RID: 0C55ARU3013 Job Title:Protein Sequence Program: BLASTP Query: unnamed protein product ID: lcl|Query_5200448(amino acid) Length: 244 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=Pol polyprotein; Contains: RecName: Full=Proteas... Caprine arth... NA 11661 507 507 100% 6e-174 100.00 1109 P33459.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Ovine lentiv... NA 11664 345 345 98% 3e-112 66.11 1086 P16901.1 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11744 344 344 98% 8e-110 65.98 1506 P23427.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11743 344 344 98% 8e-110 65.98 1506 P23426.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna/maedi ... NA 36374 344 344 98% 1e-109 65.98 1506 P35956.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Visna lentiv... NA 11742 344 344 98% 1e-109 65.98 1506 P03370.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Bovine immun... NA 417296 152 152 99% 2e-42 37.80 1475 P19560.2 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11670 144 144 97% 1e-39 35.27 1146 P11204.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 31675 144 144 97% 1e-39 35.27 1146 P32542.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Equine infec... NA 11672 143 143 97% 4e-39 35.27 1145 P03371.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr170Gag-Pol;... Jembrana dis... NA 36370 137 137 100% 5e-37 35.63 1432 Q82851.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11674 123 123 97% 4e-32 31.38 1124 P16088.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 11675 122 122 97% 5e-32 33.05 1124 P19028.1 RecName: Full=Pol polyprotein; Contains: RecName: Full=Proteas... Feline immun... NA 31676 120 120 87% 2e-31 33.80 1124 P31822.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11732 111 111 97% 4e-28 30.96 1441 P22382.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11714 109 109 97% 2e-27 29.63 1550 P18096.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11733 107 107 97% 9e-27 30.17 1448 P05896.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11713 107 107 97% 1e-26 29.63 1462 P17757.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11734 107 107 97% 1e-26 30.17 1448 P05897.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 31684 106 106 91% 3e-26 32.75 1472 Q02836.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11716 104 104 97% 1e-25 28.33 1465 P15833.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11717 103 103 97% 3e-25 29.22 1464 P18042.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11727 102 102 97% 4e-25 32.64 1470 P27973.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_UC1 NA 388822 102 102 97% 6e-25 27.92 1471 Q76634.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11721 102 102 97% 7e-25 29.75 1463 P20876.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-2 B_EHO NA 388821 102 102 97% 7e-25 28.03 1464 Q89928.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11738 101 101 97% 1e-24 28.03 1449 P19505.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11720 101 101 97% 1e-24 29.34 1464 P04584.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11731 101 101 97% 2e-24 31.40 1467 P05895.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11718 100 100 97% 2e-24 29.05 1462 P12451.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11737 100 100 97% 2e-24 28.03 1449 P12502.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11715 100 100 91% 4e-24 30.70 1462 P24107.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 73484 99.8 99.8 97% 6e-24 28.51 1463 Q74120.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11719 98.2 98.2 91% 2e-23 29.46 1461 P05962.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz TAN1 NA 388910 98.2 98.2 86% 2e-23 29.63 1462 Q8AII1.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_ANT70 NA 327105 95.5 95.5 86% 1e-22 30.33 1435 Q77373.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 O_MVP5180 NA 388816 95.1 95.1 86% 2e-22 29.86 1446 Q79666.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11699 94.7 94.7 86% 3e-22 31.48 1434 P20892.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11701 93.6 93.6 86% 6e-22 31.02 1436 P05959.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_AR... NA 11685 93.6 93.6 86% 7e-22 31.02 1437 P03369.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_96... NA 388906 93.2 93.2 86% 8e-22 31.63 1430 Q9QBY3.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_MN NA 11696 93.2 93.2 86% 8e-22 31.13 1441 P05961.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz MB66 NA 388911 93.2 93.2 86% 8e-22 30.23 1438 Q1A267.4 RecName: Full=Gag-Pro-Pol polyprotein; AltName: Full=Pr180;... Mason-Pfizer... NA 11855 93.2 93.2 71% 9e-22 33.16 1771 P07572.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_89.6 NA 401671 92.8 92.8 96% 1e-21 29.96 1435 Q73368.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11686 92.8 92.8 86% 1e-21 30.56 1447 P03367.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 362651 92.0 92.0 86% 2e-21 31.13 1435 P35963.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11682 92.0 92.0 86% 2e-21 31.46 1447 P04587.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 82834 92.0 92.0 86% 2e-21 30.88 1435 P0C6F2.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11688 92.0 92.0 86% 2e-21 30.56 1439 P20875.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11678 92.0 92.0 86% 2e-21 30.88 1447 P03366.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Simian immun... NA 11730 92.0 92.0 86% 2e-21 31.34 1465 P27980.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11698 92.0 92.0 86% 3e-21 30.66 1435 P12497.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:B_HXB2R NA 11706 92.0 92.0 86% 3e-21 30.88 1435 P04585.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_ET... NA 388796 91.7 91.7 86% 3e-21 29.17 1439 Q75002.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_9... NA 388814 91.7 91.7 86% 3e-21 28.24 1430 O89290.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 11942 91.3 91.3 71% 4e-21 32.62 1772 P04025.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388823 90.9 90.9 86% 5e-21 30.56 1434 Q9QBZ1.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF106 NA 388819 90.5 90.5 86% 8e-21 29.95 1449 Q9IDV9.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11683 90.1 90.1 86% 1e-20 30.09 1436 P12499.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388904 90.1 90.1 86% 1e-20 29.63 1432 Q9WC63.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F2_M... NA 388815 89.7 89.7 86% 1e-20 29.63 1430 Q9QBZ5.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11697 89.7 89.7 86% 1e-20 30.66 1440 P04588.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz GAB1 NA 402771 89.7 89.7 86% 1e-20 30.23 1384 P17283.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11703 89.7 89.7 96% 2e-20 28.63 1428 P24740.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Squirrel mon... NA 11856 89.4 89.4 54% 2e-20 39.57 1880 P03364.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11695 89.4 89.4 86% 2e-20 28.70 1432 P18802.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_90... NA 388826 89.0 89.0 86% 3e-20 28.84 1435 O93215.4 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:C_92... NA 388812 89.0 89.0 86% 3e-20 30.09 1431 O12158.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:K_97... NA 388907 89.0 89.0 86% 3e-20 30.56 1429 Q9QBZ9.2 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_92... NA 388825 88.2 88.2 86% 4e-20 28.24 1435 O41798.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:J_SE... NA 388905 87.8 87.8 86% 7e-20 29.17 1432 Q9WC54.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 N_YBF30 NA 388818 87.4 87.4 86% 7e-20 29.38 1449 O91080.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... SIVcpz EK505 NA 388912 87.0 87.0 86% 1e-19 28.24 1448 Q1A249.