYSWL-----PEIVYTH 602 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDG---SSTGMAAYTLADTTIKFQTNLN--SAQLVE 488 +H +++ + + + ++TDG + G+AAY ++ K Q L + Q+ E Sbjct 603 QVVHDDWRMKLVEEP--TSGITIYTDGGKQNGEGIAAYVTSNGRTK-QKRLGPVTHQVAE 659 Query 489 LQALIAVLSAFPNQPLNIYTDSAYLAHSI 517 A+ L ++ +NI TDS Y +I Sbjct 660 RMAIQMALEDTRDKQVNIVTDSYYCWKNI 688 >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: 207 to 688 Score:191 bits(484), Expect:2e-50, Method:Compositional matrix adjust., Identities:154/509(30%), Positives:247/509(48%), Gaps:45/509(8%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL A+++VQ L G I+E+ N+P+N+PIFVIKK+SGKWRLLQDLR +N Sbjct 207 IPQWPLTKEKLEGAKEIVQRLLSEGKISEASDNNPYNSPIFVIKKRSGKWRLLQDLRELN 266 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 T+ + + GLP P + + ++D+ D +F+IPL P + AF++PS N +EP Sbjct 267 KTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTAFTIPSINHQEPD 326 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG--QQVLQ 202 +R+ W LPQ SP + QK + + R + ++ + YMDD+ + G +G +Q + Sbjct 327 KRYVWNCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV-GSNGSKKQHKE 385 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L+ L G +K+Q PY++LG++L QK + K TLND QKL Sbjct 386 LIIELRAILLEKGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMVKNPTLNDVQKL 445 Query 263 LGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL----DKVETAIAEQF 318 +G+I W+ + T +K + T KG N ++EA L +K++ A Q+ Sbjct 446 MGNITWMSSGVPGLT--VKHIAATTKGCLELNQKVIWTEEAQKELEENNEKIKNAQGLQY 503 Query 319 VTHINYSLPLMFLIFNTALT-----PTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLI 373 L + + N T G+ W IM + S K L+ +A Sbjct 504 YNPEEEMLCEVEITKNYEATYVIKQSQGILWAGKKIMKANKGWSTVKNLMLLLQHVA--- 560 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 S G P+ + P++K Q+ W MQ + W Y L P + Sbjct 561 ----TESITRVGKCPTFKV-PFTKEQVMWEMQ--KGW------YYSWL-----PEIVYTH 602 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDG---SSTGMAAYTLADTTIKFQTNLN--SAQLVE 488 +H +++ + + + ++TDG + G+AAY ++ K Q L + Q+ E Sbjct 603 QVVHDDWRMKLVEEP--TSGITIYTDGGKQNGEGIAAYVTSNGRTK-QKRLGPVTHQVAE 659 Query 489 LQALIAVLSAFPNQPLNIYTDSAYLAHSI 517 A+ L ++ +NI TDS Y +I Sbjct 660 RMAIQMALEDTRDKQVNIVTDSYYCWKNI 688 >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: 207 to 735 Score:189 bits(479), Expect:9e-50, Method:Compositional matrix adjust., Identities:170/575(30%), Positives:269/575(46%), Gaps:70/575(12%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL A++ VQ L G I+E+ N+P+N+PIFVIKK+SGKWRLLQDLR +N Sbjct 207 IPQWPLTKEKLEGAKETVQRLLSEGKISEASDNNPYNSPIFVIKKRSGKWRLLQDLRELN 266 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 T+ + + GLP P + + ++D+ D +F+IPL P + AF++PS N +EP Sbjct 267 KTVQVGTEISRGLPHPGGLIKCKHMTVLDIGDAYFTIPLDPEFRPYTAFTIPSINHQEPD 326 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG--QQVLQ 202 +R+ WK LPQ SP + QK + + R + ++ + YMDD+ + G +G +Q + Sbjct 327 KRYVWKCLPQGFVLSPYIYQKTLQEILQPFRERYPEVQLYQYMDDLFV-GSNGSKKQHKE 385 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L+ L G +K+Q PY++LG++L QK + K TLND QKL Sbjct 386 LIIELRAILQ-KGFETPDDKLQEVPPYSWLGYQLCPENWKVQKMQLDMVKNPTLNDVQKL 444 Query 263 LGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALL----DKVETAIAEQF 318 +G+I W+ + T +K + T KG N ++EA L +K++ A Q+ Sbjct 445 MGNITWMSSGVPGLT--VKHIAATTKGCLELNQKVIWTEEAQKELEENNEKIKNAQGLQY 502 Query 319 VTHINYSLPLMFLIFNTALT-----PTGLFWQNNPIMWVHLPASPKKVLLPYYDAIADLI 373 L + + N T G+ W IM + S K L+ +A Sbjct 503 YNPEEEMLCEVEITKNYEATYVIKQSQGILWAGKKIMKANKGWSTVKNLMLLLQHVA--- 559 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 S G P+ + P++K Q+ W MQ + W + + P + Sbjct 560 ----TESITRVGKCPTFKV-PFTKEQVMWEMQ--KGWYYS-----------WLPEIVYTH 601 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDG---SSTGMAAYTLADTTIKFQTNLN--SAQLVE 488 +H +++ + + + ++TDG + G+AAY ++ K Q L + Q+ E Sbjct 602 QVVHDDWRMKLVEEP--TSGITIYTDGGKQNGEGIAAYVTSNGRTK-QKRLGPVTHQVAE 658 Query 489 LQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKL------FLQCQQL 542 A+ L ++ +NI TDS Y K+I+E L + Q Sbjct 659 RMAIQMALEDTRDKQVNIVTDSYYC------------WKNITEGLGLEGPQNPWWPIIQN 706 Query 543 IYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATK 577 I + I Y V H G+ +GNQ AD A K Sbjct 707 IREKEI-VYFAWVPGHKGI-----YGNQLADEAAK 735 >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: 556 to 1022 Score:186 bits(472), Expect:1e-48, Method:Compositional matrix adjust., Identities:149/502(30%), Positives:245/502(48%), Gaps:51/502(10%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSG-KWRLLQDLRAV 83 V QWPLT EK A +++V+E L+ G I+ + ++P+NTP+FVIKKK G KWR+L D RA+ Sbjct 556 VPQWPLTLEKYKALKEIVEELLKDGKISRTPWDNPFNTPVFVIKKKGGSKWRMLMDFRAL 615 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N Q GLP P I Q ID+KD +F+IPL + ++ AFS+ N + P Sbjct 616 NKVTNKGQEFQIGLPYPPGIQQCEHITAIDIKDAYFTIPLDENFRQYTAFSVVPVNREGP 675 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQC 203 ++R+ W VLPQ SP + Q I +++ + + + YMDD+LI G D + Sbjct 676 LERYHWNVLPQGWVCSPAIYQTTTQEIIAEIKDRFPDIVLYQYMDDLLI-GSDRPDHKRV 734 Query 204 FDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLL 263 ++++EL G EKIQ ++ +LG+EL + Q I+ K+ T+N+ Q+++ Sbjct 735 VSEIREELGAYGFKTPEEKIQ-EEQVQWLGYELTPKRWRFQPRQIKIKKVVTVNELQQMI 793 Query 264 GDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE-QFVTHI 322 G+ W++P +K+ L PL D LKG ++ L++EA+ L+ V + + ++ I Sbjct 794 GNCVWVQPEVKIP---LSPLSDLLKGKTDLKDKIKLTEEAIQCLETVNKRLKDPEWKERI 850 Query 323 NYSLPLMFLIFNTALTPTGLFW----QNNPIM-----WVHLPASPKKVLLPYYDAIADLI 373 L+ I L P G+ + NPI W + A+ K +L ++ ++ Sbjct 851 KEGTELVVKI---QLIPEGVVYDLLQDGNPIWGGVKGWDYNHANKIKKMLSIMKKLSRIV 907 Query 374 ILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQF 433 ++ G E S +I ++E W A + + P K + Sbjct 908 MI-------MTGREVSFLIP-----------GDSEDWESALQRINTLTE--IPEVKFYKH 947 Query 434 -CKLHAFIFPQIISKTPLNNALLVFTDGSSTG--MAAYTLADTTIKFQTNLNSAQLVELQ 490 C+ + P +I + P +TDG G AA + I+ + + Q EL+ Sbjct 948 ACRWTSVCGP-VIERYP-----TYYTDGGKKGSKAAAAYWREGKIRREVFPGTNQQAELK 1001 Query 491 ALIAVLSAFPNQPLNIYTDSAY 512 A++ L P + +NI TDS Y Sbjct 1002 AVLMALQDGPAK-MNIITDSRY 1022 >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: 177 to 710 Score:179 bits(455), Expect:1e-46, Method:Compositional matrix adjust., Identities:165/570(29%), Positives:254/570(44%), Gaps:53/570(9%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHI--TESNSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT+EK+ A ++V+ + G + +SN+PWNTP+F IKKKSGKWR+L D R +N Sbjct 177 IKQWPLTNEKIEALTEIVERLEKEGKVKRADSNNPWNTPVFAIKKKSGKWRMLIDFRELN 236 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 +Q GLP P + ++D+ D +F+IPL P AF+LP N P Sbjct 237 KLTEKGAEVQLGLPHPAGLQIKKQVTVLDIGDAYFTIPLDPDYAPYTAFTLPRKNNAGPG 296 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQC 203 +RF W LPQ SP + Q + I Q+ I YMDDI I ++ + Sbjct 297 RRFVWCSLPQGWILSPLIYQSTLDNIIQPFIRQNPQLDIYQYMDDIYIGSNLSKKEHKEK 356 Query 204 FDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLL 263 ++L++ L G +K+Q + PYT++G+EL+ T Q+ + + TLN+ QKL Sbjct 357 VEELRKLLLWWGFETPEDKLQEEPPYTWMGYELHPLTWTIQQKQLDIPEQPTLNELQKLA 416 Query 264 GDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTHIN 323 G INW + +K L + ++G+ N NS R +KEA + K + AI EQ + Sbjct 417 GKINWASQ--AIPDLSIKALTNMMRGNQNLNSTRQWTKEARLEVQKAKKAIEEQ--VQLG 472 Query 324 YSLPLMFLIFNTALTP----TGLFWQNNP--IMWVHLPASPKKVLLPYYDAIADLIILGR 377 Y P L +L + +Q +P I+W + KK D R Sbjct 473 YYDPSKELYAKLSLVGPHQISYQVYQKDPEKILWYGKMSRQKKKAENTCDIALRACYKIR 532 Query 378 DHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHY----PPNKLIQF 433 + S G EP I P S+ E W ++++ Y PP Sbjct 533 EESIIRIGKEPRYEI-PTSR----------EAWE------SNLINSPYLKAPPPEVEYIH 575 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDG----SSTGMAAYTLADTTIKFQTNLNSAQLVEL 489 L+ +I P+ A + DG AAY + S Q E+ Sbjct 576 AALNIKRALSMIKDAPIPGAETWYIDGGRKLGKAAKAAYWTDTGKWRVMDLEGSNQKAEI 635 Query 490 QALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIYNRSIP 549 QAL+ L A ++ +NI TDS Y+ + I L+ ++ I + L+ + Sbjct 636 QALLLALKA-GSEEMNIITDSQYVINII--LQQPDMMEGIWQEVLEELE-------KKTA 685 Query 550 FYIGHVRAHSGLPGPIAHGNQKADLATKTV 579 +I V H G+P GN++ D +T+ Sbjct 686 IFIDWVPGHKGIP-----GNEEVDKLCQTM 710 >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: 596 to 1115 Score:174 bits(442), Expect:7e-45, Method:Compositional matrix adjust., Identities:163/576(28%), Positives:258/576(44%), Gaps:81/576(14%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK A +++V++ L G I+E+ ++P+NTP+FVIKKK +G+WR+L D R + Sbjct 596 VPQWPLTKEKYQALKEIVKDLLAEGKISEAAWDNPYNTPVFVIKKKGTGRWRMLMDFREL 655 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N V GLP P I + ID+KD +F+IPLH + AFS+ N + P Sbjct 656 NKITVKGQEFSTGLPYPPGIKECEHLTAIDIKDAYFTIPLHEDFRPFTAFSVVPVNREGP 715 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK--DGQQVL 201 ++RFQW VLPQ SP + Q I ++ + + + YMDD+LI D +Q++ Sbjct 716 IERFQWNVLPQGWVCSPAIYQTTTQKIIENIKKSHPDVMLYQYMDDLLIGSNRDDHKQIV 775 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 Q +++ +L G EK+Q ++ ++GFEL K Q ++ T+N+ Q+ Sbjct 776 Q---EIRDKLGSYGFKTPDEKVQ-EERVKWIGFELTPKKWRFQPRQLKIKNPLTVNELQQ 831 Query 262 LLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE-QFVT 320 L+G+ W++P +K+ L PL D L+ +N L+ EA+ +++ + + ++ Sbjct 832 LVGNCVWVQPEVKIP---LYPLTDLLRDKTNLQEKIQLTPEAIKCVEEFNLKLKDPEWKD 888 Query 321 HINYSLPLMFLIFNTALTPTG----LFWQNNPIMWVHLPA-------SPKKVLLPYYDAI 369 I L+ I + P G L NPI W + KK+L + Sbjct 889 RIREGAELVIKI---QMVPRGIVFDLLQDGNPI-WGGVKGLNYDHSNKIKKILRTMNELN 944 Query 370 ADLIIL-GRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPN 428 ++I+ GR+ S + P S + +Q E L +P Sbjct 945 RTVVIMTGREAS----------FLLPGSSEDWEAALQKEES-----------LTQIFPVK 983 Query 429 KLIQFCKLHAFIFPQIISKTPLNNALLVFTDGSSTG--MAAYTLADTTIKFQTNLNSAQL 486 C+ + P N +TDG G AA + K + + Q Sbjct 984 FYRHSCRWTSICGPV------RENLTTYYTDGGKKGKTAAAVYWCEGRTKSKVFPGTNQQ 1037 Query 487 VELQALIAVLSAFPNQPLNIYTDSAYLAHSIPLL-ETVAQIKHISETAKLFLQCQQLIYN 545 EL+A+ L P + +NI TDS Y + ET A+ E AK+ Sbjct 1038 AELKAICMALLDGPPK-MNIITDSRYAYEGMREEPETWAREGIWLEIAKI---------- 1086 Query 546 RSIPFY----IGHVRAHSGLPGPIAHGNQKADLATK 577 +PF +G V AH G+ GN +AD K Sbjct 1087 --LPFKQYVGVGWVPAHKGI-----GGNTEADEGVK 1115 >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: 176 to 709 Score:172 bits(435), Expect:4e-44, Method:Compositional matrix adjust., Identities:167/578(29%), Positives:259/578(44%), Gaps:69/578(11%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 V QWPL++EK+ A +V+ G + + N+PWNTP+F IKKKSGKWR+L D R +N Sbjct 176 VKQWPLSNEKIEALTDIVERLESEGKVKRADPNNPWNTPVFAIKKKSGKWRMLIDFRVLN 235 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 +Q GLP P + ++D+ D +F+IPL P AF+LP N P Sbjct 236 KLTDKGAEVQLGLPHPAGLQMKKQVTVLDIGDAYFTIPLDPDYAPYTAFTLPRKNNAGPG 295 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQC 203 +R+ W LPQ SP + Q + + ++ I YMDDI I + ++ Q Sbjct 296 RRYVWCSLPQGWVLSPLIYQSTLNNILQPFIKQNSELDIYQYMDDIYIGSNLNKKEHKQK 355 Query 204 FDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLL 263 ++L++ L G +K+Q + PY ++G+EL+ + Q+ + + TLN+ QKL Sbjct 356 VEELRKLLLWWGFETPEDKLQEEPPYKWMGYELHPLTWSIQQKQLEIPERPTLNELQKLA 415 Query 264 GDINWLRPYLKLTTADL--KPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTH 321 G INW T DL K L + ++GD +S R + EA + K + AI Q Sbjct 416 GKINWASQ----TIPDLSIKELTNMMRGDQKLDSIREWTVEAKREVQKAKEAIETQ--AQ 469 Query 322 INYSLPLMFLIFNTALT-PTGL---FWQNNP--IMWVHLPASPKKVLLPYYDAIADLIIL 375 +NY P L +L P + +Q NP I+W KK D Sbjct 470 LNYYDPNRGLYAKLSLVGPHQICYQVYQKNPEHILWYGKINRQKKKAENTCDIALRACYK 529 Query 376 GRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWP--IACASYVGILDNHYPPNKLIQF 433 R+ S G EP I P S+ E W + + Y+ PP + ++F Sbjct 530 IREESIIRIGKEPVYEI-PASR----------EAWESNLIRSPYL-----KAPPPE-VEF 572 Query 434 CKLHAFIFPQ----IISKTPLNNALLVFTDGS----STGMAAYTLADTTIKFQTNLNSAQ 485 +HA + + +I P+ A + DGS AAY + S Q Sbjct 573 --IHAALSIKRALSMIQDAPIIGAETWYIDGSRKQGKAARAAYWTNTGKWQIMEIEGSNQ 630 Query 486 LVELQALIAVLSAFPNQPLNIYTDSAYLAHSI----PLLETVAQIKHISETAKLFLQCQQ 541 E+QAL+ L A ++ +NI TDS Y+ + + L+E + Q ++ Q + Sbjct 631 KAEVQALLLALKA-GSEEMNIITDSQYILNILNQQPDLMEGLWQ--------EVLEQME- 680 Query 542 LIYNRSIPFYIGHVRAHSGLPGPIAHGNQKADLATKTV 579 + I +I V H G+P GN++ D +T+ Sbjct 681 ----KKIAIFIDWVPGHKGIP-----GNEEVDKLCQTM 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 San Diego)] Sequence ID: P19028.1 Length: 1124 Range 1: 177 to 710 Score:170 bits(430), Expect:2e-43, Method:Compositional matrix adjust., Identities:160/570(28%), Positives:249/570(43%), Gaps:53/570(9%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPL++EK+ A ++V+ G + + N+PWNTP+F IKKKSGKWR+L D R +N Sbjct 177 IKQWPLSNEKIEALTEIVERLEREGKVKRADPNNPWNTPVFAIKKKSGKWRMLIDFRELN 236 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 +Q GLP P + ++D+ D +F+ PL P AF+LP N P Sbjct 237 KLTEKGAEVQLGLPHPAGLQMKKQITVLDIGDAYFTNPLDPDYAPYTAFTLPRKNNAGPG 296 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQC 203 +RF W LPQ SP + Q + I Q+ I YMDDI I ++ + Sbjct 297 RRFVWCSLPQGWILSPLIYQSTLDNIIQPFIRQNPQLDIYQYMDDIYIGSNLSKKEHKEK 356 Query 204 FDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLL 263 ++L++ L G +K+Q + PY ++G+EL+ T Q+ + + TLN+ QKL Sbjct 357 VEELRKLLLWWGFETPEDKLQEEPPYKWMGYELHPLTWTIQQKQLEIPEKPTLNELQKLA 416 Query 264 GDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTHIN 323 G INW + +K L + +G+ N NS R ++EA + K + AI EQ + Sbjct 417 GKINWASQ--TIPELSIKSLTNMTRGNQNLNSTREWTEEARLEVQKAKRAIEEQ--VQLG 472 Query 324 YSLPLMFLIFNTALTP----TGLFWQNNP--IMWVHLPASPKKVLLPYYDAIADLIILGR 377 Y P L +L + +Q P I+W + KK D R Sbjct 473 YYDPSKELYAKLSLVGPHQISYQVYQKCPEKILWYGKMSRQKKKAENTCDIALRACYKIR 532 Query 378 DHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHY----PPNKLIQF 433 + S G EP I P S+ E W ++++ Y PP Sbjct 533 EESIIRIGKEPRYEI-PTSR----------EAWE------SNLINSPYLKAPPPEVDYIH 575 Query 434 CKLHAFIFPQIISKTPLNNALLVFTDG----SSTGMAAYTLADTTIKFQTNLNSAQLVEL 489 L+ +I P++ A + DG AAY + S Q E+ Sbjct 576 AALNIKRALSMIKDPPISGAETWYIDGGRKLGKAAKAAYWTDTGKWQVMELEGSNQKAEI 635 Query 490 QALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIYNRSIP 549 QAL+ L A P + +NI TDS Y+ + L + +++ I + L+ + Sbjct 636 QALLLALKAGPEE-MNIITDSQYMINI--LSQQPDKMEGIWQEVLEELE-------KKTA 685 Query 550 FYIGHVRAHSGLPGPIAHGNQKADLATKTV 579 +I V H G+P GN++ D +T+ Sbjct 686 IFIDWVPGHKGIP-----GNEEVDKLCQTM 710 >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: 635 to 878 Score:159 bits(401), Expect:1e-39, Method:Compositional matrix adjust., Identities:93/244(38%), Positives:137/244(56%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 635 QWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 694 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH + AF+LPS N EP + Sbjct 695 VTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGK 754 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A K + II YMDDILIA + + + Sbjct 755 RYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIASDRTDLEHDRVV 814 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q PY ++G+EL K QK + + ++ T+ND QKL+G Sbjct 815 LQLKELLNGLGFSTPDEKFQKDPPYHWMGYELWPTKWKLQKIQLPQKEIWTVNDIQKLVG 874 Query 265 DINW 268 +NW Sbjct 875 VLNW 878 >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: 632 to 875 Score:157 bits(398), Expect:3e-39, Method:Compositional matrix adjust., Identities:92/244(38%), Positives:138/244(56%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 632 QWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 691 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH ++ AF+LPS N EP + Sbjct 692 VTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPLHEDFRQYTAFTLPSVNNAEPGK 751 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + + II YMDDILIA + + + Sbjct 752 RYIYKVLPQGWKGSPAIFQYTMRQILEPFRKANEDVIIIQYMDDILIASDRTDLEHDKVV 811 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q PY ++G+EL K QK + + ++ T+ND QKL+G Sbjct 812 LQLKELLNGLGFSTPDEKFQKDPPYRWMGYELWPTKWKLQKIQLPQKEVWTVNDIQKLVG 871 Query 265 DINW 268 +NW Sbjct 872 VLNW 875 >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: 634 to 877 Score:157 bits(396), Expect:5e-39, Method:Compositional matrix adjust., Identities:91/244(37%), Positives:137/244(56%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ + G + E+ +P+NTP F I+KK KWR+L D R +N Sbjct 634 QWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIRKKDKNKWRMLIDFRELNK 693 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH ++ AF+LPS N EP + Sbjct 694 VTQDFTEIQLGIPHPAGLAKKRRITVLDVGDAYFSIPLHEDFRQYTAFTLPSVNNAEPGK 753 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + II YMDDILIA + + + Sbjct 754 RYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANSDVIIIQYMDDILIASDRTDLEHDKVV 813 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q PY ++G+EL K QK + + ++ T+ND QKL+G Sbjct 814 LQLKELLNNLGFSTPDEKFQKDPPYRWMGYELWPTKWKLQKIQLPQKEVWTVNDIQKLVG 873 Query 265 DINW 268 +NW Sbjct 874 VLNW 877 >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: 633 to 876 Score:157 bits(396), Expect:5e-39, Method:Compositional matrix adjust., Identities:91/244(37%), Positives:137/244(56%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 633 QWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNR 692 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH ++ AF+LPS N EP + Sbjct 693 VTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPLHEDFRQYTAFTLPSVNNAEPEK 752 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + +I YMDDILIA + G + + Sbjct 753 RYVYKVLPQGWKGSPAIFQFMMRQILEPFRKANPDVILIQYMDDILIASDRTGLEHDKVV 812 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q P+ ++G+EL K QK + + ++ T+ND QKL+G Sbjct 813 LQLKELLNGLGFSTPDEKFQKDPPFQWMGYELWPTKWKLQKIQLPQKEIWTVNDIQKLVG 872 Query 265 DINW 268 +NW Sbjct 873 VLNW 876 >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: 632 to 877 Score:156 bits(395), Expect:7e-39, Method:Compositional matrix adjust., Identities:90/246(37%), Positives:137/246(55%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 V QWPLT EK+ A +++ ++ G + E+ +P+NTP F IKKK KWR+L D R + Sbjct 632 VRQWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFREL 691 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FSIPLH ++ AF+LP+ N EP Sbjct 692 NKVTQEFTEIQLGIPHPAGLAKKRRITVLDIGDAYFSIPLHEDFRQYTAFTLPTVNNAEP 751 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ SP + Q + + R A + ++ YMDDILIA + + + Sbjct 752 GKRYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANPDVILVQYMDDILIASDRTDLEHDR 811 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q PY ++G+EL K QK + + ++ T+ND QKL Sbjct 812 TVLQLKELLNGLGFSTPDEKFQKDPPYKWMGYELWPTKWKLQKIQLPQKEVWTVNDIQKL 871 Query 263 LGDINW 268 +G +NW Sbjct 872 VGVLNW 877 >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: 635 to 878 Score:156 bits(394), Expect:1e-38, Method:Compositional matrix adjust., Identities:91/244(37%), Positives:137/244(56%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 635 QWPLTKEKIEALREICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNR 694 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH ++ AF+LPS N EP + Sbjct 695 VTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPLHEDFRQYTAFTLPSVNNAEPGK 754 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + +I YMDDILIA + G + + Sbjct 755 RYIYKVLPQGWKGSPAIFQHTMRQVLEPFRKANPDVILIQYMDDILIASDRTGLEHDKVV 814 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q P ++G+EL K QK + + ++ T+ND QKL+G Sbjct 815 LQLKELLNGLGFSTPDEKFQKDPPLQWMGYELWPTKWKLQKLQLPQKEIWTVNDIQKLVG 874 Query 265 DINW 268 +NW Sbjct 875 VLNW 878 >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: 632 to 877 Score:155 bits(392), Expect:2e-38, Method:Compositional matrix adjust., Identities:88/246(36%), Positives:139/246(56%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKK+ KWR+L D R + Sbjct 632 IRQWPLSKEKILALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKRDKNKWRMLIDFREL 691 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FSIPL P+ ++ AF+LPS N EP Sbjct 692 NKVTQDFTEVQLGIPHPAGLAEKRRITVLDVGDAYFSIPLDPNFRQYTAFTLPSINNAEP 751 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ SP + Q + + R A + II YMDDILIA + + + Sbjct 752 GKRYIYKVLPQGWKGSPAIFQYSMRKVLDPFRKANSDVIIIQYMDDILIASDRSDLEHDR 811 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q P+ ++G+EL + QK + + ++ T+ND QKL Sbjct 812 VVSQLKELLNDMGFSTPEEKFQKDPPFKWMGYELWPKRWKLQKIQLPEKEVWTVNDIQKL 871 Query 263 LGDINW 268 +G +NW Sbjct 872 VGVLNW 877 >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: 630 to 875 Score:155 bits(392), Expect:2e-38, Method:Compositional matrix adjust., Identities:87/246(35%), Positives:138/246(56%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A +++ ++ + G + E+ +P+N+P F IKKK KWR+L D R + Sbjct 630 IRQWPLSKEKILALKEICEKMEKEGQLEEAPPTNPYNSPTFAIKKKDKNKWRMLIDFREL 689 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + ++D+ D +FS+PL P ++ AF+LP+ N EP Sbjct 690 NKVTQEFTEVQLGIPHPAGLASKKRITVLDVGDAYFSVPLDPDFRQYTAFTLPAVNNAEP 749 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ SP + Q +A + R A + II YMDDIL+A + + + Sbjct 750 GKRYLYKVLPQGWKGSPAIFQYTMAKVLDPFRKANNDVTIIQYMDDILVASDRSDLEHDR 809 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q P+ ++G+EL K QK + + ++ T+ND QKL Sbjct 810 VVSQLKELLNNMGFSTPEEKFQKDPPFKWMGYELWPKKWKLQKIQLPEKEVWTVNDIQKL 869 Query 263 LGDINW 268 +G +NW Sbjct 870 VGVLNW 875 >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: 635 to 943 Score:154 bits(388), Expect:5e-38, Method:Compositional matrix adjust., Identities:101/312(32%), Positives:163/312(52%), Gaps:9/312(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESN--SPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPL+ EK+ A ++ + + G I+ +P+NTPIF IKKK + KWR L D R + Sbjct 635 VKQWPLSKEKIEALTEICKTLEKEGKISAVGPENPYNTPIFAIKKKDTSKWRKLVDFREL 694 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N LQ G+P P + + + ++D+ D +FSIPL P +K AF++PS N P Sbjct 695 NKRTQDFWELQLGIPHPAGLRKRNMVTVLDVGDAYFSIPLDPDFRKYTAFTIPSLNNNTP 754 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQ 202 +RFQ+ VLPQ SP + Q + + R + I YMDD+ I + ++ + Sbjct 755 GKRFQYNVLPQGWKGSPAIFQSSMTKILDPFRKEHPDVDIYQYMDDLYIGSDLNEEEHRK 814 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L+Q L GL +K Q + P+ ++G+EL+ K T Q + + + T+N QKL Sbjct 815 LIKKLRQHLLTWGLETPDKKYQEKPPFMWMGYELHPNKWTVQNITLPEPEQWTVNHIQKL 874 Query 263 LGDINWLRP-YLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQF-VT 320 +G +NW Y + T +L L +KG + P +++EA L++ + + E+ Sbjct 875 VGKLNWASQIYHGIKTKELCKLIRGVKGLTEP---VEMTREAELELEENKQILKEKVQGA 931 Query 321 HINYSLPLMFLI 332 + + LPL I Sbjct 932 YYDPKLPLQAAI 943 >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: 633 to 876 Score:154 bits(388), Expect:5e-38, Method:Compositional matrix adjust., Identities:90/244(37%), Positives:136/244(55%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 633 QWPLTREKIEALREICEKMEREGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 692 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPL+ ++ AF+LPS N EP + Sbjct 693 VTQDFTEVQLGIPHPAGLAKKRRITVLDVGDAYFSIPLYEDFRQYTAFTLPSVNNAEPGK 752 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + I+ YMDDILIA + + + Sbjct 753 RYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANPDVIIVQYMDDILIASDRTDLEHDKVV 812 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q PY ++G+EL K QK + + ++ T+ND QKL+G Sbjct 813 LQLKELLNGLGFSTPDEKFQKDPPYQWMGYELWPTKWKLQKIQLPQKEVWTVNDIQKLVG 872 Query 265 DINW 268 +NW Sbjct 873 VLNW 876 >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: 632 to 877 Score:153 bits(386), Expect:1e-37, Method:Compositional matrix adjust., Identities:91/246(37%), Positives:137/246(55%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPLT EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R + Sbjct 632 LKQWPLTKEKIEALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFREL 691 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + I+D+ D +FSIPLH ++ AF+LP+ N EP Sbjct 692 NKVTQDFTEIQLGIPHPAGLAKKKRISILDVGDAYFSIPLHEDFRQYTAFTLPAVNNMEP 751 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ SP + Q + + R A + +I YMDDILIA + G + + Sbjct 752 GKRYIYKVLPQGWKGSPAIFQYTMRQVLEPFRKANPDVILIQYMDDILIASDRTGLEHDK 811 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q P+ ++G EL K QK + + + T+ND QKL Sbjct 812 VVLQLKELLNGLGFSTPDEKFQKDPPFQWMGCELWPTKWKLQKLQLPQKDIWTVNDIQKL 871 Query 263 LGDINW 268 +G +NW Sbjct 872 VGVLNW 877 >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: 634 to 877 Score:152 bits(384), Expect:2e-37, Method:Compositional matrix adjust., Identities:89/244(36%), Positives:135/244(55%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPLT EK+ A +++ ++ G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 634 QWPLTKEKIEALKEICEKMEREGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 693 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPLH ++ AF+LPS N EP + Sbjct 694 VTQDFTEIQLGIPHPAGLAKKKRITVLDVGDAYFSIPLHEDFRQYTAFTLPSINNAEPGK 753 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KV PQ SP + Q + + R A + +I YMDDILIA + + + Sbjct 754 RYIYKVSPQGWKGSPAIFQYTMRQVLEPFRKANPDIILIQYMDDILIASDRTDLEHDRVV 813 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q PY ++G+EL K Q+ + + ++ T+ND QKL+G Sbjct 814 LQLKELLNGLGFSTPDEKFQKDPPYQWMGYELWPTKWKLQRIQLPQKEVWTVNDIQKLVG 873 Query 265 DINW 268 +NW Sbjct 874 VLNW 877 >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: 608 to 853 Score:151 bits(382), Expect:3e-37, Method:Compositional matrix adjust., Identities:90/248(36%), Positives:137/248(55%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PLH +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLHEDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + T + R + I YMDD+ + G D GQ Sbjct 728 GTRYQYNVLPQGWKGSPAIFQSSMTTILEPFRKQNPDLVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 787 TK-IEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 635 to 902 Score:150 bits(379), Expect:8e-37, Method:Compositional matrix adjust., Identities:88/271(32%), Positives:149/271(54%), Gaps:8/271(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A Q++ + E G ++ ++ +NTP+F I+KK +WR+L D R + Sbjct 635 LKQWPLSKEKIIALQEICKTLEEEGKLSRVGGDNAYNTPVFCIRKKDKSQWRMLVDFREL 694 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + IID+ D ++SIPL P +K AF++P+ N + P Sbjct 695 NKATQDFFEVQLGIPHPAGLKKMKQITIIDVGDAYYSIPLDPEFRKYTAFTIPTVNNEGP 754 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 R+Q+ LPQ SPT+ Q + + +++ KQ+ I+ YMDD+ + ++G + Q Sbjct 755 GIRYQFNCLPQGWKGSPTIFQNTASKILEEIKKELKQLTIVQYMDDLWVGSQEEGPKHDQ 814 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 L+ L GL +K+Q + P+ ++G++L K Q + K + T+ND QKL Sbjct 815 LVQTLRNRLQEWGLETPEKKVQREPPFEWMGYKLWPHKWKLQSIELEKKEQWTVNDLQKL 874 Query 263 LGDINW-LRPYLKLTTADLKPLFDTLKGDSN 292 +G +NW + Y L T ++ L L+G N Sbjct 875 VGKLNWAAQLYPGLRTKNICKL---LRGKKN 902 >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: 620 to 863 Score:149 bits(376), Expect:2e-36, Method:Compositional matrix adjust., Identities:88/244(36%), Positives:135/244(55%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 620 QWPLSKEKIIALREICEKMEKDGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 679 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPL ++ AF+LPS N EP + Sbjct 680 VTQDFTEVQLGIPHPAGLAKRRRITVLDVGDAYFSIPLDEEFRQYTAFTLPSVNNAEPGK 739 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + +I YMDDILIA + + + Sbjct 740 RYIYKVLPQGWKGSPAIFQHTMRNVLEPFRKANPDVTLIQYMDDILIASDRTDLEHDRVV 799 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q P+ ++G+EL K QK + + + T+ND QKL+G Sbjct 800 LQLKELLNSIGFSTPEEKFQKDPPFQWMGYELWPTKWKLQKIELPQRETWTVNDIQKLVG 859 Query 265 DINW 268 +NW Sbjct 860 VLNW 863 >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: 620 to 863 Score:149 bits(375), Expect:3e-36, Method:Compositional matrix adjust., Identities:88/244(36%), Positives:135/244(55%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 620 QWPLSKEKIIALREICEKMEKDGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNK 679 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPL ++ AF+LPS N EP + Sbjct 680 VTQDFTEVQLGIPHPAGLAKRRRITVLDVGDAYFSIPLDEEFRQYTAFTLPSVNNAEPGK 739 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + +I YMDDILIA + + + Sbjct 740 RYIYKVLPQGWKGSPAIFQYTMRNVLEPFRKANPDVTLIQYMDDILIASDRTDLEHDRVV 799 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q P+ ++G+EL K QK + + + T+ND QKL+G Sbjct 800 LQLKELLNGIGFSTPEEKFQKDPPFQWMGYELWPTKWKLQKIELPQRETWTVNDIQKLVG 859 Query 265 DINW 268 +NW Sbjct 860 VLNW 863 >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: 639 to 899 Score:148 bits(374), Expect:3e-36, Method:Compositional matrix adjust., Identities:84/261(32%), Positives:143/261(54%), Gaps:7/261(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 V QWPL+ EK+ A Q++ + + G I+ + +NTPIF IKKK +WR+L D R + Sbjct 639 VRQWPLSKEKIEALQEICSQLEQEGKISRVGGENAYNTPIFCIKKKDKSQWRMLVDFREL 698 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D ++SIPL P+ +K AF++P+ N + P Sbjct 699 NKATQDFFEVQLGIPHPAGLRKMRQITVLDVGDAYYSIPLDPNFRKYTAFTIPTVNNQGP 758 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL-Q 202 R+Q+ LPQ SPT+ Q A+ + +++ + I+ YMDD+ + ++ + + Sbjct 759 GIRYQFNCLPQGWKGSPTIFQNTAASILEEIKRNLPALTIVQYMDDLWVGSQENEHTHDK 818 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +QL+ +L GL +K+Q + PY ++G++L K + + + T+ND QKL Sbjct 819 LVEQLRTKLQAWGLETPEKKMQKEPPYEWMGYKLWPHKWELSRIQLEEKDEWTVNDIQKL 878 Query 263 LGDINW---LRPYLKLTTADL 280 +G +NW L P LK L Sbjct 879 VGKLNWAAQLYPGLKTRICKL 899 >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: 606 to 862 Score:148 bits(374), Expect:3e-36, Method:Compositional matrix adjust., Identities:92/259(36%), Positives:142/259(54%), Gaps:11/259(4%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ +E E G I++ +P+NTPIF IKKK S KWR L D R + Sbjct 606 VKQWPLTEEKIKALTEICKEMEEEGKISKIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 665 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 666 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 725 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R +M I YMDD+ + G D GQ Sbjct 726 GVRYQYNVLPQGWKGSPAIFQSSMTRILEPFRANNPEMVIYQYMDDLYV-GSDLEIGQHR 784 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 785 AK-IEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKESWTVNDIQ 843 Query 261 KLLGDINW---LRPYLKLT 276 KL+G +NW + P +K+T Sbjct 844 KLVGKLNWASQIYPGIKVT 862 >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: 619 to 862 Score:148 bits(374), Expect:4e-36, Method:Compositional matrix adjust., Identities:87/244(36%), Positives:135/244(55%), Gaps:4/244(1%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R +N Sbjct 619 QWPLSKEKIVALREICEKMEKDGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFRELNR 678 Query 86 TMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 +Q G+P P + + ++D+ D +FSIPL ++ AF+LPS N EP + Sbjct 679 VTQDFTEVQLGIPHPAGLAKRKRITVLDIGDAYFSIPLDEEFRQYTAFTLPSVNNAEPGK 738 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQCF 204 R+ +KVLPQ SP + Q + + R A + ++ YMDDILIA + + + Sbjct 739 RYIYKVLPQGWKGSPAIFQYTMRHVLEPFRKANPDVTLVQYMDDILIASDRTDLEHDRVV 798 Query 205 DQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKLLG 264 QLK+ L G EK Q P+ ++G+EL K QK + + + T+ND QKL+G Sbjct 799 LQLKELLNSIGFSTPEEKFQKDPPFQWMGYELWPTKWKLQKIELPQRETWTVNDIQKLVG 858 Query 265 DINW 268 +NW Sbjct 859 VLNW 862 >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: 636 to 903 Score:147 bits(371), Expect:7e-36, Method:Compositional matrix adjust., Identities:87/272(32%), Positives:153/272(56%), Gaps:10/272(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A Q++ + + G I++ + +NTP+F IKKK +WR+L D R + Sbjct 636 LKQWPLSKEKIKALQEICDQLEKEGKISKIGGENAYNTPVFCIKKKDKSQWRMLVDFREL 695 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + ++D+ D ++SIPL P +K AF++PS N + P Sbjct 696 NKATQDFFEVQLGIPHPSGFEKMTEITVLDIGDAYYSIPLDPEFRKYTAFTIPSVNNQGP 755 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL-Q 202 R+Q+ LPQ SPT+ Q A+ + +++ K + I+ YMDD+ + ++ + + Sbjct 756 GTRYQFNCLPQGWKGSPTIFQNTAASILEEIKKELKPLTIVQYMDDLWVGSQEDEYTHDR 815 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ-TLNDFQK 261 +QL+ +L+ GL +K+Q + PY ++G++L P ++ +DK + T+ND Q+ Sbjct 816 LVEQLRMKLSAWGLETPDKKVQKKPPYEWMGYKL-WPHKWQISSIELEDKEEWTVNDIQR 874 Query 262 LLGDINW-LRPYLKLTTADLKPLFDTLKGDSN 292 L+G +NW + Y L T +L L ++G N Sbjct 875 LVGKLNWAAQLYPGLRTKNLCKL---IRGKKN 903 >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: 617 to 862 Score:147 bits(371), Expect:7e-36, Method:Compositional matrix adjust., Identities:87/246(35%), Positives:136/246(55%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R + Sbjct 617 