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:G_SE... NA 388824 86.7 86.7 86% 1e-19 29.72 1433 O89940.3 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:H_VI991 NA 388888 86.7 86.7 86% 1e-19 28.24 1436 Q9Q720.3 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Mouse intrac... NA 11753 86.3 86.3 62% 2e-19 33.74 867 P11368.1 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Mouse intrac... NA 11754 86.3 86.3 53% 2e-19 37.68 814 P12894.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... Human immuno... NA 11689 86.3 86.3 86% 2e-19 28.24 1435 P04589.3 RecName: Full=Intracisternal A-particle Pol-related polyprotei... Golden hamst... NA 11752 85.1 85.1 67% 4e-19 32.57 863 P04026.1 RecName: Full=Gag-Pol polyprotein; AltName: Full=Pr160Gag-Pol;... HIV-1 M:F1_V... NA 388813 84.7 84.7 86% 7e-19 29.11 1430 Q9QSR3.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Simian retro... NA 39068 84.7 84.7 70% 8e-19 31.89 1768 P51517.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 406769 82.0 82.0 61% 5e-18 32.72 1440 Q4U0X6.4 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-1 isola... NA 402046 79.3 79.3 61% 4e-17 33.95 1462 P0C211.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 11926 79.0 79.0 55% 6e-17 36.55 1462 P03362.3 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... HTLV-3 strai... NA 402036 78.2 78.2 61% 1e-16 31.48 1440 Q0R5R2.3 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-cell... NA 11927 78.2 78.2 61% 1e-16 33.33 1462 P14078.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Mouse mammar... NA 11759 78.2 78.2 61% 1e-16 32.92 1755 P11283.2 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Mouse mammar... NA 11758 78.2 78.2 61% 1e-16 32.92 1755 P03365.3 RecName: Full=Gag-Pro-Pol polyprotein; Contains: RecName:... Jaagsiekte s... NA 11746 73.2 73.2 46% 6e-15 38.02 1726 P31623.2 RecName: Full=Gag-Pro-Pol polyprotein; AltName:... Human T-lymp... NA 11909 71.6 71.6 61% 2e-14 34.57 1461 P03363.4 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 11888 71.6 71.6 53% 2e-14 32.85 1603 P03354.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Rous sarcoma... NA 269447 70.5 70.5 53% 5e-14 32.12 1603 O92956.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 363745 70.5 70.5 53% 6e-14 32.12 1603 Q04095.2 RecName: Full=Gag-Pol polyprotein; Contains: RecName:... Avian leukos... NA 11864 70.1 70.1 53% 6e-14 32.12 1603 Q7SQ98.2 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 356664 67.0 67.0 50% 8e-13 35.38 1733 Q2F7J0.1 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 373193 67.0 67.0 50% 8e-13 35.38 1733 A1Z651.1 RecName: Full=Gag-Pol polyprotein; Short=Pr180gag-pol; Contain... Xenotropic M... NA 356663 66.6 66.6 50% 9e-13 35.38 1733 Q2F7J3.1 Alignments: >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: 866 to 1109 Score:507 bits(1305), Expect:6e-174, Method:Compositional matrix adjust., Identities:244/244(100%), Positives:244/244(100%), Gaps:0/244(0%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG Sbjct 866 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 925 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA Sbjct 926 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 985 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK Sbjct 986 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 1045 Query 181 NSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPPT 240 NSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPPT Sbjct 1046 NSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPPT 1105 Query 241 KEKE 244 KEKE Sbjct 1106 KEKE 1109 >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: 842 to 1080 Score:345 bits(885), Expect:3e-112, Method:Compositional matrix adjust., Identities:158/239(66%), Positives:191/239(79%), Gaps:0/239(0%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V QCE+C+E + P+ IRG N+RG++HWQVDYTHYE+ I+LVWVETNSGLIYAE+VKGE+G Sbjct 842 VQQCEVCQENKMPSTIRGSNRRGIDHWQVDYTHYEDKIILVWVETNSGLIYAERVKGETG 901 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFRI + WY LF P+SLQSDNGPAF AEPTQLLM+YLG+ HTTGIPWNPQSQA+VER Sbjct 902 QEFRIMTIRWYGLFAPKSLQSDNGPAFVAEPTQLLMKYLGITHTTGIPWNPQSQALVERT 961 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQ LK+T++KF F + +SAIAAAL+ +NIKRKGGLGTSPMDIFI+NKEQ+RI + + Sbjct 962 HQTLKNTIEKFVSMFASFDSAIAAALITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSTR 1021 Query 181 NSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPP 239 N K +FCYYR+RKRGH + +G+ IV+KD EKYLVI KD KFIP P Sbjct 1022 NQSKFRFCYYRVRKRGHPGEWLGPTQVLWEGEGAIVIKDKNLEKYLVIAKKDVKFIPQP 1080 >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: 1262 to 1500 Score:344 bits(883), Expect:8e-110, Method:Compositional matrix adjust., Identities:159/241(66%), Positives:194/241(80%), Gaps:4/241(1%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V QC++C+E + P+ +RG NKRG++HWQVDYTHYE+ I+LVWVETNSGLIYAE+VKGE+G Sbjct 1262 VQQCDVCQENKMPSTLRGSNKRGIDHWQVDYTHYEDKIILVWVETNSGLIYAERVKGETG 1321 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFR++ M WYA+F P+SLQSDNGPAF AE TQLLM+YLG++HTTGIPWNPQSQA+VER Sbjct 1322 QEFRVQTMKWYAMFAPKSLQSDNGPAFVAESTQLLMKYLGIEHTTGIPWNPQSQALVERT 1381 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQ LK+TL+K P F A ESA+A L+ +NIKRKGGLGTSPMDIFI+NKEQ+RI + Sbjct 1382 HQTLKNTLEKLIPMFNAFESALAGTLITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSKS 1441 Query 181 NSQKIQFCYYRIRKRGH--QESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 +KI+FCYYR RKRGH + G Q + G G IVVKD +++YLVI KD KFIPP Sbjct 1442 KQEKIRFCYYRTRKRGHPGEWQGPTQVLWGGDG--AIVVKDRGTDRYLVIANKDVKFIPP 1499 Query 239 P 239 P Sbjct 1500 P 1500 >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: 1262 to 1500 Score:344 bits(883), Expect:8e-110, Method:Compositional matrix adjust., Identities:159/241(66%), Positives:194/241(80%), Gaps:4/241(1%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V QC++C+E + P+ +RG NKRG++HWQVDYTHYE+ I+LVWVETNSGLIYAE+VKGE+G Sbjct 1262 VQQCDVCQENKMPSTLRGSNKRGIDHWQVDYTHYEDKIILVWVETNSGLIYAERVKGETG 1321 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFR++ M WYA+F P+SLQSDNGPAF AE TQLLM+YLG++HTTGIPWNPQSQA+VER Sbjct 1322 QEFRVQTMKWYAMFAPKSLQSDNGPAFVAESTQLLMKYLGIEHTTGIPWNPQSQALVERT 1381 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQ LK+TL+K P F A ESA+A L+ +NIKRKGGLGTSPMDIFI+NKEQ+RI + Sbjct 1382 HQTLKNTLEKLIPMFNAFESALAGTLITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSKS 1441 Query 181 NSQKIQFCYYRIRKRGH--QESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 +KI+FCYYR RKRGH + G Q + G G IVVKD +++YLVI KD KFIPP Sbjct 1442 KQEKIRFCYYRTRKRGHPGEWQGPTQVLWGGDG--AIVVKDRGTDRYLVIANKDVKFIPP 1499 Query 239 P 239 P Sbjct 1500 P 1500 >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: 1262 to 1500 Score:344 bits(882), Expect:1e-109, Method:Compositional matrix adjust., Identities:159/241(66%), Positives:194/241(80%), Gaps:4/241(1%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V QC++C+E + P+ +RG NKRG++HWQVDYTHYE+ I+LVWVETNSGLIYAE+VKGE+G Sbjct 1262 VQQCDVCQENKMPSTLRGSNKRGIDHWQVDYTHYEDKIILVWVETNSGLIYAERVKGETG 1321 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFR++ M WYA+F P+SLQSDNGPAF AE TQLLM+YLG++HTTGIPWNPQSQA+VER Sbjct 1322 QEFRVQTMKWYAMFAPKSLQSDNGPAFVAESTQLLMKYLGIEHTTGIPWNPQSQALVERT 1381 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQ LK+TL+K P F A ESA+A L+ +NIKRKGGLGTSPMDIFI+NKEQ+RI + Sbjct 1382 HQTLKNTLEKLIPMFNAFESALAGTLITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSKS 1441 Query 181 NSQKIQFCYYRIRKRGH--QESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 +KI+FCYYR RKRGH + G Q + G G IVVKD +++YLVI KD KFIPP Sbjct 1442 KQEKIRFCYYRTRKRGHPGEWQGPTQVLWGGDG--AIVVKDRGTDRYLVIANKDVKFIPP 1499 Query 239 P 239 P Sbjct 1500 P 1500 >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: 1262 to 1500 Score:344 bits(882), Expect:1e-109, Method:Compositional matrix adjust., Identities:159/241(66%), Positives:194/241(80%), Gaps:4/241(1%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V QC++C+E + P+ +RG NKRG++HWQVDYTHYE+ I+LVWVETNSGLIYAE+VKGE+G Sbjct 1262 VQQCDVCQENKMPSTLRGSNKRGIDHWQVDYTHYEDKIILVWVETNSGLIYAERVKGETG 1321 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 QEFR++ M WYA+F P+SLQSDNGPAF AE TQLLM+YLG++HTTGIPWNPQSQA+VER Sbjct 1322 QEFRVQTMKWYAMFAPKSLQSDNGPAFVAESTQLLMKYLGIEHTTGIPWNPQSQALVERT 1381 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 HQ LK+TL+K P F A ESA+A L+ +NIKRKGGLGTSPMDIFI+NKEQ+RI + Sbjct 1382 HQTLKNTLEKLIPMFNAFESALAGTLITLNIKRKGGLGTSPMDIFIFNKEQQRIQQQSKS 1441 Query 181 NSQKIQFCYYRIRKRGH--QESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 +KI+FCYYR RKRGH + G Q + G G IVVKD +++YLVI KD KFIPP Sbjct 1442 KQEKIRFCYYRTRKRGHPGEWQGPTQVLWGGDG--AIVVKDRGTDRYLVIANKDVKFIPP 1499 Query 239 P 239 P Sbjct 1500 P 1500 >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: 1233 to 1469 Score:152 bits(385), Expect:2e-42, Method:Compositional matrix adjust., Identities:93/246(38%), Positives:141/246(57%), Gaps:13/246(5%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V +C+ CK T V RG N RG WQ+D TH+ I+ V VETNSGL+ A+ + E+ Sbjct 1233 VARCQECKRTTTSPV-RGTNPRGRFLWQMDNTHWNKTIIWVAVETNSGLVEAQVIPEETA 1291 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 + + ++ + L SDNGP F A + L +YLG+ TTGIP+NPQSQ +VERA Sbjct 1292 LQVALCILQLIQRYTVLHLHSDNGPCFTAHRIENLCKYLGITKTTGIPYNPQSQGVVERA 1351 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFI---YNKEQKRINNK 177 H+ LK L +Q VE+A++ ALV++N KR G G +P +I++ + K Q ++ + Sbjct 1352 HRDLKDRLAAYQGDCETVEAALSLALVSLNKKRGGIGGHTPYEIYLESEHTKYQDQLEQQ 1411 Query 178 YNKNSQKIQ-FCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 ++K QKI+ +CY R R++ + G + + G G I E K + P++ +FI Sbjct 1412 FSK--QKIEKWCYVRNRRK--EWKGPYKVLWDGDGAAVIE----EEGKTALYPHRHMRFI 1463 Query 237 PPPTKE 242 PPP + Sbjct 1464 PPPDSD 1469 >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: 914 to 1145 Score:144 bits(364), Expect:1e-39, Method:Compositional matrix adjust., Identities:85/241(35%), Positives:135/241(56%), Gaps:13/241(5%) Query 3 QCEIC-KEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQ 61 +C C K+ PA G R NHWQ D TH +N I+L +VE+NSG I+A + E+ Sbjct 914 ECPHCTKQGSGPA---GCVMRSPNHWQADCTHLDNKIILTFVESNSGYIHATLLSKENAL 970 Query 62 EFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 + ++ W LF P+SL +DNG F AEP L+++L + HTTGIP++P+SQ IVERA+ Sbjct 971 CTSLAILEWARLFSPKSLHTDNGTNFVAEPVVNLLKFLKIAHTTGIPYHPESQGIVERAN 1030 Query 122 QLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQ---KRINNKY 178 + LK ++ + +E+A+ AL+ N R+ G +P ++FI N+ Q +++ + Sbjct 1031 RTLKEKIQSHRDNTQTLEAALQLALITCNKGRESMGGQTPWEVFITNQAQVIHEKLLLQQ 1090 Query 179 NKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 ++S+K FC+Y+I + K R KG +VV D E + + +P K + Sbjct 1091 AQSSKK--FCFYKIPG---EHDWKGPTRVLWKGDGAVVVND-EGKGIIAVPLTRTKLLIK 1144 Query 239 P 239 P Sbjct 1145 P 1145 >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: 914 to 1145 Score:144 bits(364), Expect:1e-39, Method:Compositional matrix adjust., Identities:85/241(35%), Positives:135/241(56%), Gaps:13/241(5%) Query 3 QCEIC-KEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQ 61 +C C K+ PA G R NHWQ D TH +N I+L +VE+NSG I+A + E+ Sbjct 914 ECPHCTKQGSGPA---GCVMRSPNHWQADCTHLDNKIILTFVESNSGYIHATLLSKENAL 970 Query 62 EFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 + ++ W LF P+SL +DNG F AEP L+++L + HTTGIP++P+SQ IVERA+ Sbjct 971 CTSLAILEWARLFSPKSLHTDNGTNFVAEPVVNLLKFLKIAHTTGIPYHPESQGIVERAN 1030 Query 122 QLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQ---KRINNKY 178 + LK ++ + +E+A+ AL+ N R+ G +P ++FI N+ Q +++ + Sbjct 1031 RTLKEKIQSHRDNTQTLEAALQLALITCNKGRESMGGQTPWEVFITNQAQVIHEKLLLQQ 1090 Query 179 NKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 ++S+K FC+Y+I + K R KG +VV D E + + +P K + Sbjct 1091 AQSSKK--FCFYKIPG---EHDWKGPTRVLWKGDGAVVVND-EGKGIIAVPLTRTKLLIK 1144 Query 239 P 239 P Sbjct 1145 P 1145 >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: 913 to 1144 Score:143 bits(361), Expect:4e-39, Method:Compositional matrix adjust., Identities:85/241(35%), Positives:135/241(56%), Gaps:13/241(5%) Query 3 QCEIC-KEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQ 61 +C C K+ PA G R NHWQ D TH +N I+L +VE+NSG I+A + E+ Sbjct 913 ECPHCTKQGSGPA---GCVMRSPNHWQADCTHLDNKIILHFVESNSGYIHATLLSKENAL 969 Query 62 EFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 + ++ W LF P+SL +DNG F AEP L+++L + HTTGIP++P+SQ IVERA+ Sbjct 970 CTSLAILEWARLFSPKSLHTDNGTNFVAEPVVNLLKFLKIAHTTGIPYHPESQGIVERAN 1029 Query 122 QLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQ---KRINNKY 178 + LK ++ + +E+A+ AL+ N R+ G +P ++FI N+ Q +++ + Sbjct 1030 RTLKEKIQSHRDNTQTLEAALQLALITCNKGRESMGGQTPWEVFITNQAQVIHEKLLLQQ 1089 Query 179 NKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPP 238 ++S+K FC+Y+I + K R KG +VV D E + + +P K + Sbjct 1090 AQSSKK--FCFYKIPG---EHDWKGPTRVLWKGDGAVVVND-EGKGIIAVPLTRTKLLIK 1143 Query 239 P 239 P Sbjct 1144 P 1144 >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: 1191 to 1428 Score:137 bits(344), Expect:5e-37, Method:Compositional matrix adjust., Identities:88/247(36%), Positives:135/247(54%), Gaps:12/247(4%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V++C+ CK RG N R WQ+D TH E I+ V VETNSGLI A + ES Sbjct 1191 VHRCQACKRT-VSCPRRGTNPRERFLWQMDNTHLEGKIIWVAVETNSGLIEARVIPEESA 1249 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 Q ++ + + SDNGP F A+ + L +YL + TTGIP+NPQ+QAIVER Sbjct 1250 QSIVFCILMLVYRYTVYHIHSDNGPCFIAQKVEALCKYLKITKTTGIPYNPQAQAIVERT 1309 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFI---YNKEQKRINNK 177 H+ +K + F+ VE+A++ LVA+N KR G G +P +I++ YNK Q++ N+ Sbjct 1310 HRDIKDKIAAFREDCETVEAALSLTLVALNKKRGGIGGHTPYEIYLESEYNKYQEQQNHY 1369 Query 178 YNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIP 237 N ++K + Y R +++ K + G+ VV+ E+ + P++ +FIP Sbjct 1370 NNFKTEK--WAYVRDKRK----VWKGPYKVLWDGEGAAVVE--ENAMPTLYPHRHMRFIP 1421 Query 238 PPTKEKE 244 PP + + Sbjct 1422 PPNTDTQ 1428 >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: 884 to 1116 Score:123 bits(308), Expect:4e-32, Method:Compositional matrix adjust., Identities:75/239(31%), Positives:132/239(55%), Gaps:8/239(3%) Query 3 QCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQE 62 +C +C+ + G K G WQ+D TH++ I+LV + SG I+A+ + E+ Sbjct 884 KCPVCR--IIGEQVGGQLKIGPGIWQMDCTHFDGKIILVGIHVESGYIWAQIISQETADC 941 Query 63 FRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQ 122 V+ + LQ+DNGP F + + ++ Y+GVKH GIP NPQSQA+VE + Sbjct 942 TVKAVLQLLSAHNVTELQTDNGPNFKNQKMEGVLNYMGVKHKFGIPGNPQSQALVENVNH 1001 Query 123 LLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNKNS 182 LK ++KF P+ ++++A++ A+ ++N KR+G +G + +E RI + ++ Sbjct 1002 TLKVWIQKFLPETTSLDNALSLAVHSLNFKRRGRIGGMAPYELLAQQESLRIQDYFSAIP 1061 Query 183 QKI--QFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPP 239 QK+ Q+ YY+ +K + G + Y G+G +++KD E + Y +IP + + +P P Sbjct 1062 QKLQAQWIYYKDQK-DKKWKGPMRVEYWGQGS--VLLKD-EEKGYFLIPRRHIRRVPEP 1116 >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: 884 to 1116 Score:122 bits(307), Expect:5e-32, Method:Compositional matrix adjust., Identities:79/239(33%), Positives:132/239(55%), Gaps:8/239(3%) Query 3 QCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQE 62 +C +C+ R V G K G WQ+D TH++ I+LV + SG I+A+ + E+ Sbjct 884 KCPVCR-IRGEQV-GGQLKIGPGIWQMDCTHFDGKIILVAIHVESGYIWAQIISQETADC 941 Query 63 FRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQ 122 V+ + LQ+DNGP F + + ++ Y+GVKH GIP NPQSQA+VE +Q Sbjct 942 TVKAVLQLLSAHIVTELQTDNGPNFKNQKMEGVLNYMGVKHKFGIPGNPQSQALVENVNQ 1001 Query 123 LLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNKNS 182 LK + KF P+ ++++A+A A+ +N K++G +G + +E RI + ++ Sbjct 1002 TLKVWVHKFLPETTSLDNALALAVHCLNFKQRGRIGGMAPYELLAQQESLRIQDYFSAIP 1061 Query 183 QKI--QFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPP 239 QK+ Q+ YY+ +K + G + Y G+G +++KD E + Y +IP + K +P P Sbjct 1062 QKLQAQWIYYKDQK-DKKWKGPMRVEYWGQGS--VLLKD-EEKGYFLIPRRHVKRVPEP 1116 >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: 906 to 1116 Score:120 bits(302), Expect:2e-31, Method:Compositional matrix adjust., Identities:73/216(34%), Positives:125/216(57%), Gaps:8/216(3%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH+ I++V V SG ++A+ + E+ ++ LQ+DNGP Sbjct 906 WQMDCTHFNGKIIIVAVHVESGFLWAQIIPQETADCTVKALLQLICAHNVTELQTDNGPN 965 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + L+ Y+G+KH GIP NPQSQA+VE A+ LK ++KF P+ ++++A+A AL Sbjct 966 FKNQKMEGLLNYMGIKHKLGIPGNPQSQALVENANNTLKVWIQKFLPETTSLDNALALAL 1025 Query 147 VAINIKRKGGLG-TSPMDIFIYNKEQKRINNKYNKNSQKI--QFCYYRIRKRGHQESGKD 203 +N K++G LG +P +++I +E RI + ++ QK+ Q+ YY+ +K + G Sbjct 1026 HCLNFKQRGRLGRMAPYELYI-QQESLRIQDYFSAIPQKLMMQWLYYKDQK-DKKWKGPM 1083 Query 204 QPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFIPPP 239 + Y G+G +++KD E +LV P + + +P P Sbjct 1084 RVEYWGQGS--VLLKDEEKGIFLV-PRRHIRRVPEP 1116 >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: 1193 to 1424 Score:111 bits(278), Expect:4e-28, Method:Compositional matrix adjust., Identities:74/239(31%), Positives:121/239(50%), Gaps:10/239(4%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V C C P I+G + WQ+D TH EN I++V V SG + AE + E+G Sbjct 1193 VQSCSKCCHHGEP--IKGQTDASLGVWQIDCTHLENQIIIVAVHVASGFMKAEVITAETG 1250 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ ++ A + L +DNGP F ++ + + +LG++HT GIP+NPQSQ +VE Sbjct 1251 KKTAEFLLKLAAQWPISKLHTDNGPNFTSQEVETMCWWLGIEHTFGIPYNPQSQGVVENK 1310 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNK 180 ++ LK ++K + +++A+A A N K++GGLG I N + +Y + Sbjct 1311 NKYLKELIEKIREDCKELKTAVAMATFIHNFKQRGGLGGMTAGERIVNMINTELEYQYQQ 1370 Query 181 N--SQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 N S+ + F Y+R G + K KG+ +V+K E K ++P + K I Sbjct 1371 NQISKNLNFKVYFR---EGRDQLWKGPGILLWKGEGAVVLKYQEEIK--IVPRRKCKII 1424 >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: 1207 to 1438 Score:109 bits(272), Expect:2e-27, Method:Compositional matrix adjust., Identities:72/243(30%), Positives:127/243(52%), Gaps:18/243(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+DYTH E I++V V SG I AE + ESG Sbjct 1207 VNSCAQCQQKG--EAIHGQVNAEIGVWQMDYTHLEGKIIIVAVHVASGFIEAEVIPQESG 1264 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNGP F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1265 RQTALFLLKLASRWPITHLHTDNGPNFTSQEVKMVAWWVGIEQSFGVPYNPQSQGVVEAM 1324 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIF---IYNKEQKRINN 176 + LK+ + + + Q +E+ + A+ +N KR+GG+G +P + I +++ + Sbjct 1325 NHHLKNQISRIREQANTIETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFLQ 1384 Query 177 KYNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDA 233 + N N + Q YYR G + K KG+ ++VK DI+ V+P + A Sbjct 1385 RKNSNFKNFQV-YYR---EGRDQLWKGPGELLWKGEGAVIVKVGTDIK-----VVPRRKA 1435 Query 234 KFI 236 K I Sbjct 1436 KII 1438 >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: 1192 to 1423 Score:107 bits(268), Expect:9e-27, Method:Compositional matrix adjust., Identities:73/242(30%), Positives:128/242(52%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V+ C+ C + I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1192 VDTCDKCHQKG--EAIHGQVNSDLGTWQMDCTHLEGKIVIVAVHVASGFIEAEVIPQETG 1249 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG FA++ +++ + G++HT G+P+NPQSQ +VE Sbjct 1250 RQTALFLLKLASRWPITHLHTDNGANFASQEVKMVAWWAGIEHTFGVPYNPQSQGVVEAM 1309 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q +VE+ + A+ +N KR+GG+G +P + I ++ I + Sbjct 1310 NHHLKNQIDRIREQANSVETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFQQ 1369 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAK 234 +KNS+ F YYR G + K KG+ +++K DI+ V+P + AK Sbjct 1370 SKNSKFKNFRVYYR---EGRDQLWKGPGELLWKGEGAVILKVGTDIK-----VVPRRKAK 1421 Query 235 FI 236 I Sbjct 1422 II 1423 >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: 1206 to 1437 Score:107 bits(267), Expect:1e-26, Method:Compositional matrix adjust., Identities:72/243(30%), Positives:126/243(51%), Gaps:18/243(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + ESG Sbjct 1206 VNTCAQCQQKG--EAIHGQVNAEIGVWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESG 1263 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNGP F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1264 RQTALFLLKLASRWPITHLHTDNGPNFTSQEVKMVAWWIGIEQSFGVPYNPQSQGVVEAM 1323 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIF---IYNKEQKRINN 176 + LK+ + + + Q +E+ + A+ +N KR+GG+G +P + I +++ + Sbjct 1324 NHHLKNQISRIREQANTIETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFLQ 1383 Query 177 KYNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDA 233 + N N +K Q YYR G + K KG ++VK DI+ V+P + A Sbjct 1384 RKNSNFKKFQ-VYYR---EGRDQLWKGPGELLWKGDGAVIVKVGADIK-----VVPRRKA 1434 Query 234 KFI 236 K I Sbjct 1435 KII 1437 >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: 1192 to 1423 Score:107 bits(267), Expect:1e-26, Method:Compositional matrix adjust., Identities:73/242(30%), Positives:127/242(52%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V+ C+ C + I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1192 VDTCDKCHQKG--EAIHGQVNSDLGTWQMDCTHLEGKIVIVAVHVASGFIEAEVIPQETG 1249 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + L +DNG FA++ +++ + G++HT G+P+NPQSQ +VE Sbjct 1250 RQTALFLLKLAGRWPITHLHTDNGANFASQEVKMVAWWAGIEHTFGVPYNPQSQGVVEAM 1309 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q +VE+ + A+ +N KR+GG+G +P + I ++ I + Sbjct 1310 NHHLKNQIDRIREQANSVETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFQQ 1369 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAK 234 +KNS+ F YYR G + K KG+ +++K DI+ V+P + AK Sbjct 1370 SKNSKFKNFRVYYR---EGRDQLWKGPGELLWKGEGAVILKVGTDIK-----VVPRRKAK 1421 Query 235 FI 236 I Sbjct 1422 II 1423 >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: 1214 to 1437 Score:106 bits(264), Expect:3e-26, Method:Compositional matrix adjust., Identities:75/229(33%), Positives:115/229(50%), Gaps:13/229(5%) Query 16 IRGGNKRG-----VNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHW 70 IRG K G + WQ+D TH E +++V V SG I AE + E+G+E ++ Sbjct 1214 IRGEPKHGQVDASIETWQMDCTHLEGKVIIVAVHVASGFIEAEVIPRETGKETAHFLLKL 1273 Query 71 YALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKK 130 A + + L +DNGP F ++ + + ++HTTGIP+NPQSQ VE ++ LK + + Sbjct 1274 LARWPVKHLHTDNGPNFTSQNVAAVCWWGNIEHTTGIPYNPQSQGSVESMNRQLKEIISQ 1333 Query 131 FQPQFVAVESAIAAALVAINIKRKGGLG--TSPMDIFIYNKEQKRINNKYNKNSQKIQF- 187 + +E+A+ A N KRKGG+G +S + Q +N N+ + + F Sbjct 1334 IRDDCERLETAVQMATHIHNFKRKGGIGGISSAERLVNMLTTQLELNTLQNQIQKILNFK 1393 Query 188 CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 YYR G K R KG+ +V+K E E V+P + AK I Sbjct 1394 VYYR---EGRDPVWKGPARLIWKGEGAVVIK--EGEDIKVVPRRKAKII 1437 >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: 1206 to 1437 Score:104 bits(259), Expect:1e-25, Method:Compositional matrix adjust., Identities:68/240(28%), Positives:122/240(50%), Gaps:12/240(5%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C+ C++ I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1206 VNSCDKCQQKG--EAIHGQVNADLGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQETG 1263 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F + +++ ++G++ T G+P+NPQSQ +VE Sbjct 1264 RQTALFLLKLASRWPITHLHTDNGANFTSPSVKMVAWWVGIEQTFGVPYNPQSQGVVEAM 1323 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIF---IYNKEQKRINN 176 + LK+ + + + Q V++E+ + A +N KR+GG+G +P + I +++ + Sbjct 1324 NHHLKNQIDRLRDQAVSIETVVLMATHCMNFKRRGGIGDMTPAERLVNMITTEQEIQFFQ 1383 Query 177 KYNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 N Q Q YYR G + K KG+ +++K + V+P + AK I Sbjct 1384 AKNLKFQNFQV-YYR---EGRDQLWKGPGELLWKGEGAVIIK--VGTEIKVVPRRKAKII 1437 >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: 1208 to 1439 Score:103 bits(256), Expect:3e-25, Method:Compositional matrix