LKQWPLSKEKIVALREICEKMEKDGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFREL 676 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FSIPL ++ AF+LPS N EP Sbjct 677 NRVTQDFTEVQLGIPHPAGLAKRKRITVLDIGDAYFSIPLDEEFRQYTAFTLPSVNNAEP 736 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ SP + Q + + R A + ++ YMDDILIA + + + Sbjct 737 GKRYIYKVLPQGWKGSPAIFQYTMRHVLEPFRKANPDVTLVQYMDDILIASDRTDLEHDR 796 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q P+ ++G+EL K QK + + + T+ND QKL Sbjct 797 VVLQLKELLNSIGFSSPEEKFQKDPPFQWMGYELWPTKWKLQKIELPQRETWTVNDIQKL 856 Query 263 LGDINW 268 +G +NW Sbjct 857 VGVLNW 862 >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: 557 to 802 Score:146 bits(369), Expect:2e-35, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:138/247(55%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPL++EK+ A ++ QE + G I++ +P+NTPIF IKKK S KWR L D R + Sbjct 557 VKQWPLSAEKIKALTEICQEMEKEGKISKIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 616 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS PL +K AF++PS N + P Sbjct 617 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 676 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP++ Q + + R + I YMDD+ + G D + Q Sbjct 677 GVRYQYNVLPQGWKGSPSIFQSSMTKILEPFREKNPDITIYQYMDDLYV-GSDLEIDQHR 735 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q + + ++ T+ND QK Sbjct 736 KKVEELRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKEVWTVNDIQK 795 Query 262 LLGDINW 268 L+G +NW Sbjct 796 LIGKLNW 802 >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: 618 to 863 Score:146 bits(368), Expect:2e-35, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:134/247(54%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT+EK+ A +++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 618 VKQWPLTTEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 677 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q ++D+ D +FS PL +K AF++PS N + P Sbjct 678 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 737 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 738 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFREKHPEIIIYQYMDDLYV-GSDLELAQHR 796 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + + L+ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND QK Sbjct 797 EAVEDLRDHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKDVWTVNDIQK 856 Query 262 LLGDINW 268 L+G +NW Sbjct 857 LVGKLNW 863 >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: 618 to 863 Score:146 bits(368), Expect:2e-35, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:135/247(54%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT+EK+ A +++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 618 VKQWPLTAEKIEALREICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 677 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q + D+ D +FS PL +K AF++PS N + P Sbjct 678 NKRTQEFWEVQLGIPHPAGLKQKKSVTVXDVGDAYFSCPLDKDFRKYTAFTIPSINNETP 737 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 738 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKKHPEIIIYQYMDDLYV-GSDLEIAQHR 796 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + ++ T+ND QK Sbjct 797 ETVEELRGHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIKLPEKEVWTVNDIQK 856 Query 262 LLGDINW 268 L+G +NW Sbjct 857 LVGKLNW 863 >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: 608 to 853 Score:146 bits(368), Expect:2e-35, Method:Compositional matrix adjust., Identities:89/248(36%), Positives:136/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L GL +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 787 TK-IEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 608 to 853 Score:146 bits(368), Expect:2e-35, Method:Compositional matrix adjust., Identities:89/248(36%), Positives:136/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L GL +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 787 TK-IEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 620 to 865 Score:145 bits(367), Expect:2e-35, Method:Compositional matrix adjust., Identities:89/248(36%), Positives:136/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 620 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 679 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 680 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 739 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 740 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 798 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L GL +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 799 TK-IEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 857 Query 261 KLLGDINW 268 KL+G +NW Sbjct 858 KLVGKLNW 865 >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: 605 to 850 Score:145 bits(366), Expect:3e-35, Method:Compositional matrix adjust., Identities:84/246(34%), Positives:135/246(54%), Gaps:4/246(1%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 + QWPLT EK+ A Q+ E E G I+ +P+NTP+F IKKK S KWR L D R + Sbjct 605 IKQWPLTEEKIKALTQICAELEEEGKISRIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 664 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL+ +K AF++PS N + P Sbjct 665 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLYEDFRKYTAFTIPSINNETP 724 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQ 202 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + + +Q + Sbjct 725 GIRYQYNVLPQGWKGSPAIFQCSMTKILKPFRERNPEIVIYQYMDDLYVGSDLEIEQHRR 784 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L++ L G + +K Q + P+ ++G+EL+ K T Q + + + T+ND QKL Sbjct 785 KIKELREHLLKWGFYTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKEDWTVNDIQKL 844 Query 263 LGDINW 268 +G +NW Sbjct 845 VGKLNW 850 >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: 605 to 883 Score:145 bits(366), Expect:3e-35, Method:Compositional matrix adjust., Identities:94/284(33%), Positives:149/284(52%), Gaps:12/284(4%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESN--SPWNTPIFVIKKK-SGKWRLLQDLRAV 83 + QWPLT EK+ A Q+ E E G I+ +P+NTP+F IKKK S KWR L D R + Sbjct 605 IKQWPLTEEKIKALTQICAEMEEEGKISRVGPENPYNTPVFAIKKKDSTKWRKLVDFREL 664 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL+ +K AF++PS N + P Sbjct 665 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLYEDFRKYTAFTIPSINNETP 724 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQ 202 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + + +Q + Sbjct 725 GIRYQYNVLPQGWKGSPAIFQCSMTKILKPFRERNPEIVIYQYMDDLYVGSDLEIEQHRR 784 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 +L++ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND QKL Sbjct 785 KIKELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKEDWTVNDIQKL 844 Query 263 LGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 +G +NW + P +K +K L LKG L++EA Sbjct 845 VGKLNWASQIYPGIK-----VKQLCKLLKGAKALTDIVPLTREA 883 >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: 608 to 853 Score:145 bits(366), Expect:3e-35, Method:Compositional matrix adjust., Identities:88/248(35%), Positives:138/248(55%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ ++ + G I++ +P+NTPIF IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALTEICKDMEKEGKISKIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKRSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R +M I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPSRTKNPEMVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L GL +K Q + P+ ++G+EL+ K T Q + + + T+ND Q Sbjct 787 AK-IEELREHLLKWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKEDWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 607 to 852 Score:145 bits(365), Expect:4e-35, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:132/247(53%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKKSG-KWRLLQDLRAV 83 V QWPL+ EK+ A + QE + G I+ +P+NTPIF IKKK G KWR L D R + Sbjct 607 VKQWPLSKEKIEALTAICQEMEQEGKISRIGPENPYNTPIFAIKKKDGTKWRKLVDFREL 666 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q ++D+ D +FS PL P +K AF++PS N + P Sbjct 667 NKRTQEFWEVQLGIPHPGGLKQKQSVTVLDVGDAYFSCPLDPDFRKYTAFTIPSVNNETP 726 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD--GQQVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Sbjct 727 GIRYQYNVLPQGWKGSPAIFQSSMTKILDPFRRDNPELEICQYMDDLYV-GSDLPLTEHR 785 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + + L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND QK Sbjct 786 KRIELLREHLYQWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQSIQLPNKDVWTVNDIQK 845 Query 262 LLGDINW 268 L+G +NW Sbjct 846 LIGKLNW 852 >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: 608 to 853 Score:145 bits(365), Expect:4e-35, Method:Compositional matrix adjust., Identities:89/248(36%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 787 TK-IEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 609 to 887 Score:145 bits(365), Expect:5e-35, Method:Compositional matrix adjust., Identities:94/283(33%), Positives:148/283(52%), Gaps:10/283(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 609 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 668 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 669 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETP 728 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + + ++ I YMDD+ + G D GQ Sbjct 729 RIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPEIVIYQYMDDLYV-GSDLEIGQHR 787 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 ++ ++L++ L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 788 IK-IEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 846 Query 261 KLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 KL+G +NW +K L L+G L+KEA Sbjct 847 KLVGKLNWASQI--YAGIKVKQLCKLLRGTKALTEVVQLTKEA 887 >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: 620 to 865 Score:144 bits(364), Expect:6e-35, Method:Compositional matrix adjust., Identities:88/248(35%), Positives:136/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 620 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 679 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 680 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 739 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + + + I YMDD+ + G D GQ Sbjct 740 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYV-GSDLEIGQHR 798 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L GL +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 799 TK-IEELRQHLLRWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 857 Query 261 KLLGDINW 268 KL+G +NW Sbjct 858 KLVGKLNW 865 >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: 612 to 857 Score:144 bits(364), Expect:6e-35, Method:Compositional matrix adjust., Identities:88/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 612 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 671 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 672 NRRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 731 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 732 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIIIYQYMDDLYV-GSDLEIGQHR 790 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 791 TK-IEELRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 849 Query 261 KLLGDINW 268 KL+G +NW Sbjct 850 KLVGKLNW 857 >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: 609 to 854 Score:144 bits(364), Expect:6e-35, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESN--SPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 609 VKQWPLTEEKIKALTEICTEMEKEGKISRVGPENPYNTPIFAIKKKDSTKWRKLVDFREL 668 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 669 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 728 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D GQ Sbjct 729 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIVIYQYMDDLYV-GSDLEIGQHR 787 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND Q Sbjct 788 TK-IEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQSIKLPEKESWTVNDIQ 846 Query 261 KLLGDINW 268 KL+G +NW Sbjct 847 KLVGKLNW 854 >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: 608 to 853 Score:144 bits(363), Expect:8e-35, Method:Compositional matrix adjust., Identities:89/248(36%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + D L+Q L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 787 AKIED-LRQHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 845 Query 261 KLLGDINW 268 KL+G +NW Sbjct 846 KLVGKLNW 853 >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: 609 to 887 Score:144 bits(363), Expect:9e-35, Method:Compositional matrix adjust., Identities:96/285(34%), Positives:150/285(52%), Gaps:14/285(4%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTPIF IKKK S +WR L D R + Sbjct 609 VKQWPLTEEKIKALTEICLEMEKEGKISKIGPENPYNTPIFAIKKKNSTRWRKLVDFREL 668 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ +FS+PLH +K AF++PSTN + P Sbjct 669 NKRTQDFWEVQLGIPHPAGLKKKKSVSVLDVGGAYFSVPLHEDFRKYTAFTIPSTNNETP 728 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 729 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEVIIYQYMDDLYV-GSDLEIGQHR 787 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + T+ND QK Sbjct 788 EKIEELRAHLLRWGFTTPDQKHQKEPPFLWMGYELHPDKWTVQPVKLPEKDSWTVNDIQK 847 Query 262 LLGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 L+G +NW + P +K +K L L+G L+KEA Sbjct 848 LVGKLNWASQIYPGIK-----VKQLCXLLRGAKALTEIVPLTKEA 887 >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: 609 to 900 Score:144 bits(362), Expect:1e-34, Method:Compositional matrix adjust., Identities:96/295(33%), Positives:152/295(51%), Gaps:8/295(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPL+ EK+ A + QE + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 609 VKQWPLSREKIEALTAICQEMEQEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 668 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q ++D+ D +FS PL P +K AF++PS N + P Sbjct 669 NKRTQDFWEVQLGIPHPGGLKQRQSVTVLDVGDAYFSCPLDPDFRKYTAFTIPSVNNETP 728 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD--GQQVL 201 R+Q+ VLPQ SP + Q + + R + ++ I Y+DD+ + G D + Sbjct 729 GVRYQYNVLPQGWKGSPAIFQSSMTKILDPFRKSNPEVEIYQYIDDLYV-GSDLPLAEHR 787 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + + L++ L G +K Q + P+ ++G+EL+ K T Q + ++ T+ND QK Sbjct 788 KRVELLREHLYQWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKEVWTVNDIQK 847 Query 262 LLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE 316 L+G +NW + +K L ++G + LSKEA L++ + E Sbjct 848 LVGKLNWASQIYQ--GIRVKELCKLIRGTKSLTEVVPLSKEAELELEENREKLKE 900 >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: 632 to 876 Score:144 bits(362), Expect:1e-34, Method:Compositional matrix adjust., Identities:87/246(35%), Positives:136/246(55%), Gaps:5/246(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITES--NSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ A +++ ++ + G + E+ +P+NTP F IKKK KWR+L D R + Sbjct 632 IRQWPLSREKILALKEICEKMEKEGQLEEAPPTNPYNTPTFAIKKKDKNKWRMLIDFREL 691 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N + P+ + + +ID+ D +FSIPL P+ ++ AF+LPS N EP Sbjct 692 NKVTQDFTEVNWVFPT-RQVAEKRRITVIDVGDAYFSIPLDPNFRQYTAFTLPSVNNAEP 750 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAG-KDGQQVLQ 202 +R+ +KVLPQ S ++CQ + + R A + II YMDDILIA + + + Sbjct 751 GKRYIYKVLPQGWKGSQSICQYSMRKVLDPFRKANSDVIIIQYMDDILIASDRSDLEHDR 810 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQKL 262 QLK+ L G EK Q P+ ++G+EL K QK + + ++ T+N QKL Sbjct 811 VVSQLKELLNDMGFSTPEEKFQKDPPFKWMGYELWPKKWKLQKIQLPEKEVWTVNAIQKL 870 Query 263 LGDINW 268 +G +NW Sbjct 871 VGVLNW 876 >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: 610 to 855 Score:143 bits(361), Expect:1e-34, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 610 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 669 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 670 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 729 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 730 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 788 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q ++ + T+ND Q Sbjct 789 TK-IEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIMLPEKDSWTVNDIQ 847 Query 261 KLLGDINW 268 KL+G +NW Sbjct 848 KLVGKLNW 855 >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: 605 to 850 Score:143 bits(361), Expect:1e-34, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 605 VKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 664 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 665 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 724 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D GQ Sbjct 725 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIVIYQYMDDLYV-GSDLEIGQHR 783 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND Q Sbjct 784 TK-IEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPINLPEKESWTVNDIQ 842 Query 261 KLLGDINW 268 KL+G +NW Sbjct 843 KLVGKLNW 850 >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: 614 to 859 Score:142 bits(359), Expect:2e-34, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 614 VKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 673 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 674 NKKTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 733 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 734 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 792 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 793 AK-IEELRRHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQ 851 Query 261 KLLGDINW 268 KL+G +NW Sbjct 852 KLVGKLNW 859 >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: 617 to 895 Score:142 bits(359), Expect:3e-34, Method:Compositional matrix adjust., Identities:93/285(33%), Positives:149/285(52%), Gaps:14/285(4%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 617 VKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 676 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS PL + +K AF++PS N + P Sbjct 677 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSCPLDENFRKYTAFTIPSVNNETP 736 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 737 GIRYQYNVLPQGWKGSPAIFQSTMTKILEPFRKNNPELVIYQYMDDLYV-GSDLEITQHR 795 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q+ Sbjct 796 EAVERLRSHLLTWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQTIQLPEKDTWTVNDIQQ 855 Query 262 LLGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 L+G +NW + P +K +K L ++G +L++EA Sbjct 856 LVGKLNWASQIYPGIK-----VKQLCKLIRGAKALTEVVTLTREA 895 >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: 620 to 865 Score:142 bits(359), Expect:3e-34, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 620 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 679 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 680 NRRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 739 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 +Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 740 GSGYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 798 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q V+ + T+ND Q Sbjct 799 TK-IEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTIQPIVLPEKDSWTVNDIQ 857 Query 261 KLLGDINW 268 KL+G +NW Sbjct 858 KLVGKLNW 865 >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: 612 to 857 Score:142 bits(357), Expect:4e-34, Method:Compositional matrix adjust., Identities:86/247(35%), Positives:134/247(54%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A + +E + G I+ +P+NTP+F IKKK S KWR L D R + Sbjct 612 VKQWPLTEEKIKALTAICEEMEQEGKISRIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 671 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PSTN + P Sbjct 672 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEGFRKYTAFTIPSTNNETP 731 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + Q Sbjct 732 GIRYQYNVLPQGWKGSPPIFQSSMPQILEPFRAPNPEIVIYQYMDDLYV-GSDLEIGQHR 790 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 ++L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND QK Sbjct 791 APIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKDSWTVNDIQK 850 Query 262 LLGDINW 268 L+G +NW Sbjct 851 LVGKLNW 857 >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: 607 to 852 Score:142 bits(357), Expect:5e-34, Method:Compositional matrix adjust., Identities:86/248(35%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 607 VKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 666 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 667 NKRTQDFWEVQLGIPHPAGLKKKRSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETP 726 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D GQ Sbjct 727 GIRYQYNVLPQGWKGSPAIFQSSMIKILEPFRKENPEIVIYQYMDDLYV-GSDLEIGQHR 785 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + T+ND Q Sbjct 786 AK-IEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQAIQLPDKSSWTVNDIQ 844 Query 261 KLLGDINW 268 KL+G +NW Sbjct 845 KLVGKLNW 852 >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: 607 to 852 Score:142 bits(357), Expect:5e-34, Method:Compositional matrix adjust., Identities:87/247(35%), Positives:134/247(54%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESN--SPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 607 VKQWPLTEEKIRALTEICTEMEKEGKISRVGPENPYNTPIFAIKKKDSTKWRKLVDFREL 666 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + Q ++D+ D +FS PL + +K AF++PS N + P Sbjct 667 NKRTQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSCPLDENFRKYTAFTIPSVNNETP 726 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVL-- 201 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D + L Sbjct 727 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEIIIYQYMDDLYV-GSDLKIELHR 785 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND QK Sbjct 786 EKVEELRAHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKESWTVNDIQK 845 Query 262 LLGDINW 268 L+G +NW Sbjct 846 LIGKLNW 852 >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: 608 to 886 Score:142 bits(357), Expect:5e-34, Method:Compositional matrix adjust., Identities:97/286(34%), Positives:148/286(51%), Gaps:16/286(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I+ +P++TPIF IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALTEICTEMEKEGKISRIGPENPYSTPIFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVSVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R +M I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILAPFREQNPEMVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 787 AK-IEELRAHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQTVKLPEKDSWTVNDIQ 845 Query 261 KLLGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 KL+G +NW + P +K +K L L+G L+KEA Sbjct 846 KLVGKLNWASQIYPNIK-----VKQLCKLLRGAKALTDIIPLTKEA 886 >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: 607 to 852 Score:141 bits(356), Expect:6e-34, Method:Compositional matrix adjust., Identities:86/248(35%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESN--SPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 607 VKQWPLTEEKIKVLIEICTEMEKEGKISKVGPENPYNTPVFAIKKKDSTKWRKLVDFREL 666 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 667 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 726 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 727 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYV-GSDLEIGQHR 785 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+Q L G +K Q + P+ ++G+EL+ K T Q ++ + T+ND Q Sbjct 786 TK-IEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIMLPEKDSWTVNDIQ 844 Query 261 KLLGDINW 268 KL+G +NW Sbjct 845 KLVGKLNW 852 >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: 603 to 848 Score:141 bits(356), Expect:6e-34, Method:Compositional matrix adjust., Identities:86/247(35%), Positives:133/247(53%), Gaps:6/247(2%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 603 VKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 662 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 663 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 722 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQ--QVL 201 R+Q+ VLPQ SP + Q + + R +M I YMDD+ + G D + Q Sbjct 723 GVRYQYNVLPQGWKGSPAIFQHSMTKILEPFRIKNPEMVIYQYMDDLYV-GSDLEIGQPR 781 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQK 261 ++L++ L G +K Q + P+ ++G+EL+ K T Q + T+ND QK Sbjct 782 TKIEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKDSWTVNDIQK 841 Query 262 LLGDINW 268 L+G +NW Sbjct 842 LVGKLNW 848 >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: 603 to 848 Score:141 bits(356), Expect:6e-34, Method:Compositional matrix adjust., Identities:86/248(35%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 603 VKQWPLTEEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 662 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 663 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETP 722 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D GQ Sbjct 723 GIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRAKNPEIVIYQYMDDLYV-GSDLEIGQHR 781 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 782 TK-IEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKSSWTVNDIQ 840 Query 261 KLLGDINW 268 KL+G +NW Sbjct 841 KLVGKLNW 848 >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: 603 to 848 Score:140 bits(352), Expect:2e-33, Method:Compositional matrix adjust., Identities:87/248(35%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 603 VKQWPLTEEKIKALTEICMEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 662 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K A ++PSTN + P Sbjct 663 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTASTIPSTNNETP 722 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 723 GVRYQYNVLPQGWKGSPAIFQYSMTKILDPFRAKNPDIVIYQYMDDLYV-GSDLEIGQHR 781 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L GL +K Q + P+ ++G+EL+ K T Q + T+ND Q Sbjct 782 TK-IEELREHLLKWGLTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKDSWTVNDIQ 840 Query 261 KLLGDINW 268 KL+G +NW Sbjct 841 KLVGKLNW 848 >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: 601 to 846 Score:139 bits(351), Expect:2e-33, Method:Compositional matrix adjust., Identities:86/248(35%), Positives:134/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D R + Sbjct 601 VKQWPLTEEKIKALTEICNEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 660 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P + + ++D+ D +FS+PL S +K AF++PS N + P Sbjct 661 NKRTQDFWEVQLGIPHTAGLKKKKSVTVLDVGDAYFSVPLDESFRKYTAFTIPSINNETP 720 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP++ Q + + R + I YMDD+ + G D GQ Sbjct 721 GVRYQYNVLPQGWKGSPSIFQSSMTKILEPFRSQHPDIVIYQYMDDLYV-GSDLEIGQHR 779 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L+ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 780 AK-IEELRAHLLSWGFITPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKDSWTVNDIQ 838 Query 261 KLLGDINW 268 KL+G +NW Sbjct 839 KLVGKLNW 846 >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: 602 to 866 Score:139 bits(349), Expect:5e-33, Method:Compositional matrix adjust., Identities:91/272(33%), Positives:143/272(52%), Gaps:16/272(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KWR L D + + Sbjct 602 VKQWPLTEEKIKALTEICLEMEKEGKISKIGPENPYNTPVFAIKKKDSSKWRKLVDFKEL 661 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 662 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFKKYTAFTIPSVNNETP 721 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R + I YMDD+ + G D GQ Sbjct 722 GIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRMKNPDIVIYQYMDDLYV-GSDLEIGQHR 780 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G EL+ K T Q + T+ND Q Sbjct 781 TK-IEELREHLLRWGFTTPDKKHQKEPPFLWMGHELHPDKWTVQPIQLPNKDSWTVNDIQ 839 Query 261 KLLGDINW---LRPYLKLTTADLKPLFDTLKG 289 KL+G +NW + P +K ++PL L+G Sbjct 840 KLVGKLNWASQIYPGIK-----VRPLCKLLRG 866 >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: 613 to 858 Score:138 bits(348), Expect:5e-33, Method:Compositional matrix adjust., Identities:84/248(34%), Positives:135/248(54%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ ++ + G I + +P+NTP+F IKKK S KWR L + R + Sbjct 613 VKQWPLTEEKIKALTEICKDMEKEGKILKIGPENPYNTPVFAIKKKDSTKWRKLVNFREL 672 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 673 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETP 732 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R ++ I YMDD+ + G D GQ Sbjct 733 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRTKNPEIVIYQYMDDLYV-GSDLEIGQHR 791 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 792 TK-IEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKESWTVNDIQ 850 Query 261 KLLGDINW 268 KL+G +NW Sbjct 851 KLVGKLNW 858 >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: 604 to 849 Score:138 bits(347), Expect:7e-33, Method:Compositional matrix adjust., Identities:86/248(35%), Positives:132/248(53%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QW LT EK+ A + E G IT+ +P+NTP+F IKKK S KWR L D R + Sbjct 604 VKQWLLTEEKIKALTAICDEMEREGKITKIGPENPYNTPVFAIKKKDSTKWRKLVDFREL 663 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 664 NKRTWDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEGFRKYTAFTIPSINNETP 723 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP++ Q + R ++ I YMDD+ + G D GQ Sbjct 724 GIRYQYNVLPQGWKGSPSIFQSSTTKILEPFRAQNPEIIIYQYMDDLYV-GSDLEIGQHR 782 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + T+ND Q Sbjct 783 AK-IEELREHLLKWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPEKDSWTVNDIQ 841 Query 261 KLLGDINW 268 KL+G +NW Sbjct 842 KLVGKLNW 849 >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: 617 to 910 Score:136 bits(343), Expect:3e-32, Method:Compositional matrix adjust., Identities:93/300(31%), Positives:155/300(51%), Gaps:15/300(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHIT--ESNSPWNTPIFVIKKKS-GKWRLLQDLRAV 83 + QWPL+ EK+ Q++ E G I+ + + +NTPIF IKKK +WR L D R + Sbjct 617 IKQWPLSKEKIVGLQKICDRLEEEGKISRVDPGNNYNTPIFAIKKKDKNEWRKLIDFREL 676 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N LQ G+P P I + ++D+ D +FSIPL P + AF++PS N + P Sbjct 677 NKLTQDFHELQLGIPHPAGIKKCKRITVLDIGDAYFSIPLDPDYRPYTAFTVPSVNNQAP 736 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD--GQQVL 201 +R+ + VLPQ SP + Q VA+ + R + + YMDD+ + G D ++ Sbjct 737 GKRYMYNVLPQGWKGSPCIFQGTVASLLEVFRKNHPTVQLYQYMDDLFV-GSDYTAEEHE 795 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQ-TLNDFQ 260 + +L+ L L +K Q + P+ ++G+EL+ K +K + + Q T+N+ Q Sbjct 796 KAIVELRALLMTWNLETPEKKYQKEPPFHWMGYELHPDKWKIEKVQLPELAEQPTVNEIQ 855 Query 261 KLLGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQ 317 KL+G +NW L P +K K L ++G N ++++EA ++ + +AE+ Sbjct 856 KLVGKLNWAAQLYPGIK-----TKQLCKLIRGGLNITEKVTMTEEARLEYEQNKEILAEE 910 >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: 603 to 848 Score:136 bits(342), Expect:3e-32, Method:Compositional matrix adjust., Identities:85/248(34%), Positives:132/248(53%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ E + G I++ +P+NTP+F IKKK S KW L D R + Sbjct 603 VKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWIKLVDFREL 662 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++PS N + P Sbjct 663 NKRTPDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETP 722 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R M + YMDD+ + G D GQ Sbjct 723 GIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRRKNPDMVLYQYMDDLYV-GSDLEIGQHR 781 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + T+ND Q Sbjct 782 AK-IEELREHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPIQLPDKDSWTVNDIQ 840 Query 261 KLLGDINW 268 KL+G +NW Sbjct 841 KLVGKLNW 848 >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: 144 to 435 Score:135 bits(341), Expect:4e-32, Method:Compositional matrix adjust., Identities:96/297(32%), Positives:145/297(48%), Gaps:12/297(4%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL +++V + + G + + W NTPIF IKKKSGKWR+L D R +N Sbjct 144 IAQWPLTQEKLEGLKEIVDKLEKEGKVGRAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 203 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ + F++ S N P Sbjct 204 KQTEDLAEAQLGLPHPGGLQKKKHVTILDIGDAYFTIPLYEPYRPYTCFTMLSPNNLGPC 263 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHK--VRHAWKQMYIIHYMDDILIAGK-DGQQVL 201 R+ WKVLPQ SP++ Q + + +H Q I YMDDI I D + Sbjct 264 TRYYWKVLPQGWKLSPSVYQFTMQEILRDWIAKHPMIQFGI--YMDDIYIGSDLDIMKHR 321 Query 202 QCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIR--KDKLQTLNDF 259 + ++L + G + EK Q P +LGFEL+ K QK + K+ TLN Sbjct 322 EIVEELASYIAQYGFMLPEEKRQEGYPAKWLGFELHPEKWRFQKHTLPEIKEGTITLNKL 381 Query 260 QKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE 316 QKL+GD+ W + L + + ++GD S R + + ++ +AE Sbjct 382 QKLVGDLVWRQ---SLIGKSIPNILKLMEGDRALQSERRIELRHVKEWEECRRKLAE 435 >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: 630 to 1153 Score:135 bits(341), Expect:5e-32, Method:Compositional matrix adjust., Identities:142/555(26%), Positives:245/555(44%), Gaps:49/555(8%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKKSG-KWRLLQDLRAV 83 + QWPL+ EK+ A ++ ++ E G ++ +P+NTP+F IKKK +WR+L D R + Sbjct 630 LKQWPLSREKIEALTEICKQMEEEGKLSRIGGENPYNTPVFAIKKKDKTQWRMLVDFREL 689 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + +ID+ D ++SIPL +K AF++PS N P Sbjct 690 NKATQDFFEVQLGIPHPAGLQKKKQITVIDIGDAYYSIPLCKEFRKYTAFTIPSVNNTGP 749 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGK-DGQQVLQ 202 R+Q+ LPQ SPT+ Q A + +++ + I+ YMDD+ +A D + Q Sbjct 750 GIRYQFNCLPQGWKGSPTIFQNTAANILEEIKRHTPGLEIVQYMDDLWLASDHDETRHNQ 809 Query 203 CFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKIT-NQKAVIRKDKLQTLNDFQK 261 D +++ L GL +K+Q + P+ ++G++L+ K T N+ + + T+N QK Sbjct 810 QVDIVRKMLLEKGLETPDKKVQREPPWEWMGYKLHPNKWTINKIELPPLEGEWTVNKIQK 869 Query 262 LLGDINW---LRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQF 318 ++G +NW + P +K K L+G N ++EA A + + E Sbjct 870 VVGVLNWASQIYPGIK-----TKHTCAMLRGKKNLLEEIVWTEEAEAEYKNNQGIVQE-- 922 Query 319 VTHINYSLPLMFLIFNTALTPTG----LFWQNNPIMWVHLPASPKKVLLPYYDAIADLII 374 Y PL LI G F Q ++ V A ++ +A L+ Sbjct 923 TQEGTYYDPLKELIATVQKQGEGQWTYQFTQEGAVLKVGRYAKQRETHTNDLRTLAHLVQ 982 Query 375 LGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILDNHYPPNKLIQFC 434 + +G P V + P K W M + W + S++ P + + Sbjct 983 KICKEALTIWGRLPRVQL-PVDKK--TWDMWWQDYWQV---SWI-------PEWEFVSTP 1029 Query 435 KLHAFIFPQIISKTPLNNALLVFTDGSST-----GMAAYTLADTTIKFQTNLNSA-QLVE 488 L + + K P+ + + DG+++ G A Y + + N+ Q E Sbjct 1030 LLVKLWYS--LVKEPIKGEDVYYVDGAASKVTKLGKAGYLSERGKSRIRELENTTNQQAE 1087 Query 489 LQALIAVLSAFPNQPLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQLIYNRSI 548 L A+ L + +NI TDS Y+ + +L Q + ++ Q L+ R + Sbjct 1088 LTAVKMALED-SGENVNIVTDSQYVMN---ILTACPQESNSPLVEQII---QALMKKRQV 1140 Query 549 PFYIGHVRAHSGLPG 563 Y+ V AH G+ G Sbjct 1141 --YLQWVPAHKGIGG 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 (ELI ISOLATE)] Sequence ID: P04589.3 Length: 1435 Range 1: 608 to 853 Score:135 bits(340), Expect:6e-32, Method:Compositional matrix adjust., Identities:84/248(34%), Positives:132/248(53%), Gaps:8/248(3%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITE--SNSPWNTPIFVIKKK-SGKWRLLQDLRAV 83 V QWPLT EK+ A ++ + + G I+ +P+NTPIF IKKK S KWR L D R + Sbjct 608 VKQWPLTEEKIKALTEICTDMEKEGKISRIGPENPYNTPIFAIKKKDSTKWRKLVDFREL 667 Query 84 NATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEP 143 N +Q G+P P + + ++D+ D +FS+PL +K AF++ S N + P Sbjct 668 NKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTISSINNETP 727 Query 144 MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKD---GQQV 200 R+Q+ VLPQ SP + Q + + R +M I YMDD+ + G D GQ Sbjct 728 GIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPEMVIYQYMDDLYV-GSDLEIGQHR 786 Query 201 LQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRKDKLQTLNDFQ 260 + ++L++ L G +K Q + P+ ++G+EL+ K T Q + + + T+ND Q Sbjct 787 TK-IEKLREHLLRWGFTRPDKKHQKEPPFLWMGYELHPDKWTVQSIKLPEKESWTVNDIQ 845 Query 261 KLLGDINW 268 L+ +NW Sbjct 846 NLVERLNW 853 >RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42 [Koala retrovirus] Sequence ID: Q9TTC1.2 Length: 1687 Range 1: 692 to 1302 Score:130 bits(327), Expect:2e-30, Method:Compositional matrix adjust., Identities:166/635(26%), Positives:264/635(41%), Gaps:94/635(14%) Query 20 KSD-EPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLL 77 KSD PV V Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R + Sbjct 692 KSDASPVAVRQYPMSKEAREGIRPHIQRFLDLGILVPCQSPWNTPLLPVKKPGTNDYRPV 751 Query 78 QDLRAVNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFA 132 QDLR VN + + P +P+P + P ++DLKD FF + LHP+ Q FA Sbjct 752 QDLREVNKRVQ---DIHPTVPNPYNLLSSLPPSHTWYSVLDLKDAFFCLKLHPNSQPLFA 808 Query 133 FSLPSTNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMD 188 F +++P + + W LPQ NSPTL + + + R Q+ ++ Y+D Sbjct 809 F-----EWRDPEKGNTGQLTWTRLPQGFKNSPTLFDEALHRDLASFRALNPQVVMLQYVD 863 Query 189 DILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPK---ITNQ 244 D+L+A + + +L QEL+ G ++ +K QL ++ TYLG+ L G K + Sbjct 864 DLLVAAPTYRDCKEGTRRLLQELSKLGYRVSAKKAQLCREEVTYLGYLLKGGKRWLTPAR 923 Query 245 KAVIRKDKLQTL-NDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEA 303 KA + K T ++ LG + R ++ + PL+ L + P + +EA Sbjct 924 KATVMKIPTPTTPRQVREFLGTAGFCRLWIPGFASLAAPLY-PLTREKVPFTWTEAHQEA 982 Query 304 LALLDKVETA--------IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLP 355 + + + + + F +++ + + L P W+ P+ ++ Sbjct 983 FGRIKEALLSAPALALPDLTKPFALYVDEKEGVARGVLTQTLGP----WR-RPVAYLSKK 1037 Query 356 ASPKKVLLPY-YDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQI-----DWLMQNTEM 409 P P AIA + +L +D K G + ++I P++ I D M N M Sbjct 1038 LDPVASGWPTCLKAIAAVALLLKDADKLTLG-QNVLVIAPHNLESIVRQPPDRWMTNARM 1096 Query 410 WPIACASYVGILDNHY----PPNKL-------IQFCKLHAFIFPQIISKT---------- 448 Y +L N PP L ++ I +I+++ Sbjct 1097 -----THYQSLLLNERVSFAPPAILNPATLLPVESDDTPIHICSEILAEETGTRPDLRDQ 1151 Query 449 PLNNALLVFTDGSSTGMAAYTLADTTI------KFQTNL---NSAQLVELQALIAVLSAF 499 PL +TDGSS M A I + +NL SAQ EL AL L Sbjct 1152 PLPGVPAWYTDGSSFIMDGRRQAGAAIVDNKRTVWASNLPEGTSAQKAELIALTQALRLA 1211 Query 500 PNQPLNIYTDSAY---LAH-------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIP 549 + +NIYTDS Y AH LL + + E L+ L +I Sbjct 1212 EGKSINIYTDSRYAFATAHVHGAIYKQRGLLTSAGKDIKNKEEILALLEAIHLPKRVAII 1271 Query 550 FYIGHVRAHSGLPGPIAHGNQKADLATKTVASNIN 584 GH R P+A GN+KAD A K A + Sbjct 1272 HCPGHQRGTD----PVATGNRKADEAAKQAAQSTR 1302 >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: 564 to 839 Score:130 bits(327), Expect:3e-30, Method:Compositional matrix adjust., Identities:92/283(33%), Positives:141/283(49%), Gaps:16/283(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL +++V + G + + W NTPIF IKKKSGKWR+L D R +N Sbjct 564 IAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 623 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ ++ F++ S N P Sbjct 624 KQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPYRQYTCFTMLSPNNLGPC 683 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMY-IIH---YMDDILIAGKDG-QQ 199 R+ WKVLPQ SP++ Q + K+ W + + +I YMDDI I G ++ Sbjct 684 VRYYWKVLPQGWKLSPSVYQ----FTMQKILRGWIEEHPMIQFGIYMDDIYIGSDLGLEE 739 Query 200 VLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRK--DKLQTLN 257 ++L + G + +K Q P +LGFEL+ K QK + + + TLN Sbjct 740 HRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKHTLPEITEGPITLN 799 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 QKL+GD+ W + L + + ++GD S R + Sbjct 800 KLQKLVGDLVWRQS---LIGKSIPNILKLMEGDRALQSERYIE 839 >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: 564 to 839 Score:130 bits(326), Expect:4e-30, Method:Compositional matrix adjust., Identities:92/283(33%), Positives:140/283(49%), Gaps:16/283(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL +++V + G + + W NTPIF IKKKSGKWR+L D R +N Sbjct 564 IAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 623 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ ++ F++ S N P Sbjct 624 KQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPYRQYTCFTMLSPNNLGPC 683 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMY-IIH---YMDDILIAGKDG-QQ 199 R+ WKVLPQ SP + Q + K+ W + + +I YMDDI I G ++ Sbjct 684 VRYYWKVLPQGWKLSPAVYQ----FTMQKILRGWIEEHPMIQFGIYMDDIYIGSDLGLEE 739 Query 200 VLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRK--DKLQTLN 257 ++L + G + +K Q P +LGFEL+ K QK + + + TLN Sbjct 740 HRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKHTLPEITEGPITLN 799 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 QKL+GD+ W + L + + ++GD S R + Sbjct 800 KLQKLVGDLVWRQS---LIGKSIPNILKLMEGDRALQSERYIE 839 >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: 564 to 839 Score:130 bits(326), Expect:4e-30, Method:Compositional matrix adjust., Identities:92/283(33%), Positives:140/283(49%), Gaps:16/283(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL +++V + G + + W NTPIF IKKKSGKWR+L D R +N Sbjct 564 IAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 623 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ ++ F++ S N P Sbjct 624 KQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPYRQYTCFTMLSPNNLGPC 683 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMY-IIH---YMDDILIAGKDG-QQ 199 R+ WKVLPQ SP + Q + K+ W + + +I YMDDI I G ++ Sbjct 684 VRYYWKVLPQGWKLSPAVYQ----FTMQKILRGWIEEHPMIQFGIYMDDIYIGSDLGLEE 739 Query 200 VLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRK--DKLQTLN 257 ++L + G + +K Q P +LGFEL+ K QK + + + TLN Sbjct 740 HRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKHTLPEITEGPITLN 799 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 QKL+GD+ W + L + + ++GD S R + Sbjct 800 KLQKLVGDLVWRQS---LIGKSIPNILKLMEGDRALQSERYIE 839 >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: 564 to 839 Score:130 bits(326), Expect:4e-30, Method:Compositional matrix adjust., Identities:92/283(33%), Positives:140/283(49%), Gaps:16/283(5%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 + QWPLT EKL +++V + G + + W NTPIF IKKKSGKWR+L D R +N Sbjct 564 IAQWPLTQEKLEGLKEIVDRLEKEGKVGRAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 623 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ ++ F++ S N P Sbjct 624 KQTEDLAEAQLGLPHPGGLQRKKHVTILDIGDAYFTIPLYEPYRQYTCFTMLSPNNLGPC 683 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMY-IIH---YMDDILIAGKDG-QQ 199 R+ WKVLPQ SP + Q + K+ W + + +I YMDDI I G ++ Sbjct 684 VRYYWKVLPQGWKLSPAVYQ----FTMQKILRGWIEEHPMIQFGIYMDDIYIGSDLGLEE 739 Query 200 VLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRK--DKLQTLN 257 ++L + G + +K Q P +LGFEL+ K QK + + + TLN Sbjct 740 HRGIVNELASYIAQYGFMLPEDKRQEGYPAKWLGFELHPEKWKFQKHTLPEITEGPITLN 799 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS 300 QKL+GD+ W + L + + ++GD S R + Sbjct 800 KLQKLVGDLVWRQS---LIGKSIPNILKLMEGDRALQSERYIE 839 >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: 168 to 458 Score:129 bits(323), Expect:7e-30, Method:Compositional matrix adjust., Identities:96/298(32%), Positives:147/298(49%), Gaps:20/298(6%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPW--NTPIFVIKKKSGKWRLLQDLRAVN 84 V QWPLT EKL +++ + +E G + ++ W NTPIF IKKKSGKWR+L D R +N Sbjct 168 VPQWPLTEEKLKGLTEIIDKLVEEGKLGKAPPHWTCNTPIFCIKKKSGKWRMLIDFRELN 227 Query 85 ATMVLMGALQPGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPM 144 + Q GLP P + + I+D+ D +F+IPL+ ++ F+L S N P Sbjct 228 KQTEDLTEAQLGLPHPGGLQKKKHVTILDIGDAYFTIPLYEPYREYTCFTLLSPNNLGPC 287 Query 145 QRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMY----IIHYMDDILIAGK-DGQQ 199 +R+ WKVLPQ SP++ Q + ++ W Q + YMDDI I + ++ Sbjct 288 KRYYWKVLPQGWKLSPSVYQ----FTMQEILEDWIQQHPEIQFGIYMDDIYIGSDLEIKK 343 Query 200 VLQCFDQLKQELTIAGLHIAPEKIQLQDPYTYLGFELNGPKITNQKAVIRK--DKLQTLN 257 + L + G + EK Q P +LGFEL+ QK + + TLN Sbjct 344 HREIVKDLANYIAQYGFTLPEEKRQKGYPAKWLGFELHPQTWKFQKHTLPELTKGTITLN 403 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLS----KEALALLDKVE 311 QKL+G++ W + + + ++ L ++GD S R + KE A K+E Sbjct 404 KLQKLVGELVWRQSIIGKSIPNILKL---MEGDRELQSERKIEEVHVKEWEACRKKLE 458 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Reticuloendotheliosis virus] Sequence ID: P03360.2 Length: 1152 Range 1: 136 to 740 Score:128 bits(321), Expect:1e-29, Method:Compositional matrix adjust., Identities:160/621(26%), Positives:260/621(41%), Gaps:80/621(12%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKK-SGKWRLLQDLRA 82 PV V Q+P+T E + ++ +++ AG + +SPWNTP+ ++K + ++R++QDLR Sbjct 136 PVRVRQYPITLEAKRSLRETIRKFRAAGILRPVHSPWNTPLLPVRKSGTSEYRMVQDLRE 195 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF IPL P Q FAF Sbjct 196 VNKRVE---TIHPTVPNPYTLLSLLPPDRIWYSVLDLKDAFFCIPLAPESQLIFAFEWAD 252 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 E Q W LPQ NSPTL + + + R + ++ Y+DD+LIA Sbjct 253 AEEGESGQ-LTWTRLPQGFKNSPTLFDEALNRDLQGFRLDHPSVSLLQYVDDLLIAADTQ 311 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELN--GPKITNQK--AVIRKDK 252 L L L G ++ +K QL Q+ TYLGF+++ ++N + A+++ Sbjct 312 AACLSATRDLLMTLAELGYRVSGKKAQLCQEEVTYLGFKIHKGSRSLSNSRTQAILQIPV 371 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVET 312 +T ++ LG I + R ++ +PL+ +G ++P +EA L T Sbjct 372 PKTKRQVREFLGTIGYCRLWIPGFAELAQPLYAATRGGNDPLVWGEKEEEAFQSLKLALT 431 Query 313 AIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQ-----NNPIMWVHLPASPKKVLLPY-Y 366 + ++ P + T+ G+ Q P+ ++ P P Sbjct 432 QPPALALPSLDK--PFQLFVEETSGAAKGVLTQALGPWKRPVAYLSKRLDPVAAGWPRCL 489 Query 367 DAIADLIILGRDHSKKYFG----IEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVGILD 422 AIA +L R+ SK FG I S ++ +S D + N + V +LD Sbjct 490 RAIAAAALLTREASKLTFGQDIEITSSHNLESLLRSPPDKWLTNARI----TQYQVLLLD 545 Query 423 NHYPPN-KLIQFCKLH-AFIFPQIISKTPLNNAL-----------------------LVF 457 PP + Q L+ A + P+ P+++ L +F Sbjct 546 ---PPRVRFKQTAALNPATLLPETDDTLPIHHCLDTLDSLTSTRPDLTDQPLAQAEATLF 602 Query 458 TDGSS--------TGMAAYTLADTTIKFQ--TNLNSAQLVELQALIAVLSAFPNQPLNIY 507 TDGSS G A TL D+ I + SAQ EL AL L ++ +NIY Sbjct 603 TDGSSYIRDGKRYAGAAVVTL-DSVIWAEPLPIGTSAQKAELIALTKALEWSKDKSVNIY 661 Query 508 TDSAYL-----AHSIPLLET---VAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHS 559 TDS Y H + E A K I ++ + + + + H + H Sbjct 662 TDSRYAFATLHVHGMIYRERGLLTAGGKAIKNAPEILALLTAVWLPKRV--AVMHCKGHQ 719 Query 560 GLPGPIAHGNQKADLATKTVA 580 P + GN++AD + VA Sbjct 720 KDDAPTSTGNRRADEVAREVA 740 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Gibbon ape leukemia virus] Sequence ID: P21414.2 Length: 1686 Range 1: 696 to 1297 Score:120 bits(301), Expect:5e-27, Method:Compositional matrix adjust., Identities:158/624(25%), Positives:254/624(40%), Gaps:89/624(14%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV V Q+P++ E + +Q+ L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 696 PVAVRQYPMSKEAREGIRPHIQKFLDLGVLVPCRSPWNTPLLPVKKPGTNDYRPVQDLRE 755 Query 83 VNATMVLMGALQPGLPSPV----AIPQGYL-KIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 +N + + P +P+P ++P Y ++DLKD FF + LHP+ Q FAF Sbjct 756 INKRVQ---DIHPTVPNPYNLLSSLPPSYTWYSVLDLKDAFFCLRLHPNSQPLFAF---- 808 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +K+P + + W LPQ NSPTL + + + R Q+ ++ Y+DD+L+A Sbjct 809 -EWKDPEKGNTGQLTWTRLPQGFKNSPTLFDEALHRDLAPFRALNPQVVLLQYVDDLLVA 867 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPK---ITNQKAVIR 249 + + +L QEL+ G ++ +K QL Q TYLG+ L K +KA + Sbjct 868 APTYEDCKKGTQKLLQELSKLGYRVSAKKAQLCQREVTYLGYLLKEGKRWLTPARKATVM 927 Query 250 KDKLQTL-NDFQKLLGDINWLRPYLKLTTADLKPLFDTLK-------GDSNPNSHRSLSK 301 K + T ++ LG + R ++ + PL+ K + + + + K Sbjct 928 KIPVPTTPRQVREFLGTAGFCRLWIPGFASLAAPLYPLTKESIPFIWTEEHQQAFDHIKK 987 Query 302 EALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKV 361 L+ + + F +I+ + + L P W+ P+ ++ P Sbjct 988 ALLSAPALALPDLTKPFTLYIDERAGVARGVLTQTLGP----WR-RPVAYLSKKLDPVAS 1042 Query 362 LLPY-YDAIADLIILGRDHSKKYFGIEPSVI----IQPYSKSQIDWLMQNTEMWPIACAS 416 P A+A + +L +D K G +VI ++ + D M N M Sbjct 1043 GWPTCLKAVAAVALLLKDADKLTLGQNVTVIASHSLESIVRQPPDRWMTNARM-----TH 1097 Query 417 YVGILDNHY----PPNKL--------------IQFCK---LHAFIFPQIISKTPLNNALL 455 Y +L N PP L + C + + PL Sbjct 1098 YQSLLLNERVSFAPPAVLNPATLLPVESEATPVHRCSEILAEETGTRRDLEDQPLPGVPT 1157 Query 456 VFTDGSSTGMAAYTLADTTI------KFQTNL---NSAQLVELQALIAVLSAFPNQPLNI 506 +TDGSS A I + ++L SAQ EL AL L + +NI Sbjct 1158 WYTDGSSFITEGKRRAGAPIVDGKRTVWASSLPEGTSAQKAELVALTQALRLAEGKNINI 1217 Query 507 YTDSAY---LAH-------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVR 556 YTDS Y AH LL + + E L+ L +I GH R Sbjct 1218 YTDSRYAFATAHIHGAIYKQRGLLTSAGKDIKNKEEILALLEAIHLPRRVAIIHCPGHQR 1277 Query 557 AHSGLPGPIAHGNQKADLATKTVA 580 + P+A GN++AD A K A Sbjct 1278 GSN----PVATGNRRADEAAKQAA 1297 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=p80; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p46 [Woolly monkey sarcoma virus] Sequence ID: P03359.2 Length: 1687 Range 1: 697 to 1298 Score:119 