adjust., Identities:71/243(29%), Positives:124/243(51%), Gaps:18/243(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + ESG Sbjct 1208 VNTCAQCQQKG--EAIHGQVNAEIGVWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESG 1265 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1266 RQTALFLLKLASRWPITHLHTDNGSNFTSQEVKMVAWWIGIEQSFGVPYNPQSQGVVEAM 1325 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIF---IYNKEQKRINN 176 + LK+ + + + Q +E+ + A+ +N KR+GG+G +P + I +++ + Sbjct 1326 NHHLKNQISRIREQANTIETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFLQ 1385 Query 177 KYNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDA 233 + N N + Q YYR G + K KG ++VK DI+ VIP + A Sbjct 1386 RKNSNFKNFQ-VYYR---EGRDQLWKGPGELLWKGDGAVIVKVGADIK-----VIPRRKA 1436 Query 234 KFI 236 K I Sbjct 1437 KII 1439 >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: 1210 to 1441 Score:102 bits(255), Expect:4e-25, Method:Compositional matrix adjust., Identities:79/242(33%), Positives:117/242(48%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V C C+ P I G WQ+D TH E I++V V SG I AE + E+G Sbjct 1210 VAMCPKCQVKGEP--IHGQVDASPGVWQMDCTHIEGKIVIVAVHVASGFIEAEVIPRETG 1267 Query 61 QE---FRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIV 117 +E F +K++ + + L +DNGP F ++ + + V+HTTG+P+NPQSQ + Sbjct 1268 KETAKFLLKIIGRWPI---THLHTDNGPNFTSQEVAAMCWWGKVEHTTGVPYNPQSQGSI 1324 Query 118 ERAHQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG--TSPMDIFIYNKEQKRIN 175 E ++ LK + K + E+A+ A N KRKGG+G T+ + Q IN Sbjct 1325 ESMNKQLKEIIGKIRDDCQYTETAVLMACHIHNFKRKGGIGGLTAAERLINMITTQLEIN 1384 Query 176 NKYNKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAK 234 K + + F YYR G K R KG+ +V+K E E+ V+P + AK Sbjct 1385 TLQTKIQKILNFRVYYR---EGRDPVWKGPARLIWKGEGAVVLK--EGEELKVVPRRKAK 1439 Query 235 FI 236 I Sbjct 1440 II 1441 >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: 1207 to 1438 Score:102 bits(254), Expect:6e-25, Method:Compositional matrix adjust., Identities:67/240(28%), Positives:122/240(50%), Gaps:12/240(5%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C+ C++ + G + WQ+D TH E +++V V SG I AE + E+G Sbjct 1207 VNSCDKCQQKG--EAVHGQVNAELGTWQMDCTHLEGKVIIVAVHVASGFIEAEVIPQETG 1264 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ ++ ++G++ T G+P+NPQSQ +VE Sbjct 1265 RQTALFLLKLASRWPITHLHTDNGANFTSQDVKMAAWWIGIEQTFGVPYNPQSQGVVEAM 1324 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIF---IYNKEQKRINN 176 + LK+ + + + Q V++E+ + A +N KR+GG+G +P + I +++ + Sbjct 1325 NHHLKNQIDRIRDQAVSIETVVLMAAHCMNFKRRGGIGDMTPAERLVNMITTEQEIQFFQ 1384 Query 177 KYNKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 N Q Q YYR G + K KG+ +++K + VIP + AK I Sbjct 1385 AKNLKFQNFQV-YYR---EGRDQLWKGPGELLWKGEGAVLIK--VGTEIKVIPRRKAKII 1438 >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: 1207 to 1438 Score:102 bits(253), Expect:7e-25, Method:Compositional matrix adjust., Identities:72/242(30%), Positives:123/242(50%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + ESG Sbjct 1207 VNTCTQCQQKG--EAIHGQVNAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESG 1264 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1265 RQTALFLLKLASRWPITHLHTDNGANFTSQEVKMVAWWIGIEQSFGVPYNPQSQGVVEAM 1324 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q VE+ + A+ +N KR+GG+G +P + I ++ I Sbjct 1325 NHHLKNQISRIREQANTVETIVLMAVHCMNFKRRGGIGDMTPAERLINMVTAEQEIQFLQ 1384 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAK 234 KNS+ F Y+R G + K KG ++VK DI+ +IP + AK Sbjct 1385 AKNSKLQNFRVYFR---EGRDQLWKGPGELLWKGDGAVIVKVGADIK-----IIPRRKAK 1436 Query 235 FI 236 I Sbjct 1437 II 1438 >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: 1205 to 1436 Score:102 bits(253), Expect:7e-25, Method:Compositional matrix adjust., Identities:67/239(28%), Positives:122/239(51%), Gaps:10/239(4%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C+ C++ I G + WQ+D TH E +++V V SG I AE + E+G Sbjct 1205 VNSCDKCQQKG--EAIHGQVNSELGTWQMDCTHLEGKVIIVAVHVASGFIEAEVIPQETG 1262 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ ++ ++G++ T G+P+NP+SQ +VE Sbjct 1263 RQTALFLLKLASRWPITHLHTDNGANFTSQDVKMAAWWIGIEQTFGVPYNPESQGVVEAM 1322 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYN--KEQKRINNKY 178 + LK+ + + + Q V++E+ + A +N KR+GG+G I N ++ I Sbjct 1323 NHHLKNQIDRIRDQAVSIETVVLMATHCMNFKRRGGIGDMTPAERIVNMITTEQEIQFLQ 1382 Query 179 NKNSQKIQFCYYRIRKR-GHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 KN ++F +R+ R G + K KG+ +++K + VIP + AK I Sbjct 1383 TKN---LKFQNFRVYYREGRDQLWKGPGDLLWKGEGAVIIK--VGTEIKVIPRRKAKII 1436 >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: 1193 to 1424 Score:101 bits(252), Expect:1e-24, Method:Compositional matrix adjust., Identities:67/239(28%), Positives:124/239(51%), Gaps:10/239(4%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V+ C+ C + I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1193 VDTCDKCHQKG--EAIHGQVNAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQETG 1250 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ + G++ T G+P+NPQSQ +VE Sbjct 1251 RQTALFLLKLASRWPITHLHTDNGANFTSQEVKMVAWWAGIEQTFGVPYNPQSQGVVEAM 1310 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q ++E+ + A+ +N KR+GG+G +P + + ++ I + Sbjct 1311 NHHLKTQIDRIREQANSIETIVLMAVHCMNFKRRGGIGDMTPAERLVNMITTEQEIQFQQ 1370 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 +KNS+ F YYR G + K KG+ +++K + V+P + AK I Sbjct 1371 SKNSKFKNFRVYYR---EGRDQLWKGPGELLWKGEGAVILK--VGTEIKVVPRRKAKII 1424 >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: 1208 to 1439 Score:101 bits(252), Expect:1e-24, Method:Compositional matrix adjust., Identities:71/242(29%), Positives:124/242(51%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + ESG Sbjct 1208 VNSCAQCQQKG--EAIHGQVNAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESG 1265 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1266 RQTALFLLKLASRWPITHLHTDNGANFTSQEVKMVAWWIGIEQSFGVPYNPQSQGVVEAM 1325 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q +E+ + A+ +N KR+GG+G +P + I ++ I Sbjct 1326 NHHLKNQISRIREQANTIETIVLMAIHCMNFKRRGGIGDMTPSERLINMITTEQEIQFLQ 1385 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAK 234 KNS+ F Y+R G + K KG+ ++VK DI+ +IP + AK Sbjct 1386 AKNSKLKDFRVYFR---EGRDQLWKGPGELLWKGEGAVLVKVGTDIK-----IIPRRKAK 1437 Query 235 FI 236 I Sbjct 1438 II 1439 >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: 1213 to 1444 Score:101 bits(251), Expect:2e-24, Method:Compositional matrix adjust., Identities:76/242(31%), Positives:117/242(48%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V C C+ P + G WQ+D TH E +++V V SG I AE + E+G Sbjct 1213 VAMCPKCQIKGEP--VHGQVDASPGTWQMDCTHLEKKVVIVAVHVASGFIEAEVIPRETG 1270 Query 61 QE---FRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIV 117 +E F +K++ + + L +DNGP F ++ + + ++HTTGIP+NPQSQ + Sbjct 1271 KETAKFLLKILSRWPI---TQLHTDNGPNFTSQEVAAICWWGKIEHTTGIPYNPQSQGSI 1327 Query 118 ERAHQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG--TSPMDIFIYNKEQKRIN 175 E ++ LK + K + E+A+ A + N KRKGG+G TS + Q I Sbjct 1328 ESMNKQLKEIIGKIRDDCQYTEAAVLMACILHNFKRKGGIGGQTSAERLINIITTQLEIQ 1387 Query 176 NKYNKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAK 234 + K + + F YYR G K + KG+ +V+KD K V+P + AK Sbjct 1388 HLQTKIQKILNFRVYYR---EGRDPVWKGPAQLIWKGEGAVVLKDGSDLK--VVPRRKAK 1442 Query 235 FI 236 I Sbjct 1443 II 1444 >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: 1206 to 1437 Score:100 bits(250), Expect:2e-24, Method:Compositional matrix adjust., Identities:70/241(29%), Positives:124/241(51%), Gaps:14/241(5%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + ESG Sbjct 1206 VNTCAQCQQKG--EAIHGQVNAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESG 1263 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ ++G++ + G+P+NPQSQ +VE Sbjct 1264 RQTALFLLKLASRWPITHLHTDNGANFTSQEVKMVAWWVGIEQSFGVPYNPQSQGVVEAM 1323 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ +++ + Q +E+ + A+ +N KR+GG+G +P++ + ++ I Sbjct 1324 