bits(299), Expect:8e-27, Method:Compositional matrix adjust., Identities:151/624(24%), Positives:256/624(41%), Gaps:89/624(14%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV V Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 697 PVAVRQYPMSKEAREGIRPHIQRFLDLGVLVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 756 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 +N + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 757 INKRVQ---DIHPTVPNPYNLLSSLPPSHTWYSVLDLKDAFFCLKLHPNSQPLFAF---- 809 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +++P + + W LPQ NSPTL + + + R Q+ ++ Y+DD+L+A Sbjct 810 -EWRDPEKGNTGQLTWTRLPQGFKNSPTLFDEALHRDLAPFRALNPQVVLLQYVDDLLVA 868 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 + + +L QEL+ G ++ +K QL Q TYLG+ L K + V+ Sbjct 869 APTYRDCKEGTQKLLQELSKLGYRVSAKKAQLCQKEVTYLGYLLKEGKRWLTPARKATVM 928 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSL----SKEAL 304 + T ++ LG + R ++ P F +L P + S+ ++E Sbjct 929 KIPPPTTPRQVREFLGTAGFCRLWI--------PGFASLAAPLYPLTKESIPFIWTEEHQ 980 Query 305 ALLDKV-ETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQ-----NNPIMWVHLPASP 358 D++ E ++ + + + P + A G+ Q P+ ++ P Sbjct 981 KAFDRIKEALLSAPALALPDLTKPFTLYVDERAGVARGVLTQTLGPWRRPVAYLSKKLDP 1040 Query 359 KKVLLPY-YDAIADLIILGRDHSKKYFGIEPSVI----IQPYSKSQIDWLMQNTEMWPIA 413 P A+A + +L +D K G +VI ++ + D M N M Sbjct 1041 VASGWPTCLKAVAAVALLLKDADKLTLGQNVTVIASHSLESIVRQPPDRWMTNARM---- 1096 Query 414 CASYVGILDNHY----PPNKL--------------IQFCK---LHAFIFPQIISKTPLNN 452 Y +L N PP L + C + + PL Sbjct 1097 -THYQSLLLNERVSFAPPAVLNPATLLPVESEATPVHRCSEILAEETGTRRDLKDQPLPG 1155 Query 453 ALLVFTDGSS-------TGMAAYTLADTTIKFQTNL---NSAQLVELQALIAVLSAFPNQ 502 +TDGSS AA T+ + ++L SAQ EL AL L + Sbjct 1156 VPAWYTDGSSFIAEGKRRAGAAIVDGKRTV-WASSLPEGTSAQKAELVALTQALRLAEGK 1214 Query 503 PLNIYTDSAYLAHSIPLLETVAQIKHISETAKLFLQCQQ----LIYNRSIPFYIG--HVR 556 +NIYTDS Y + + + + + + +A ++ ++ L+ +P + H Sbjct 1215 DINIYTDSRYAFATAHIHGAIYKQRGLLTSAGKDIKNKEEILALLEAIHLPKRVAIIHCP 1274 Query 557 AHSGLPGPIAHGNQKADLATKTVA 580 H P+A GN++AD A K A Sbjct 1275 GHQKGNDPVATGNRRADEAAKQAA 1298 >RecName: Full=Pol polyprotein; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Feline endogenous virus ECE1] Sequence ID: P31792.1 Length: 1046 Range 1: 33 to 636 Score:115 bits(289), Expect:1e-25, Method:Compositional matrix adjust., Identities:158/621(25%), Positives:253/621(40%), Gaps:81/621(13%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGK-WRLLQDLRA 82 PV + Q+P++ E Q + LE G + SPWNTP+ +KK + +R +QDLR Sbjct 33 PVSIRQYPMSKEAHMGIQPHITRFLELGVLRPCRSPWNTPLLPVKKPGTRDYRPVQDLRE 92 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF +PL P Q+ FAF Sbjct 93 VNKRTM---DIHPTVPNPYNLLSTLSPDRTWYTVLDLKDAFFCLPLAPQSQELFAF---- 145 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +++P + + W LPQ NSPTL + + + R ++ ++ Y+DD+L+A Sbjct 146 -EWRDPERGISGQLTWTRLPQGFKNSPTLFDEALHRDLTDFRTQHPEVTLLQYVDDLLLA 204 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 + ++ L +EL G + +K Q+ Q TYLG+ L+ K + V Sbjct 205 APTKEACIRGTKHLLRELGDKGYRASAKKAQICQTKVTYLGYILSEGKRWLTPGRIETVA 264 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLD 308 Q + ++ LG + R ++ PL+ L +S P + + + A L Sbjct 265 HIPPPQNPREVREFLGTAGFCRLWIPGFAELAAPLY-ALTKESAPFTWQEKHQSAFEALK 323 Query 309 KVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQ-----NNPIMWVHLPASPKKVLL 363 E ++ + + S P I G+ Q P+ ++ P Sbjct 324 --EALLSAPALGLPDTSKPFTLFIDEKQGIAKGVLTQKLGPWKRPVAYLSKKLDPVAAGW 381 Query 364 -PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMWPIACASYVG--- 419 P +A +L +D +K G +P +I P++ I + Q + W I A Sbjct 382 PPCLRIMAATAMLVKDSAKLTLG-QPLTVITPHALEAI--VRQTPDRW-ITNARLTHYQA 437 Query 420 -ILDNHY----PPNKLIQFCKL-------HAFIFPQIISKTPLNNALLV----------- 456 +LD PP L L A Q++++T L Sbjct 438 LLLDTDRIQFGPPVTLNPATLLPAPEDQQSAHDCRQVLAETHGTREDLKDQELPDADHSW 497 Query 457 FTDGSS-----TGMAAYTLADT-TIKFQTNL---NSAQLVELQALIAVLSAFPNQPLNIY 507 +TDGSS T A + D I + +L SAQ EL AL L + NIY Sbjct 498 YTDGSSYIDSGTRRAGAAVVDGHHIIWAQSLPPGTSAQKAELIALTKALELSEGKKANIY 557 Query 508 TDSAY---LAHSIPLLET-----VAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHS 559 TDS Y AH+ + ++ K I A++ + L R + I H H Sbjct 558 TDSRYAFATAHTHGSIYERRGLLTSEGKEIKNKAEIIALLKALFLPRKV--AIIHCPGHQ 615 Query 560 GLPGPIAHGNQKADLATKTVA 580 PIA GN++AD + VA Sbjct 616 KGQDPIATGNRQADQVARQVA 636 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Baboon endogenous virus strain M7] Sequence ID: P10272.2 Length: 1727 Range 1: 714 to 1317 Score:114 bits(284), Expect:6e-25, Method:Compositional matrix adjust., Identities:155/623(25%), Positives:256/623(41%), Gaps:85/623(13%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGK-WRLLQDLRA 82 PV + Q+P++ E +Q + + LE G + SPWNTP+ +KK + +R +QDLR Sbjct 714 PVSIKQYPMSLEAHMGIRQHIIKFLELGVLRPCRSPWNTPLLPVKKPGTQDYRPVQDLRE 773 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 +N V + P +P+P + P ++DLKD FF +PL P Q+ FAF Sbjct 774 INKRTV---DIHPTVPNPYNLLSTLKPDYSWYTVLDLKDAFFCLPLAPQSQELFAF---- 826 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +K+P + + W LPQ NSPTL + + + R ++ ++ Y+DD+L+A Sbjct 827 -EWKDPERGISGQLTWTRLPQGFKNSPTLFDEALHRDLTDFRTQHPEVTLLQYVDDLLLA 885 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 + Q L QEL G + +K Q+ Q TYLG+ L+ K + V Sbjct 886 APTKKACTQGTRHLLQELGEKGYRASAKKAQICQTKVTYLGYILSEGKRWLTPGRIETVA 945 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNP---NSHRSLSKEAL- 304 R + + ++ LG + R ++ PL+ L +S P + L+ EAL Sbjct 946 RIPPPRNPREVREFLGTAGFCRLWIPGFAELAAPLY-ALTKESTPFTWQTEHQLAFEALK 1004 Query 305 -ALLDKVETAI---AEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKK 360 ALL + ++ F ++ + + L P W+ P+ ++ P Sbjct 1005 KALLSAPALGLPDTSKPFTLFLDERQGIAKGVLTQKLGP----WK-RPVAYLSKKLDPVA 1059 Query 361 VLL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYSKSQIDWLMQNTEMW--------- 410 P +A +L +D +K G +P +I P++ I + Q + W Sbjct 1060 AGWPPCLRIMAATAMLVKDSAKLTLG-QPLTVITPHTLEAI--VRQPPDRWITNARLTHY 1116 Query 411 --------------PIAC--ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNAL 454 P+ A+ + + +N P+ Q + + + Sbjct 1117 QALLLDTDRVQFGPPVTLNPATLLPVPENQPSPHDCRQVLAETHGTREDLKDQELPDADH 1176 Query 455 LVFTDGSS-----TGMAAYTLAD--TTIKFQT--NLNSAQLVELQALIAVLSAFPNQPLN 505 +TDGSS T A + D TI Q+ SAQ EL AL L + N Sbjct 1177 TWYTDGSSYLDSGTRRAGAAVVDGHNTIWAQSLPPGTSAQKAELIALTKALELSKGKKAN 1236 Query 506 IYTDSAY---LAHSIPLLET-----VAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRA 557 IYTDS Y AH+ + ++ K I A++ + L + + I H Sbjct 1237 IYTDSRYAFATAHTHGSIYERRGLLTSEGKEIKNKAEIIALLKALFLPQEV--AIIHCPG 1294 Query 558 HSGLPGPIAHGNQKADLATKTVA 580 H P+A GN++AD + A Sbjct 1295 HQKGQDPVAVGNRQADRVARQAA 1317 >RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10; Short=NC-pol; Contains: RecName: Full=Protease p14; Short=PR; Contains: RecName: Full=Reverse transcriptase/ribonuclease H p80; Short=RT; Contains: RecName: Full=Integrase p46; Short=IN [Xenotropic MuLV-related virus VP35] Sequence ID: Q2F7J3.1 Length: 1733 Range 1: 715 to 1317 Score:112 bits(279), Expect:2e-24, Method:Compositional matrix adjust., Identities:149/623(24%), Positives:248/623(39%), Gaps:86/623(13%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 715 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 774 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 775 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAF---- 827 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +++P + W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 828 -EWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLA 886 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 Q + L Q L G + +K Q+ Q YLG+ L + ++ V+ Sbjct 887 ATSEQDCQRGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVM 946 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEAL 304 + +T ++ LG + R ++ PL+ K + P+ ++ + Sbjct 947 GQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQ 1006 Query 305 ALLDKVETAIAE---QFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKV 361 ALL + + F ++ + L P W+ P+ ++ P Sbjct 1007 ALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAA 1061 Query 362 LL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM------ 409 P +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1062 GWPPCLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQAM 1120 Query 410 ---------WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVF 457 P+ A+ + + + P + L + H P + + + + Sbjct 1121 LLDTDRVQFGPVVALNPATLLPLPEKEAPHDCLEILAETHG-TRPDLTDQPIPDADYTWY 1179 Query 458 TDGSSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYT 508 TDGSS A + +T + SAQ EL AL L + LN+YT Sbjct 1180 TDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKKLNVYT 1239 Query 509 DSAY---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRA 557 DS Y AH L +IK+ +E L L+ L SI GH + Sbjct 1240 DSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILAL-LKALFLPKRLSIIHCPGHQKG 1298 Query 558 HSGLPGPIAHGNQKADLATKTVA 580 +S A GN+ AD A + A Sbjct 1299 NSA----EARGNRMADQAAREAA 1317 >RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10; Short=NC-pol; Contains: RecName: Full=Protease p14; Short=PR; Contains: RecName: Full=Reverse transcriptase/ribonuclease H p80; Short=RT; Contains: RecName: Full=Integrase p46; Short=IN [Xenotropic MuLV-related virus VP62] Sequence ID: A1Z651.1 Length: 1733 Range 1: 715 to 1317 Score:111 bits(278), Expect:3e-24, Method:Compositional matrix adjust., Identities:151/628(24%), Positives:250/628(39%), Gaps:96/628(15%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 715 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 774 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 775 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAF---- 827 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +++P + W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 828 -EWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLA 886 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 Q + L Q L G + +K Q+ Q YLG+ L + ++ V+ Sbjct 887 ATSEQDCQRGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVM 946 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRS------ 298 + +T ++ LG + R ++ PL+ K + P+ ++ Sbjct 947 GQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQ 1006 Query 299 --LSKEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPA 356 L+ AL L D + + F ++ + L P W+ P+ ++ Sbjct 1007 ALLTAPALGLPD-----LTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKL 1056 Query 357 SPKKVLL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM- 409 P P +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1057 DPVAAGWPPCLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMT 1115 Query 410 --------------WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNN 452 P+ A+ + + + P + L + H P + + + Sbjct 1116 HYQAMLLDTDRVQFGPVVALNPATLLPLPEKEAPHDCLEILAETHG-TRPDLTDQPIPDA 1174 Query 453 ALLVFTDGSSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQP 503 +TDGSS A + +T + SAQ EL AL L + Sbjct 1175 DYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKK 1234 Query 504 LNIYTDSAY---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYI 552 LN+YTDS Y AH L +IK+ +E L L+ L SI Sbjct 1235 LNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILAL-LKALFLPKRLSIIHCP 1293 Query 553 GHVRAHSGLPGPIAHGNQKADLATKTVA 580 GH + +S A GN+ AD A + A Sbjct 1294 GHQKGNSA----EARGNRMADQAAREAA 1317 >RecName: Full=Gag-pol polyprotein; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Murine leukemia virus (strain BM5 ECO)] Sequence ID: Q7SVK7.2 Length: 1734 Range 1: 716 to 1318 Score:110 bits(276), Expect:6e-24, Method:Compositional matrix adjust., Identities:151/619(24%), Positives:243/619(39%), Gaps:78/619(12%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 716 PVSIQQYPMSHEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 775 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 776 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRD 832 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DDIL+A Sbjct 833 PGMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDILLAATSE 891 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ + Sbjct 892 LDCQQGTRALLQTLGDLGYRASAKKAQICQKQVKYLGYLLREGQRWLTEARKETVMGQPV 951 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 952 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFSWGPDQQKAYQEIKQALLT 1011 Query 309 KVETAIAE---QFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1012 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1066 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1067 CLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQAMLLDT 1125 Query 410 -----WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGS 461 P+ A+ + + + P + L + H P + + + +TDGS Sbjct 1126 DRVQFGPVVALNPATLLPLPEEGAPHDCLEILAETHG-TRPDLTDQPIPDADHTWYTDGS 1184 Query 462 STGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSAY 512 S A + +T + SAQ EL AL L + LN+YTDS Y Sbjct 1185 SFLQEGQRKAGAAVTTETEVIWAGALPAGTSAQRAELIALTQALKMAEGKRLNVYTDSRY 1244 Query 513 ---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSGL 561 AH L +IK+ SE L L+ L SI +GH + S Sbjct 1245 AFATAHIHGEIYRRRGLLTSEGREIKNKSEILAL-LKALFLPKRLSIIHCLGHQKGDSA- 1302 Query 562 PGPIAHGNQKADLATKTVA 580 A GN+ AD A + A Sbjct 1303 ---EARGNRLADQAAREAA 1318 >RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10; Short=NC-pol; Contains: RecName: Full=Protease p14; Short=PR; Contains: RecName: Full=Reverse transcriptase/ribonuclease H p80; Short=RT; Contains: RecName: Full=Integrase p46; Short=IN [Xenotropic MuLV-related virus VP42] Sequence ID: Q2F7J0.1 Length: 1733 Range 1: 715 to 1317 Score:110 bits(276), Expect:6e-24, Method:Compositional matrix adjust., Identities:150/628(24%), Positives:249/628(39%), Gaps:96/628(15%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 715 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 774 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 775 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAF---- 827 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +++P + W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 828 -EWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLA 886 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 Q + L Q L G + +K Q+ Q YLG+ L + ++ V+ Sbjct 887 ATSEQDCQRGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVM 946 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRS------ 298 + +T ++ LG + R ++ PL+ K + P+ ++ Sbjct 947 GQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQ 1006 Query 299 --LSKEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPA 356 L+ AL L D + + F ++ + L P W+ P+ ++ Sbjct 1007 ALLTAPALGLPD-----LTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKL 1056 Query 357 SPKKVLL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM- 409 P P +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1057 DPVAAGWPPCLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMT 1115 Query 410 --------------WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNN 452 P+ A+ + + + P + L + H P + + + Sbjct 1116 HYQAMLLDTDRVQFGPVVALNPATLLPLPEKEAPHDCLEILAETHG-TRPDLTDQPIPDA 1174 Query 453 ALLVFTDGSSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQP 503 +TDG S A + +T + SAQ EL AL L + Sbjct 1175 DYTWYTDGGSFLQEGQRRAGAAVTTETEVIWGGVLPAGTSAQRAELIALTQALKMAEGKK 1234 Query 504 LNIYTDSAY---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYI 552 LN+YTDS Y AH L +IK+ +E L L+ L SI Sbjct 1235 LNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILAL-LKALFLPKRLSIIHCP 1293 Query 553 GHVRAHSGLPGPIAHGNQKADLATKTVA 580 GH + +S A GN+ AD A + A Sbjct 1294 GHQKGNSA----EARGNRMADQAAREAA 1317 >RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Short=PR; AltName: Full=p14; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; AltName: Full=p80; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p46 [Moloney murine leukemia virus isolate Shinnick] Sequence ID: P03355.5 Length: 1738 Range 1: 717 to 1319 Score:110 bits(274), Expect:9e-24, Method:Compositional matrix adjust., Identities:153/620(25%), Positives:244/620(39%), Gaps:80/620(12%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 717 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 776 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 