NHHLKNQIERIREQANTMETIVLMAVHCMNFKRRGGIGDMTPVERLVNMITTEQEIQFLQ 1383 Query 179 NKNSQKIQFCYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAKF 235 KNS+ F Y R G + + G G ++VK DI+ VIP + AK Sbjct 1384 AKNSKLKNFRVYFREGRNQLWQGPGELLWKGDGA--VIVKVGTDIK-----VIPRRKAKI 1436 Query 236 I 236 I Sbjct 1437 I 1437 >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: 1193 to 1424 Score:100 bits(250), Expect:2e-24, Method:Compositional matrix adjust., Identities:67/239(28%), Positives:123/239(51%), Gaps:10/239(4%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 V+ C+ C + I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1193 VDTCDKCHQKG--EAIHGQVNAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQETG 1250 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + L +DNG F ++ +++ + G++ T G+P+NPQSQ +VE Sbjct 1251 RQTALFLLKLAGRWPITHLHTDNGANFTSQEVKMVAWWAGIEQTFGVPYNPQSQGVVEAM 1310 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q ++E+ + A+ +N KR+GG+G +P + + ++ I + Sbjct 1311 NHHLKTQIDRIREQANSIETIVLMAVHCMNFKRRGGIGDMTPAERLVNMITTEQEIQFQQ 1370 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 +KNS+ F YYR G + K KG+ +++K + V+P + AK I Sbjct 1371 SKNSKFKNFRVYYR---EGRDQLWKGPGELLWKGEGAVILK--VGTEIKVVPRRKAKII 1424 >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: 1218 to 1437 Score:100 bits(248), Expect:4e-24, Method:Compositional matrix adjust., Identities:70/228(31%), Positives:117/228(51%), Gaps:14/228(6%) Query 15 VIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALF 74 I G V WQ+D TH E I++V V SG I AE + ESG++ + ++ + + Sbjct 1218 AIHGQVNAEVGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQESGRQTALFLLKLASRW 1277 Query 75 GPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQ 134 L +DNG F ++ +++ ++G++ T G+P+NPQSQ +VE + LK+ + + + Q Sbjct 1278 PITHLHTDNGANFTSQEVKMVAWWVGIEQTFGVPYNPQSQGVVEAMNHHLKNQISRIREQ 1337 Query 135 FVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKYNKNSQKIQF-CYYR 191 VE+ + A+ +N KR+GG+G +P + I ++ I KNS+ F Y+R Sbjct 1338 ANTVETIVLMAVHCMNFKRRGGIGDMTPSERLINMITTEQEIQFLQAKNSKLKNFRVYFR 1397 Query 192 IRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAKFI 236 G + K KG ++VK DI+ +IP + AK I Sbjct 1398 ---EGRDQLWKGPGELLWKGDGAVIVKVGTDIK-----IIPRRKAKII 1437 >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: 1207 to 1438 Score:99.8 bits(247), Expect:6e-24, Method:Compositional matrix adjust., Identities:69/242(29%), Positives:123/242(50%), Gaps:16/242(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESG 60 VN C C++ I G + WQ+D TH E I++V V SG I AE + E+G Sbjct 1207 VNTCAQCQQKG--EAIHGQVDAELGTWQMDCTHLEGKIIIVAVHVASGFIEAEVIPQETG 1264 Query 61 QEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERA 120 ++ + ++ + + L +DNG F ++ +++ + G++ + G+P+NPQSQ +VE Sbjct 1265 RQTALFLLKLASRWPITHLHTDNGANFTSQEVKMVAWWTGIEQSFGVPYNPQSQGVVEAM 1324 Query 121 HQLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLG-TSPMDIFI-YNKEQKRINNKY 178 + LK+ + + + Q +E+ + A+ +N KR+GG+G +P + I ++ I + Sbjct 1325 NHHLKNQISRIREQANTMETIVLMAVHCMNFKRRGGIGDMTPAERLINMITTEQEIQFLH 1384 Query 179 NKNSQKIQF-CYYRIRKRGHQESGKDQPRYCGKGKEPIVVK---DIESEKYLVIPYKDAK 234 KNS+ F Y+R G + K KG ++VK DI+ ++P + AK Sbjct 1385 AKNSKLKNFRVYFR---EGRDQLWKGPGELLWKGDGAVIVKVGTDIK-----IVPRRKAK 1436 Query 235 FI 236 I Sbjct 1437 II 1438 >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: 1218 to 1436 Score:98.2 bits(243), Expect:2e-23, Method:Compositional matrix adjust., Identities:66/224(29%), Positives:113/224(50%), Gaps:8/224(3%) Query 16 IRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFG 75 I G + WQ+D TH E +++V V SG I AE + ESG++ + ++ + + Sbjct 1218 IHGQVNAELGTWQMDCTHLEGKVIIVAVHVASGFIEAEVIPQESGRQTALFLLKLASRWP 1277 Query 76 PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQF 135 L +DNG F ++ +++ ++G++ T G+P+NPQSQ +VE + LK+ + + + Q Sbjct 1278 ITHLHTDNGANFTSQEVKMVAWWVGIEQTFGVPYNPQSQGVVEAMNHHLKNQIDRIREQA 1337 Query 136 VAVESAIAAALVAINIKRKGGLG--TSPMDIFIYNKEQKRINNKYNKNSQKIQF-CYYRI 192 VE+ + A+ +N KR+GG+G T I ++ I KNS+ F Y+R Sbjct 1338 NTVETIVLMAVHCMNFKRRGGIGDMTPAERIINMITTEQEIQFLQAKNSKLKNFRVYFR- 1396 Query 193 RKRGHQESGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 G + K KG ++VK + V+P + AK I Sbjct 1397 --EGRDQLWKGPGELLWKGDGAVIVK--VGTEIKVVPRRKAKII 1436 >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: 1235 to 1442 Score:98.2 bits(243), Expect:2e-23, Method:Compositional matrix adjust., Identities:64/216(30%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E +++V V SG I AE + E+G+E ++ + + + +DNGP Sbjct 1235 WQIDCTHLEGKVIIVAVHVASGFIEAEVIPEETGRETAYFILKLAGRWPVKKIHTDNGPN 1294 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + ++H GIP+NPQSQ +VE ++ LK +++ + Q + +A+ A+ Sbjct 1295 FTSTAVKAACWWAQIQHEFGIPYNPQSQGVVESMNKQLKQIIEQVRDQAEQLRTAVIMAV 1354 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI N + K++ Q ++ +R+ R ++ Sbjct 1355 YIHNFKRKGGIGEYTAGERLLDILTTNIQTKQL------QKQILKVQNFRVYYRDARDPI 1408 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K R KG+ +V+K E E V+P + AK I Sbjct 1409 WKGPARLLWKGEGAVVIK--EGEDIKVVPRRKAKII 1442 >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: 1207 to 1414 Score:95.5 bits(236), Expect:1e-22, Method:Compositional matrix adjust., Identities:64/211(30%), Positives:108/211(51%), Gaps:4/211(1%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I++V V SG I AE + E+GQE ++ A + + + +DNGP Sbjct 1207 WQIDCTHMEGKIIIVAVHVASGFIEAEVIPAETGQETAYFLLKLAARWPVKVIHTDNGPN 1266 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + ++H GIP+NPQSQ +VE ++ LKS +++ + Q + +A+ A+ Sbjct 1267 FTSTTMKAACWWANIQHEFGIPYNPQSQGVVEAMNKELKSIIQQVRDQAEHLRTAVQMAV 1326 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES-GKDQP 205 N KRKGG+G I + +I Q ++ +R+ R ++ K Sbjct 1327 FVHNFKRKGGIGGYTAGERIIDILASQIQTT-ELQKQILKXHKFRVYYRDSRDPIWKGPA 1385 Query 206 RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1386 QLLWKGEGAVVIQDKGDIK--VVPRRKAKII 1414 >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: 1209 to 1416 Score:95.1 bits(235), Expect:2e-22, Method:Compositional matrix adjust., Identities:63/211(30%), Positives:109/211(51%), Gaps:4/211(1%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I++V V S I AE + E+GQE ++ A + + + +DNGP Sbjct 1209 WQMDCTHLEGKIIIVAVHVASDFIEAEVIPAETGQETAYFLLKLAARWPVKVIHTDNGPN 1268 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++H GIP+NPQSQ +VE ++ LKS +++ + Q +++A+ A+ Sbjct 1269 FTSAAMKAACWWTGIQHEFGIPYNPQSQGVVEAMNKELKSIIQQVRDQAEHLKTAVQMAV 1328 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES-GKDQP 205 N KRKGG+G + + +I Q ++ +R+ R ++ K Sbjct 1329 FVHNFKRKGGIGGYTAGERLIDILASQIQTT-ELQKQILKINNFRVYYRDSRDPIWKGPA 1387 Query 206 RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1388 QLLWKGEGAVVIQDKGDIK--VVPRRKAKII 1416 >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: 1207 to 1414 Score:94.7 bits(234), Expect:3e-22, Method:Compositional matrix adjust., Identities:68/216(31%), Positives:109/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1207 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKTIHTDNGSN 1266 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE + LK + + + Q +++A+ A+ Sbjct 1267 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMNNELKKIIGQVRDQAEHLKTAVQMAV 1326 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + K + K KIQ +R+ R +E Sbjct 1327 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSREPL 1380 Query 202 KDQP-RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 P + KG+ +V++D K V+P + AK I Sbjct 1381 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1414 >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: 1209 to 1416 Score:93.6 bits(231), Expect:6e-22, Method:Compositional matrix adjust., Identities:67/216(31%), Positives:109/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1209 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGSN 1268 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1269 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMNKQLKQIIGQVRDQAEHLKTAVQMAV 