777 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRD 833 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 834 PEMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSE 892 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ + Sbjct 893 LDCQQGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPT 952 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 953 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQALLT 1012 Query 309 KVETA---IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1013 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1067 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1068 CLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQALLLDT 1126 Query 410 -----WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLV-FTDG 460 P+ A+ + + + N L + H P + + PL +A +TDG Sbjct 1127 DRVQFGPVVALNPATLLPLPEEGLQHNCLDILAEAHG-TRPDLTDQ-PLPDADHTWYTDG 1184 Query 461 SSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSA 511 SS A + +T + SAQ EL AL L + LN+YTDS Sbjct 1185 SSLLQEGQRKAGAAVTTETEVIWAKALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSR 1244 Query 512 Y---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSG 560 Y AH L +IK+ E L L+ L SI GH + HS Sbjct 1245 YAFATAHIHGEIYRRRGLLTSEGKEIKNKDEILAL-LKALFLPKRLSIIHCPGHQKGHSA 1303 Query 561 LPGPIAHGNQKADLATKTVA 580 A GN+ AD A + A Sbjct 1304 ----EARGNRMADQAARKAA 1319 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p10; Short=MA; Contains: RecName: Full=p20; Contains: RecName: Full=Capsid protein p25; Short=CA; Contains: RecName: Full=Nucleocapsid protein p14; Short=NC-pol; Contains: RecName: Full=Protease p15; Short=PR; Contains: RecName: Full=Reverse transcriptase/ribonuclease H p90; Short=RT; Contains: RecName: Full=Integrase p46; Short=IN [Walleye dermal sarcoma virus] Sequence ID: O92815.2 Length: 1752 Range 1: 772 to 1036 Score:109 bits(272), Expect:2e-23, Method:Compositional matrix adjust., Identities:85/276(31%), Positives:134/276(48%), Gaps:22/276(7%) Query 27 VDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKS-GKWRLLQDLRAVNA 85 + Q+PL +K + L+ G + + +SP NTPIF IKK ++R++ DLRA+N Sbjct 772 IRQYPLPKDKTEGLRPLISSLENQGILIKCHSPCNTPIFPIKKAGRDEYRMIHDLRAINN 831 Query 86 TMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNF 140 + + A+ + SP + P + +IDL + FFS+P+H Q FAF+ Sbjct 832 IVAPLTAV---VASPTTVLSNLAPSLHWFTVIDLSNAFFSVPIHKDSQYLFAFTFEG--- 885 Query 141 KEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQV 200 ++ W VLPQ +SPTL + + ++HK++ I YMDD+LIA KD Sbjct 886 ----HQYTWTVLPQGFIHSPTLFSQALYQSLHKIKFKISSEICI-YMDDVLIASKDRDTN 940 Query 201 LQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFEL--NGPKITNQKAVIRKDKLQ--T 255 L+ + Q L G ++ +K+QL Q YLG L G KI + V Q T Sbjct 941 LKDTAVMLQHLASEGHKVSKKKLQLCQQEVVYLGQLLTPEGRKILPDRKVTVSQFQQPTT 1000 Query 256 LNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS 291 + + LG + + R ++ + K L LK D+ Sbjct 1001 IRQIRAFLGLVGYCRHWIPEFSIHSKFLEKQLKKDT 1036 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [AKR (endogenous) murine leukemia virus] Sequence ID: P03356.3 Length: 1734 Range 1: 716 to 1318 Score:109 bits(272), Expect:2e-23, Method:Compositional matrix adjust., Identities:151/619(24%), Positives:242/619(39%), Gaps:78/619(12%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 716 PVSIKQYPMSQEAKLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 775 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 776 VNKRVE---DIHPTVPNPYNLLSGLPPSHRWYTVLDLKDAFFCLRLHPTSQPLFAFEWRD 832 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DDIL+A Sbjct 833 PGMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDILLAATSE 891 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L L G + +K QL Q YLG+ L + ++ V+ + Sbjct 892 LDCQQGTRALLLTLGNLGYRASAKKAQLCQKQVKYLGYLLKEGQRWLTEARKETVMGQPT 951 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 952 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQALLT 1011 Query 309 KVETAIAE---QFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1012 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1066 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1067 CLRMVAAIAVLRKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQAMLLDT 1125 Query 410 -----WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNNALLVFTDGS 461 P+ A+ + + + P + L + H P + + + +TDGS Sbjct 1126 DRVQFGPVVALNPATLLPLPEEGAPHDCLEILAETHG-TRPDLTDQPIPDADHTWYTDGS 1184 Query 462 STGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSAY 512 S A + +T + SAQ EL AL L + LN+YTDS Y Sbjct 1185 SFLQEGQRKAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKRLNVYTDSRY 1244 Query 513 ---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSGL 561 AH L +IK+ SE L L+ L SI +GH + S Sbjct 1245 AFATAHIHGEIYRRRGLLTSEGREIKNKSEILAL-LKALFLPKRLSIIHCLGHQKGDSA- 1302 Query 562 PGPIAHGNQKADLATKTVA 580 A GN+ AD A + A Sbjct 1303 ---EARGNRLADQAAREAA 1318 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Friend murine leukemia virus (ISOLATE PVC-211)] Sequence ID: P26808.2 Length: 1738 Range 1: 717 to 1321 Score:108 bits(270), Expect:3e-23, Method:Compositional matrix adjust., Identities:146/619(24%), Positives:240/619(38%), Gaps:74/619(11%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 717 PVSIKQYPMSREARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 776 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 777 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQSLFAFEWRD 833 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 834 PEMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSE 892 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ + Sbjct 893 LDCQQGTRALLQTLGDLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPT 952 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 953 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFKWGPDQQKAYQEIKQALLT 1012 Query 309 KVETA---IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1013 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1067 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1068 CLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQALLLDT 1126 Query 410 -----WPIACASYVGILDNHYPPNKLIQFC---KLHAFIFPQIISKTPLNNALLV-FTDG 460 PI + +L P L C A ++ PL +A +TDG Sbjct 1127 DRVQFGPIVTLNPATLLP--LPEEGLQHDCLDILAEAHGTRPDLTDQPLPDADHTWYTDG 1184 Query 461 SSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSA 511 SS A + +T + SAQ EL AL L + LN+YTDS Sbjct 1185 SSFLQEGQRKAGAAVTTETEVIWAKALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSR 1244 Query 512 YLAHSIPLLETV--------AQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSGLPG 563 Y + + + ++ K I ++ + L + + I H H Sbjct 1245 YAFATAHIHGEIYRRRGLLTSEGKEIKNKEEILALLKALFLPKRL--SIIHCPGHQKGNR 1302 Query 564 PIAHGNQKADLATKTVASN 582 A GN+ AD A + VA+ Sbjct 1303 AEARGNRMADQAAREVATR 1321 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Friend murine leukemia virus (ISOLATE FB29)] Sequence ID: P26809.2 Length: 1738 Range 1: 717 to 1321 Score:108 bits(269), Expect:4e-23, Method:Compositional matrix adjust., Identities:146/619(24%), Positives:240/619(38%), Gaps:74/619(11%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 717 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 776 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 777 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQSLFAFEWRD 833 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 834 PEMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSE 892 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ + Sbjct 893 LDCQQGTRALLQTLGDLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPT 952 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 953 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFEWGPDQQKAYQEIKQALLT 1012 Query 309 KVETAIAE---QFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1013 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1067 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1068 CLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQALLLDT 1126 Query 410 -----WPIACASYVGILDNHYPPNKLIQFC---KLHAFIFPQIISKTPLNNALLV-FTDG 460 PI + +L P L C A ++ PL +A +TDG Sbjct 1127 DRVQFGPIVALNPATLLP--LPEEGLQHDCLDILAEAHGTRPDLTDQPLPDADHTWYTDG 1184 Query 461 SSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSA 511 SS A + +T + SAQ EL AL L + LN+YTDS Sbjct 1185 SSFLQEGQRKAGAAVTTETEVVWAKALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSR 1244 Query 512 YLAHSIPLLETV--------AQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSGLPG 563 Y + + + ++ K I ++ + L + + I H H Sbjct 1245 YAFATAHIHGEIYRRRGLLTSEGKEIKNKDEILALLKALFLPKRL--SIIHCPGHQKGNR 1302 Query 564 PIAHGNQKADLATKTVASN 582 A GN+ AD A + VA+ Sbjct 1303 AEARGNRMADQAAREVATR 1321 >RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Cas-Br-E murine leukemia virus] Sequence ID: P08361.2 Length: 1733 Range 1: 715 to 1319 Score:107 bits(268), Expect:6e-23, Method:Compositional matrix adjust., Identities:153/622(25%), Positives:242/622(38%), Gaps:80/622(12%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 715 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 774 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 775 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRD 831 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 832 PEMGISGQ-LTWTRLPQGFKNSPTLFDEALHRDLAGFRIQHPDLILLQYVDDLLLAATSE 890 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVIRKDK 252 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ + Sbjct 891 LDCQQGTRALLQTLGDLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPI 950 Query 253 LQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEALALLD 308 +T ++ LG + R ++ PL+ K + P+ ++ + ALL Sbjct 951 PKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAFQEIKQALLT 1010 Query 309 KVETA---IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKVLL-P 364 + + F ++ + L P W+ P+ ++ P P Sbjct 1011 APALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAAGWPP 1065 Query 365 YYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM---------- 409 +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1066 CLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQALLLDT 1124 Query 410 -----WPIACASYVGILDNHYPPNKLIQFC---KLHAFIFPQIISKTPLNNALLV-FTDG 460 P+ + +L P L C A + PL +A +TDG Sbjct 1125 DRVQFGPVVALNPATLLP--LPEEGLQHDCLDILAEAHGTRSDLMDQPLPDADHTWYTDG 1182 Query 461 SSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIYTDSA 511 SS A + +T + SAQ EL AL L + LN+YTDS Sbjct 1183 SSFLQEGQRKAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSR 1242 Query 512 Y---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHSG 560 Y AH L +IK+ E L L+ L SI GH + +S Sbjct 1243 YAFATAHIHGEIYRRRGLLTSEGKEIKNKDEILAL-LKALFLPKRLSIIHCPGHQKGNSA 1301 Query 561 LPGPIAHGNQKADLATKTVASN 582 A GN+ AD A + VA+ Sbjct 1302 ----EARGNRMADQAAREVATR 1319 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Friend murine leukemia virus (ISOLATE 57)] Sequence ID: P26810.2 Length: 1739 Range 1: 718 to 1322 Score:107 bits(267), Expect:8e-23, Method:Compositional matrix adjust., Identities:147/623(24%), Positives:243/623(39%), Gaps:82/623(13%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 718 PVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLRE 777 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LHP+ Q FAF Sbjct 778 VNKRVE---DIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQSLFAF---- 830 Query 138 TNFKEPMQ----RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 +K+P + W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 831 -EWKDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLA 889 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 Q L Q L G + +K Q+ Q YLG+ L + ++ V+ Sbjct 890 ATSELDCQQGTRALLQTLGDLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVM 949 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRSLSKEAL 304 + +T ++ LG R ++ PL+ K + P+ ++ + Sbjct 950 GQPTPKTPRQLREFLGTAGLCRLWIPGFAEMAAPLYPLTKTGTLFKWGPDQQKAYQEIKQ 1009 Query 305 ALLDKVETA---IAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPASPKKV 361 ALL + + F ++ + L P W+ P+ ++ P Sbjct 1010 ALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKLDPVAA 1064 Query 362 LL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM------ 409 P +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1065 GWPPCLRMVAAIAVLTKDVGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMTHYQAL 1123 Query 410 ---------WPIACASYVGILDNHYPPNKLIQFC---KLHAFIFPQIISKTPLNNALLV- 456 PI + +L P L C A ++ PL +A Sbjct 1124 LLDTDRVQFGPIVALNPATLLP--LPEEGLQHDCLDILAEAHGTRPDLTDQPLPDADHTW 1181 Query 457 FTDGSSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQPLNIY 507 +TDGSS A + +T + SAQ EL AL L + LN+Y Sbjct 1182 YTDGSSFLQEGQRRAGAAVTTETEVIWAKALPAGTSAQRAELIALTQALKMAAGKKLNVY 1241 Query 508 TDSAYLAHSIPLLETV--------AQIKHISETAKLFLQCQQLIYNRSIPFYIGHVRAHS 559 TDS Y + + + ++ K I ++ + L + + I H H Sbjct 1242 TDSRYAFATAHIHGEIYRRRGLLTSEGKEIKNKDEILALLKALFLPKRL--SIIHCPGHQ 1299 Query 560 GLPGPIAHGNQKADLATKTVASN 582 A GN+ AD A + VA+ Sbjct 1300 KGNHAEARGNRMADQAAREVATR 1322 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Short=MA; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Short=CA; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Radiation murine leukemia virus] Sequence ID: P11227.2 Length: 1734 Range 1: 716 to 1318 Score:104 bits(259), Expect:7e-22, Method:Compositional matrix adjust., Identities:149/628(24%), Positives:248/628(39%), Gaps:96/628(15%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK-KSGKWRLLQDLRA 82 PV + Q+P++ E + +Q L+ G + SPWNTP+ +KK + +R +Q LR Sbjct 716 PVSIKQYPMSQEAKLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQGLRE 775 Query 83 VNATMVLMGALQPGLPSPVAIPQG-----YLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + G ++DLKD FF + LHP+ Q FA Sbjct 776 VNKRVE---DIHPTVPNPYNLLSGLPTSHRWYTVLDLKDAFFCLRLHPTSQPLFA----- 827 Query 138 TNFKEP----MQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIA 193 + +++P + W LPQ NSPTL + + + R + ++ Y+DD+L+A Sbjct 828 SEWRDPGMGISGQLTWTRLPQGFKNSPTLFDEALHRGLADFRIQHPDLILLQYVDDLLLA 887 Query 194 GKDGQQVLQCFDQLKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKI----TNQKAVI 248 Q L + L G + +K Q+ Q YLG+ L + ++ V+ Sbjct 888 ATSELDCQQGTRALLKTLGNLGYRASAKKAQICQKQVKYLGYLLREGQRWLTEARKETVM 947 Query 249 RKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKGDS----NPNSHRS------ 298 + +T ++ LG + R ++ PL+ K + P+ ++ Sbjct 948 GQPTPKTPRQLREFLGTAGFCRLWIPRFAEMAAPLYPLTKTGTLFNWGPDQQKAYHEIKQ 1007 Query 299 --LSKEALALLDKVETAIAEQFVTHINYSLPLMFLIFNTALTPTGLFWQNNPIMWVHLPA 356 L+ AL L D + + F ++ + L P W+ P+ ++ Sbjct 1008 ALLTAPALGLPD-----LTKPFELFVDEKQGYAKGVLTQKLGP----WR-RPVAYLSKKL 1057 Query 357 SPKKVLL-PYYDAIADLIILGRDHSKKYFGIEPSVIIQPYS-----KSQIDWLMQNTEM- 409 P P +A + +L +D K G +P VI+ P++ K D + N M Sbjct 1058 DPVAAGWPPCLRMVAAIAVLTKDAGKLTMG-QPLVILAPHAVEALVKQPPDRWLSNARMT 1116 Query 410 --------------WPIAC---ASYVGILDNHYPPNKLIQFCKLHAFIFPQIISKTPLNN 452 P+ A+ + + + P + L + H P + + + Sbjct 1117 HYQAMLLDTDRVQFGPVVALNPATLLPLPEEGAPHDCLEILAETHG-TEPDLTDQPIPDA 1175 Query 453 ALLVFTDGSSTGMAAYTLADTTIKFQTNL---------NSAQLVELQALIAVLSAFPNQP 503 +TDGSS A + +T + SAQ EL AL L + Sbjct 1176 DHTWYTDGSSFLQEGQRKAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKR 1235 Query 504 LNIYTDSAY---LAH--------SIPLLETVAQIKHISETAKLFLQCQQLIYNRSIPFYI 552 LN+YTDS Y AH L +IK+ SE L L+ L SI + Sbjct 1236 LNVYTDSRYAFATAHIHGEIYKRRGLLTSEGREIKNKSEILAL-LKALFLPKRLSIIHCL 1294 Query 553 GHVRAHSGLPGPIAHGNQKADLATKTVA 580 GH + S A GN+ AD A + A Sbjct 1295 GHQKGDSA----EARGNRLADQAAREAA 1318 >RecName: Full=Gag-Pol polyprotein; Contains: RecName: Full=Matrix protein p15; Contains: RecName: Full=RNA-binding phosphoprotein p12; AltName: Full=pp12; Contains: RecName: Full=Capsid protein p30; Contains: RecName: Full=Nucleocapsid protein p10-Pol; Short=NC-pol; Contains: RecName: Full=Protease; Contains: RecName: Full=Reverse transcriptase/ribonuclease H; Short=RT; Contains: RecName: Full=Integrase; Short=IN [Feline leukemia virus] Sequence ID: P10273.2 Length: 1712 Range 1: 684 to 900 Score:94.0 bits(232), Expect:1e-18, Method:Compositional matrix adjust., Identities:66/222(30%), Positives:106/222(47%), Gaps:13/222(5%) Query 24 PVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGK-WRLLQDLRA 82 P+ + Q+P+ E + ++ L+ G + SPWNTP+ +KK + +R +QDLR Sbjct 684 PISIRQYPMPHEAYQGIKPHIRRMLDQGILKPCQSPWNTPLLPVKKPGTEDYRPVQDLRE 743 Query 83 VNATMVLMGALQPGLPSPVAI-----PQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPS 137 VN + + P +P+P + P ++DLKD FF + LH Q FAF Sbjct 744 VNKRVE---DIHPTVPNPYNLLSTLPPSHPWYTVLDLKDAFFCLRLHSESQLLFAFEWRD 800 Query 138 TNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDG 197 Q W LPQ NSPTL + + + + R + + ++ Y+DD+L+A Sbjct 801 PEIGLSGQ-LTWTRLPQGFKNSPTLFDEALHSDLADFRVRYPALVLLQYVDDLLLAAATR 859 Query 198 QQVLQCFDQLKQELTIAGLHIAPEKIQ--LQDPYTYLGFELN 237 + L+ L + L G + +K Q LQ+ TYLG+ L Sbjct 860 TECLEGTKALLETLGNKGYRASAKKAQICLQE-VTYLGYSLK 900 >RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87Pro-RT-RNaseH; Contains: RecName: Full=Protease/Reverse transcriptase; AltName: Full=p65Pro-RT; Contains: RecName: Full=Ribonuclease H; Short=RNase H; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42In [Macaque simian foamy virus] Sequence ID: P23074.3 Length: 1149 Range 1: 167 to 422 Score:88.6 bits(218), Expect:6e-17, Method:Compositional matrix adjust., Identities:73/272(27%), Positives:136/272(50%), Gaps:24/272(8%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMV 88 Q+P+ + + Q ++ + L+ G + + NS NTP++ + K GKWR++ D R VN T+ Sbjct 167 QYPINPKAKPSIQIVIDDLLKQGVLIQQNSTMNTPVYPVPKPDGKWRMVLDYREVNKTIP 226 Query 89 LMGALQ---PGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 L+ A G+ S +I +G K +DL + F++ P+ P AF+ + Sbjct 227 LIAAQNQHSAGILS--SIYRGKYKTTLDLTNGFWAHPITPESYWLTAFTWQG-------K 277 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFD 205 ++ W LPQ NSP L V + ++ + + Y+DDI I+ D Q+ L+ + Sbjct 278 QYCWTRLPQGFLNSPALFTADVVDLLKEIPN------VQAYVDDIYISHDDPQEHLEQLE 331 Query 206 QLKQELTIAGLHIAPEKIQL-QDPYTYLGF----ELNGPKITNQKAVIRKDKLQTLNDFQ 260 ++ L AG ++ +K ++ Q +LGF E G T ++ ++ + L Q Sbjct 332 KIFSILLNAGYVVSLKKSEIAQREVEFLGFNITKEGRGLTDTFKQKLLNITPPKDLKQLQ 391 Query 261 KLLGDINWLRPYLKLTTADLKPLFDTLKGDSN 292 +LG +N+ R ++ + +KPL+ T+ ++N Sbjct 392 SILGLLNFARNFIPNYSELVKPLY-TIVANAN 422 >RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87Pro-RT-RNaseH; Contains: RecName: Full=Protease/Reverse transcriptase; AltName: Full=p65Pro-RT; Contains: RecName: Full=Ribonuclease H; Short=RNase H; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42In [Simian foamy virus (TYPE 3 / STRAIN LK3)] Sequence ID: P27401.2 Length: 1143 Range 1: 167 to 418 Score:87.8 bits(216), Expect:9e-17, Method:Compositional matrix adjust., Identities:73/267(27%), Positives:134/267(50%), Gaps:23/267(8%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMV 88 Q+P+ + A+ Q ++ + L+ G + + NS NTP++ + K GKWR++ D R VN T+ Sbjct 167 QYPINPKAKASIQTVINDLLKQGVLIQQNSIMNTPVYPVPKPDGKWRMVLDYREVNKTIP 226 Query 89 LMGALQ---PGLPSPVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 L+ A G+ S +I +G K +DL + F++ + P AF+ Q Sbjct 227 LIAAQNQHSAGILS--SIFRGKYKTTLDLSNGFWAHSITPESYWLTAFTWLG-------Q 277 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFD 205 ++ W LPQ NSP L V + +V + Q+Y+ DDI I+ D ++ L+ + Sbjct 278 QYCWTRLPQGFLNSPALFTADVVDLLKEVPNV--QVYV----DDIYISHDDPREHLEQLE 331 Query 206 QLKQELTIAGLHIAPEKIQL-QDPYTYLGF----ELNGPKITNQKAVIRKDKLQTLNDFQ 260 ++ L AG ++ +K ++ Q +LGF E G T ++ ++ + L Q Sbjct 332 KVFSLLLNAGYVVSLKKSEIAQHEVEFLGFNITKEGRGLTETFKQKLLNITPPRDLKQLQ 391 Query 261 KLLGDINWLRPYLKLTTADLKPLFDTL 287 +LG +N+ R ++ + +KPL++ + Sbjct 392 SILGLLNFARNFIPNFSELVKPLYNII 418 >RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87Pro-RT-RNaseH; Contains: RecName: Full=Protease/Reverse transcriptase; AltName: Full=p65Pro-RT; Contains: RecName: Full=Ribonuclease H; Short=RNase H; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42In [Human spumaretrovirus] Sequence ID: P14350.2 Length: 1143 Range 1: 167 to 465 Score:82.4 bits(202), Expect:5e-15, Method:Compositional matrix adjust., Identities:82/313(26%), Positives:150/313(47%), Gaps:30/313(9%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMV 88 Q+P+ + + Q ++ + L+ G +T NS NTP++ + K G+WR++ D R VN T+ Sbjct 167 QYPINPKAKPSIQIVIDDLLKQGVLTPQNSTMNTPVYPVPKPDGRWRMVLDYREVNKTIP 226 Query 89 LMGALQPGLPSPVA--IPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQR 146 L A +A + Q Y K +DL + F++ P+ P AF+ ++ Sbjct 227 LTAAQNQHSAGILATIVRQKY-KTTLDLANGFWAHPITPESYWLTAFTWQG-------KQ 278 Query 147 FQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQ 206 + W LPQ NSP L V + ++ + Q+Y+ DDI ++ D ++ +Q ++ Sbjct 279 YCWTRLPQGFLNSPALFTADVVDLLKEIPNV--QVYV----DDIYLSHDDPKEHVQQLEK 332 Query 207 LKQELTIAGLHIAPEKIQL-QDPYTYLGF----ELNGPKITNQKAVIRKDKLQTLNDFQK 261 + Q L AG ++ +K ++ Q +LGF E G T + ++ + L Q Sbjct 333 VFQILLQAGYVVSLKKSEIGQKTVEFLGFNITKEGRGLTDTFKTKLLNITPPKDLKQLQS 392 Query 262 LLGDINWLRPYLKLTTADLKPLFDTL---KGD----SNPNSHR-SLSKEALALLDKVETA 313 +LG +N+ R ++ ++PL++ + KG S N+ + ++ EAL +E Sbjct 393 ILGLLNFARNFIPNFAELVQPLYNLIASAKGKYIEWSEENTKQLNMVIEALNTASNLEER 452 Query 314 IAEQ-FVTHINYS 325 + EQ V +N S Sbjct 453 LPEQRLVIKVNTS 465 >RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87Pro-RT-RNaseH; Contains: RecName: Full=Protease/Reverse transcriptase; AltName: Full=p65Pro-RT; Contains: RecName: Full=Ribonuclease H; Short=RNase H; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42In [Feline foamy virus] Sequence ID: O93209.1 Length: 1156 Range 1: 176 to 412 Score:80.5 bits(197), Expect:2e-14, Method:Compositional matrix adjust., Identities:70/255(27%), Positives:122/255(47%), Gaps:29/255(11%) Query 41 QQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMVLMGAL-QPGLPS 99 Q ++ + L+ G + + S NTP++ + K +G+WR++ D RAVN L+ Q Sbjct 176 QIVINDLLKQGVLIQKESTMNTPVYPVPKPNGRWRMVLDYRAVNKVTPLIAVQNQHSYGI 235 Query 100 PVAIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANS 159 ++ +G K IDL + F++ P+ P D AF+ +++ W VLPQ NS Sbjct 236 LGSLFKGRYKTTIDLSNGFWAHPIVPEDYWITAFTWQG-------KQYCWTVLPQGFLNS 288 Query 160 PTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIA 219 P L V + + + + Y+DD+ I+ ++ L+ D L L AG I+ Sbjct 289 PGLFTGDVVDLLQGIPN------VEVYVDDVYISHDSEKEHLEYLDILFNRLKEAGYIIS 342 Query 220 PEKIQLQDPYT-YLGFELNGPKITNQKAVIR---KDKLQ------TLNDFQKLLGDINWL 269 +K + + +LGF+ ITN+ + K+KL+ TL Q +LG +N+ Sbjct 343 LKKSNIANSIVDFLGFQ-----ITNEGRGLTDTFKEKLENITAPTTLKQLQSILGLLNFA 397 Query 270 RPYLKLTTADLKPLF 284 R ++ T + PL+ Sbjct 398 RNFIPDFTELIAPLY 412 >RecName: Full=Pro-Pol polyprotein; AltName: Full=Pr125Pol; Contains: RecName: Full=Protease/Reverse transcriptase/ribonuclease H; AltName: Full=p87Pro-RT-RNaseH; Contains: RecName: Full=Protease/Reverse transcriptase; AltName: Full=p65Pro-RT; Contains: RecName: Full=Ribonuclease H; Short=RNase H; Contains: RecName: Full=Integrase; Short=IN; AltName: Full=p42In [Pan troglodytes foamy virus] Sequence ID: Q87040.1 Length: 1146 Range 1: 167 to 486 Score:77.4 bits(189), Expect:2e-13, Method:Compositional matrix adjust., Identities:79/338(23%), Positives:158/338(46%), Gaps:31/338(9%) Query 29 QWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKKSGKWRLLQDLRAVNATMV 88 Q+P+ + + Q ++ + L+ G +T NS NTP++ + K G+WR++ D R VN T+ Sbjct 167 QYPINPKAKPSIQIVIDDLLKQGVLTPQNSTMNTPVYPVPKPDGRWRMVLDYREVNKTIP 226 Query 89 LMGALQPGLPSPVA--IPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQR 146 L A +A + Q Y K +DL + F++ P+ P AF+ ++ Sbjct 227 LTAAQNQHSAGILATIVRQKY-KTTLDLANGFWAHPITPDSYWLTAFTWQG-------KQ 278 Query 147 FQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQ 206 + W LPQ NSP L + A A+ ++ + Y+DDI ++ + + +Q ++ Sbjct 279 YCWTRLPQGFLNSPAL---FTADAVDLLKEV---PNVQVYVDDIYLSHDNPHEHIQQLEK 332 Query 207 LKQELTIAGLHIAPEKIQL-QDPYTYLGF----ELNGPKITNQKAVIRKDKLQTLNDFQK 261 + Q L AG ++ +K ++ Q +LGF E G T + ++ + L Q Sbjct 333 VFQILLQAGYVVSLKKSEIGQRTVEFLGFNITKEGRGLTDTFKTKLLNVTPPKDLKQLQS 392 Query 262 LLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAEQFVTH 321 +LG +N+ R ++ ++ L++ + S+ + +++ L+KV A+ ++ Sbjct 393 ILGLLNFARNFIPNFAELVQTLYNLIA--SSKGKYIEWTEDNTKQLNKVIEAL--NTASN 448 Query 322 INYSLPLMFLIFNTALTPTGLFWQ------NNPIMWVH 353 + LP L+ +P+ + + PIM+++ Sbjct 449 LEERLPDQRLVIKVNTSPSAGYVRYYNESGKKPIMYLN 486 >RecName: Full=Retrovirus-related Pol polyprotein from transposon opus; Includes: RecName: Full=Protease; Includes: RecName: Full=Reverse transcriptase; Includes: RecName: Full=Endonuclease [Drosophila melanogaster] Sequence ID: Q8I7P9.1 Length: 1003 Range 1: 116 to 388 Score:69.3 bits(168), Expect:5e-11, Method:Compositional matrix adjust., Identities:60/284(21%), Positives:125/284(44%), Gaps:22/284(7%) Query 17 ITWKSDEPVWVDQWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKK-----S 71 I + +P++ +P ++ + E L+ G I SNSP+N+PI+++ KK Sbjct 116 IRTNTQDPIYAKSYPYPVNMRGEVERQIDELLQDGIIRPSNSPYNSPIWIVPKKPKPNGE 175 Query 72 GKWRLLQDLRAVNATMVLMGALQPGLPSPVA-IPQGYLKIIIDLKDCFFSIPLHPSDQKR 130 ++R++ D + +N + P + + +A + +DL F I + SD Sbjct 176 KQYRMVVDFKRLNTVTIPDTYPIPDINATLASLGNAKYFTTLDLTSGFHQIHMKESD--- 232 Query 131 FAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDI 190 +P T F ++++ LP + N+P + Q+ + + + H K Y+ Y+DDI Sbjct 233 ----IPKTAFSTLNGKYEFLRLPFGLKNAPAIFQRMIDDILRE--HIGKVCYV--YIDDI 284 Query 191 LIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQLQDP-YTYLGFELNGPKITNQ----K 245 ++ +D + + L+ A L + EK D +LG+ + I + Sbjct 285 IVFSEDYDTHWKNLRLVLASLSKANLQVNLEKSHFLDTQVEFLGYIVTADGIKADPKKVR 344 Query 246 AVIRKDKLQTLNDFQKLLGDINWLRPYLKLTTADLKPLFDTLKG 289 A+ ++ + ++ LG ++ R +++ KPL + +G Sbjct 345 AISEMPPPTSVKELKRFLGMTSYYRKFIQDYAKVAKPLTNLTRG 388 >RecName: Full=Putative enzymatic polyprotein; Includes: RecName: Full=Protease; Short=PR; Includes: RecName: Full=Reverse transcriptase; Short=RT; Includes: RecName: Full=Ribonuclease H [Cassava vein mosaic virus] Sequence ID: Q89703.1 Length: 652 Range 1: 223 to 470 Score:64.7 bits(156), Expect:1e-09, Method:Compositional matrix adjust., Identities:64/261(25%), Positives:118/261(45%), Gaps:29/261(11%) Query 44 VQEQLEAGHITE----SNSPWNTPIFVIKK----KSGKWRLLQDLRAVNATMVLMGALQP 95 ++E ++ G I E + +++P F++ K K GK R++ D + +N ++ P Sbjct 223 IEEMIKEGFIEEKTNFEDKKYSSPAFIVNKHSEQKRGKTRMVIDYKDLNKKAKVVKYPIP 282 Query 96 GLPSPV--AIPQGYLKIIIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQRFQWKVLP 153 + + +I Y D K F+ I L +K AF++P +QWKVLP Sbjct 283 NKDTLIHRSIQARYYSKF-DCKSGFYHIKLEEDSKKYTAFTVPQG-------YYQWKVLP 334 Query 154 QRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLKQELTI 213 NSP++ Q+++ +II Y+DDIL+ K ++ + + Sbjct 335 FGYHNSPSIFQQFMDRIFRPYYD-----FIIVYIDDILVFSKTIEEHKIHIAKFRDITLA 389 Query 214 AGLHIAPEKIQL-QDPYTYLGFELNGPKITNQKAVIRK-----DKLQTLNDFQKLLGDIN 267 GL I+ +K +L ++ +LG ++ I Q +I K K++ + Q +LG +N Sbjct 390 NGLIISKKKTELCKEKIDFLGVQIEQGGIELQPHIINKILEKHTKIKNKTELQSILGLLN 449 Query 268 WLRPYLKLTTADLKPLFDTLK 288 +R ++ L P+ LK Sbjct 450 QIRHFIPHLAQILLPIQKKLK 470 >RecName: Full=Enzymatic polyprotein; Includes: RecName: Full=Aspartic protease; Includes: RecName: Full=Endonuclease; Includes: RecName: Full=Reverse transcriptase [Cestrum yellow leaf curling virus] Sequence ID: Q7TD08.1 Length: 643 Range 1: 209 to 466 Score:60.1 bits(144), Expect:4e-08, Method:Compositional matrix adjust., Identities:64/274(23%), Positives:123/274(44%), Gaps:36/274(13%) Query 31 PLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKK----KSGKWRLLQDLRAVNAT 86 P + + Q + + G I ES SP + P F ++ K K R++ + +A+N Sbjct 209 PYSLRDINEFSQECADLVRKGIIEESKSPHSAPAFYVENHNEIKRKKRRMVINYKALNKA 268 Query 87 MVLMGALQPGLPSPVAIPQGYLKI-IIDLKDCFFSIPLHPSDQKRFAFSLPSTNFKEPMQ 145 + P + S + +G +D K ++ + LHP + AFS P P + Sbjct 269 TIGNAHKLPRIDSILTKVKGSNWFSTLDAKSGYWQLRLHPQSKPLTAFSCP------PQK 322 Query 146 RFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQ-----V 200 +QW VLP + +P + Q ++ + + + + + Y+DDIL+ ++ + Sbjct 323 HYQWNVLPFGLKQAPGIYQNFMDKNLEGLEN-----FCLAYIDDILVFTNSSREEHLSKL 377 Query 201 LQCFDQLKQELTIAGLHIAPEK-IQLQDPYTYLGFEL--NGPKITNQKAVIRK-----DK 252 L ++ K++ GL ++ +K I + +LG L NG +I Q V+ K D Sbjct 378 LVVLERCKEK----GLILSKKKAIIARQTIDFLGLTLQENG-EIKLQPNVLEKLELFPDA 432 Query 253 LQTLNDFQKLLGDINWL--RPYLKLTTADLKPLF 284 ++ Q+ LG +N++ + +LK + K L+ Sbjct 433 IEDRKQLQRFLGCLNYIADKGFLKEIAKETKNLY 466 >RecName: Full=Polyprotein P3; AltName: Full=P194 protein; Contains: RecName: Full=Putative movement protein; Short=MP; Contains: RecName: Full=Capsid protein; AltName: Full=Coat protein; Short=CP; Contains: RecName: Full=Protease; Short=PR; Contains: RecName: Full=Reverse transcriptase/Ribonuclease H; Short=RT; AltName: Full=p55; Flags: Precursor [Rice tungro bacilliform virus (isolate Philippines)] Sequence ID: P27502.1 Length: 1675 Range 1: 1306 to 1472 Score:59.3 bits(142), Expect:8e-08, Method:Compositional matrix adjust., Identities:46/177(26%), Positives:84/177(47%), Gaps:17/177(9%) Query 147 FQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQ 206 + W V P +AN+P Q+++ + ++ A + Y+DDILIA + ++ ++ Sbjct 1306 YTWNVCPFGIANAPCAFQRFMQESFGDLKFA------LLYIDDILIASNNEKEHIEHLKI 1359 Query 207 LKQELTIAGLHIAPEKIQL-QDPYTYLGFELNGPKITNQKAVI------RKDKLQTLNDF 259 + G ++ +K ++ YLG E+ KI+ Q ++ K+KL TL Sbjct 1360 FFNRVKEVGCVLSKKKSKMFLKEVEYLGVEIKEGKISLQPHIVDKIKKFDKNKLNTLKGL 1419 Query 260 QKLLGDINWLRPYLKLTTADLKPLFDTLKGDSNPNSHRSLSKEALALLDKVETAIAE 316 Q LG +N+ R Y+K DL L L + N R +KE ++ K+E +++ Sbjct 1420 QAYLGLLNYARGYIK----DLSKLVGPLYKKTGKNGQRIFNKEDWNIIFKIEREVSK 1472 >RecName: Full=Retrovirus-related Pol polyprotein from transposon 17.6; Includes: RecName: Full=Protease; Includes: RecName: Full=Reverse transcriptase; Includes: RecName: Full=Endonuclease [Drosophila melanogaster] Sequence ID: P04323.1 Length: 1058 Range 1: 196 to 412 Score:57.0 bits(136), Expect:4e-07, Method:Compositional matrix adjust., Identities:57/230(25%), Positives:104/230(45%), Gaps:21/230(9%) Query 12 QCAEPITWKSDEPVWVD-QWPLTSEKLAAAQQLVQEQLEAGHITESNSPWNTPIFVIKKK 70 Q I K + P++ +P E+ +Q +Q+ L G I SNSP+N+PI+V+ KK Sbjct 196 QTKHTINTKHNLPLYSKYSYPQAYEQEVESQ--IQDMLNQGIIRTSNSPYNSPIWVVPKK 253 Query 71 ---SG--KWRLLQDLRAVNATMVLMGALQPGLPSPVA-IPQGYLKIIIDLKDCFFSIPLH 124 SG K+R++ D R +N V P + + + + IDL F I + Sbjct 254 QDASGKQKFRIVIDYRKLNEITVGDRHPIPNMDEILGKLGRCNYFTTIDLAKGFHQIEMD 313 Query 125 PSDQKRFAFSLPSTNFKEPMQRFQWKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYII 184 P + AFS + +++ +P + N+P Q+ ++ + + + Sbjct 314 PESVSKTAFSTKHGH-------YEYLRMPFGLKNAPATFQR----CMNDILRPLLNKHCL 362 Query 185 HYMDDILIAGKDGQQVLQCFDQLKQELTIAGLHIAPEKIQ-LQDPYTYLG 233 Y+DDI++ + LQ + ++L A L + +K + L+ T+LG Sbjct 363 VYLDDIIVFSTSLDEHLQSLGLVFEKLAKANLKLQLDKCEFLKQETTFLG 412 >RecName: Full=Protein P; Includes: RecName: Full=DNA-directed DNA polymerase; Includes: RecName: Full=RNA-directed DNA polymerase; Includes: RecName: Full=Ribonuclease H [Hepatitis B virus Woolly monkey/Louisville] Sequence ID: O71304.1 Length: 835 Range 1: 502 to 652 Score:44.7 bits(104), Expect:0.002, Method:Compositional matrix adjust., Identities:32/151(21%), Positives:66/151(43%), Gaps:11/151(7%) Query 149 WKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLK 208 ++ +P + SP L ++ + VR A+ YMDD+++ K Q + + Sbjct 502 FRKVPMGLGLSPFLLAQFTSAICSVVRRAFPHCMAFSYMDDVVLGAKSVQHLESLLASVT 561 Query 209 QELTIAGLHIAPEKI-QLQDPYTYLGFELNGPKITNQKAVIRKDKL--QTL--------N 257 L G+H+ PEK + ++G+ + G Q+ + K L Q L Sbjct 562 TFLLALGIHLNPEKTKRWGKALNFMGYVIGGYGSLPQQHIRDKIALCFQKLPCNRPIDWK 621 Query 258 DFQKLLGDINWLRPYLKLTTADLKPLFDTLK 288 Q+++G + ++ P+ + A L P++ ++ Sbjct 622 VCQRIVGLLGFVAPFTQCGYAALMPIYTCIQ 652 >RecName: Full=Protein P; Includes: RecName: Full=DNA-directed DNA polymerase; Includes: RecName: Full=RNA-directed DNA polymerase; Includes: RecName: Full=Ribonuclease H [Hepatitis B virus adw/Indonesia/PIDW420] Sequence ID: P17393.1 Length: 843 Range 1: 512 to 662 Score:40.8 bits(94), Expect:0.039, Method:Compositional matrix adjust., Identities:29/152(19%), Positives:64/152(42%), Gaps:13/152(8%) Query 149 WKVLPQRMANSPTLCQKYVATAIHKVRHAWKQMYIIHYMDDILIAGKDGQQVLQCFDQLK 208 ++ +P + SP L ++ + VR A+ YMDD+++ K Q + + + Sbjct 512 FRKIPMGVGLSPFLLAQFTSAICSVVRRAFPHCLAFSYMDDVVLGAKSVQHLESLYAAVT 571 Query 209 QELTIAGLHIAPEKIQLQD-PYTYLGFELNGPKITNQKAVIRKDKLQTLNDF-------- 259 L G+H+ P+K + ++G+ + Q+ ++ K K Q Sbjct 572 NFLLSLGIHLNPQKTKRWGYSLNFMGYVIGSWGTLPQEHIVLKIK-QCFRKLPVNRPIDW 630 Query 260 ---QKLLGDINWLRPYLKLTTADLKPLFDTLK 288 Q+++G + + P+ + L PL+ ++ Sbjct 631 KVCQRIVGLLGFAAPFTQCGYPALMPLYACIQ 662