1328 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1329 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSRDPL 1382 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1383 WKGHAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1416 >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: 1210 to 1417 Score:93.6 bits(231), Expect:7e-22, Method:Compositional matrix adjust., Identities:67/216(31%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1210 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1269 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE + LK + + + Q +++A+ A+ Sbjct 1270 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMNNELKKIIGQVRDQAEHLKTAVQMAV 1329 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R +++ Sbjct 1330 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQ--NFRVYYRDNKDPL 1383 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1384 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1417 >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: 1203 to 1410 Score:93.2 bits(230), Expect:8e-22, Method:Compositional matrix adjust., Identities:68/215(32%), Positives:109/215(50%), Gaps:12/215(5%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1203 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGTN 1262 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + GVK GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1263 FTSTVVKAACWWAGVKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1322 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + K + K N QK + YYR + Sbjct 1323 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL-QKQILNIQKFR-VYYR---DSREPIW 1377 Query 202 KDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P + AK I Sbjct 1378 KGPAKLLWKGEGAVVIQD--NSEIKVVPRRKAKII 1410 >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: 1214 to 1421 Score:93.2 bits(230), Expect:8e-22, Method:Compositional matrix adjust., Identities:66/212(31%), Positives:106/212(50%), Gaps:6/212(2%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNGP Sbjct 1214 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGPN 1273 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ ++E ++ LK + + + Q ++ A+ A+ Sbjct 1274 FTSTTVKAACWWTGIKQEFGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKRAVQMAV 1333 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQFCYYRIRKRGHQES-GKDQ 204 N KRKGG+G I I K K KIQ +R+ R ++ K Sbjct 1334 FIHNFKRKGGIGGYSAGERIVGIIATDIQTKELQKQITKIQ--NFRVYYRDSRDPLWKGP 1391 Query 205 PRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1392 AKLLWKGEGAVVIQDNNDIK--VVPRRKAKVI 1421 >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: 1207 to 1414 Score:93.2 bits(230), Expect:8e-22, Method:Compositional matrix adjust., Identities:65/215(30%), Positives:109/215(50%), Gaps:12/215(5%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG + AE + E+GQE ++ + + + +DNG Sbjct 1207 WQLDCTHLEGKIILVAVHVASGYMEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGSN 1266 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1267 FTSSTVKAACWWAGIQQEFGIPYNPQSQGVVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1326 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + ++ + + N QK + YYR Sbjct 1327 FIHNFKRKGGIGGYSAGERIIDILATDIQTTKLQQQIS-NIQKFRV-YYR---DSRDPIW 1381 Query 202 KDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D E K V+P + AK I Sbjct 1382 KGPAKLLWKGEGAVVLQDQEEIK--VVPRRKAKII 1414 >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: 1530 to 1715 Score:93.2 bits(230), Expect:9e-22, Method:Compositional matrix adjust., Identities:62/187(33%), Positives:94/187(50%), Gaps:14/187(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENIILL----VWVETNSGLIYAE 53 V QC IC P G N RG+ WQ+D THY L V ++T SG + A Sbjct 1530 VKQCPICV-TYLPVPHLGVNPRGLFPNMIWQMDVTHYSEFGNLKYIHVSIDTFSGFLLAT 1588 Query 54 KVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 GE+ + ++H +++ G P+ +++DNGP + ++ Q L +KH TGIP+NPQ Sbjct 1589 LQTGETTKHVITHLLHCFSIIGLPKQIKTDNGPGYTSKNFQEFCSTLQIKHITGIPYNPQ 1648 Query 113 SQAIVERAHQLLKSTLKKFQ-----PQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIY 167 Q IVERAH LK+T++K + P+ + + AL +N S D F + Sbjct 1649 GQGIVERAHLSLKTTIEKIKKGEWYPRKGTPRNILNHALFILNFLNLDDQNKSAADRFWH 1708 Query 168 NKEQKRI 174 N +K+ Sbjct 1709 NNPKKQF 1715 >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: 1188 to 1415 Score:92.8 bits(229), Expect:1e-21, Method:Compositional matrix adjust., Identities:71/237(30%), Positives:116/237(48%), Gaps:11/237(4%) Query 2 NQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQ 61 N+C++ EA + G WQ+D TH E ++LV V SG I AE + E+GQ Sbjct 1188 NKCQLKGEA-----MHGQVDCSPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQ 1242 Query 62 EFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 E ++ + +++ +DNG F + + + G+K GIP+NPQSQ +VE + Sbjct 1243 ETAYFLLKLAGRWPVKTIHTDNGSNFTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMN 1302 Query 122 QLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNK 180 + LK + + + Q +++A+ A+ N KRKGG+G I + I K K Sbjct 1303 KELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIASDIQTKELQK 1362 Query 181 NSQKIQFCYYRIRKRGHQES-GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 KIQ +R+ R ++ K + KG+ +V++D K V+P + AK I Sbjct 1363 QITKIQ--NFRVYYRDSRDPLWKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1415 >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: 1220 to 1427 Score:92.8 bits(229), Expect:1e-21, Method:Compositional matrix adjust., Identities:66/216(31%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1220 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1279 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1280 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1339 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1340 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSRDPL 1393 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1394 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1427 >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: 1208 to 1415 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:66/212(31%), Positives:106/212(50%), Gaps:6/212(2%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + ++ +DNG Sbjct 1208 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVTTIHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1268 FTSATVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQFCYYRIRKRGHQES-GKDQ 204 N KRKGG+G I + I K K KIQ +R+ R ++ K Sbjct 1328 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKELQKQITKIQ--NFRVYYRDSRDPLWKGP 1385 Query 205 PRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1386 AKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1415 >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: 1220 to 1427 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:67/213(31%), Positives:104/213(48%), Gaps:8/213(3%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1220 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1279 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1280 FTSATVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1339 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQ--FCYYRIRKRGHQESGKD 203 N KRKGG+G I + I K K KIQ YYR K Sbjct 1340 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKELQKQITKIQNFRVYYR---DSRNPLWKG 1396 Query 204 QPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1397 PAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1427 >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: 1208 to 1415 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:67/217(31%), Positives:107/217(49%), Gaps:16/217(7%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1208 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1268 FTSATVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQ--FCYYRIRKRGHQE 199 N KRKGG+G +DI + + K + K KIQ YYR Sbjct 1328 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQNFRVYYR---DSRNP 1380 Query 200 SGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1381 LWKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1415 >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: 1212 to 1419 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:66/216(31%), Positives:109/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + ++ +DNG Sbjct 1212 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVTTIHTDNGSN 1271 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1272 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1331 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R +++ Sbjct 1332 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQITKIQ--NFRVYYRDNRDPI 1385 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + K I Sbjct 1386 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKVKII 1419 >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: 1220 to 1427 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:67/217(31%), Positives:107/217(49%), Gaps:16/217(7%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1220 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1279 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1280 FTSATVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1339 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQ--FCYYRIRKRGHQE 199 N KRKGG+G +DI + + K + K KIQ YYR Sbjct 1340 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQNFRVYYR---DSRNP 1392 Query 200 SGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1393 LWKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1427 >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: 1235 to 1442 Score:92.0 bits(227), Expect:2e-21, Method:Compositional matrix adjust., Identities:68/217(31%), Positives:111/217(51%), Gaps:16/217(7%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQE---FRIKVMHWYALFGPESLQSDN 83 WQ+D TH E +++V V SG I AE + E+G+E F +K++ + + L +DN Sbjct 1235 WQMDCTHLEGKVIIVAVHVASGFIEAEVIPRETGKETAKFLLKILSRWPI---TQLHTDN 1291 Query 84 GPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIA 143 GP F ++ + + ++HTTG+P+NPQSQ +E ++ LK + K + E+A+ Sbjct 1292 GPNFTSQEVAAMCWWGKIEHTTGVPYNPQSQGSIESMNKQLKEIIGKIRDDCQYTETAVL 1351 Query 144 AALVAINIKRKGGL-GTSPMDIFI-YNKEQKRINNKYNKNSQKIQF-CYYRIRKRGHQES 200 A N KRKGG+ G +P + I Q + + K + + F YYR G Sbjct 1352 MACHIHNFKRKGGIGGLTPAERLINMITTQLELQHLQTKIQKILNFRVYYR---EGRDPV 1408 Query 201 GKDQPRYCGKGKEPIVVK-DIESEKYLVIPYKDAKFI 236 K + KG+ +V+K +E ++Y P + AK I Sbjct 1409 WKGPGQLIWKGEGAVVIKGGVELKEY---PRRKAKII 1442 >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: 1208 to 1415 Score:92.0 bits(227), Expect:3e-21, Method:Compositional matrix adjust., Identities:65/212(31%), Positives:107/212(50%), Gaps:6/212(2%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1208 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTVHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ ++E ++ LK + + + Q +++A+ A+ Sbjct 1268 FTSTTVKAACWWAGIKQEFGIPYNPQSQGVIESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQFCYYRIRKRGHQESGKDQP 205 N KRKGG+G I + I K K KIQ +R+ R ++ P Sbjct 1328 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKELQKQITKIQ--NFRVYYRDSRDPVWKGP 1385 Query 206 -RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1386 AKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1415 >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: 1208 to 1415 Score:92.0 bits(227), Expect:3e-21, Method:Compositional matrix adjust., Identities:67/217(31%), Positives:106/217(48%), Gaps:16/217(7%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1208 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1268 FTGATVRAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQ--FCYYRIRKRGHQE 199 N KRKGG+G +DI + + K + K KIQ YYR Sbjct 1328 FIHNFKRKGGIGGYSAGERIVDIIATDIQTKEL----QKQITKIQNFRVYYR---DSRNP 1380 Query 200 SGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1381 LWKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1415 >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: 1212 to 1419 Score:91.7 bits(226), Expect:3e-21, Method:Compositional matrix adjust., Identities:63/216(29%), Positives:108/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + +DNG Sbjct 1212 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVRVIHTDNGSN 1271 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1272 FTSNAVKAACWWAGIQQEFGIPYNPQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAV 1331 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KR+GG+G +DI + + K + N Q ++ +R+ R ++ Sbjct 1332 FIHNFKRRGGIGGYSAGERIIDIIASDIQTKELQN------QILKIQNFRVYYRDSRDPI 1385 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1386 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1419 >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: 1203 to 1410 Score:91.7 bits(226), Expect:3e-21, Method:Compositional matrix adjust., Identities:61/216(28%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG + AE + E+GQE ++ + +++ +DNG Sbjct 1203 WQLDCTHLEGKIILVAVHVASGYLEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGTN 1262 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1263 FTSATVKAACWWAGIQQEFGIPYNPQSQGVVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1322 Query 147 VAINIKRKGGL-----GTSPMDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+ G +DI + + + + Q I+ +R+ R ++ Sbjct 1323 FIHNFKRKGGIGGYSAGERTIDIIATDIQTRELQK------QIIKIQNFRVYYRDSRDPV 1376 Query 202 KDQP-RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 P + KG+ +V++D + + V+P + AK I Sbjct 1377 WKGPAKLLWKGEGAVVIQD--NSEIKVVPRRKAKII 1410 >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: 1531 to 1716 Score:91.3 bits(225), Expect:4e-21, Method:Compositional matrix adjust., Identities:61/187(33%), Positives:93/187(49%), Gaps:14/187(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGV---NHWQVDYTHYENIILL----VWVETNSGLIYAE 53 V QC IC P G N RG+ WQ+D THY L V ++T SG + A Sbjct 1531 VRQCPICA-TYLPVPHLGVNPRGLLPNMIWQMDVTHYSEFGNLKYIHVSIDTFSGFLLAT 1589 Query 54 KVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 GE+ + ++H +++ G P+ +++DNGP + ++ Q L +KH TGIP+NPQ Sbjct 1590 LQTGETTKHVITHLLHCFSIIGLPKQIKTDNGPGYTSKNFQEFCSTLQIKHVTGIPYNPQ 1649 Query 113 SQAIVERAHQLLKSTLKKFQ-----PQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIY 167 Q IVERAH LK+T++K + P + + AL +N S D F + Sbjct 1650 GQGIVERAHLSLKTTIEKIKKGEWYPTKGTPRNILNHALFILNFLNLDDQNHSAADRFWH 1709 Query 168 NKEQKRI 174 + +K+ Sbjct 1710 SNPRKQF 1716 >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: 1207 to 1414 Score:90.9 bits(224), Expect:5e-21, Method:Compositional matrix adjust., Identities:66/216(31%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1207 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQEAAYFILKLAGRWPVKIIHTDNGSN 1266 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1267 FTSAVVKAACWWAGIQQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1326 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1327 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQISKIQ--NFRVYFRDSRDPV 1380 Query 202 KDQP-RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 P + KG+ +V++D + + VIP + AK I Sbjct 1381 WKGPAKLLWKGEGAVVIQD--NNEIKVIPRRKAKII 1414 >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: 1218 to 1425 Score:90.5 bits(223), Expect:8e-21, Method:Compositional matrix adjust., Identities:65/217(30%), Positives:107/217(49%), Gaps:16/217(7%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG + AE + E+GQE ++ + + + +DNGP Sbjct 1218 WQLDCTHLEGKIILVAVHVASGYLEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGPN 1277 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ VE ++ LK + + + Q +++A+ A+ Sbjct 1278 FISATVKAACWWAGIKQEFGIPYNPQSQGAVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1337 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQ--FCYYRIRKRGHQE 199 N KRKGG+G +DI + + ++ + K+Q YYR + Sbjct 1338 FIHNFKRKGGIGGXTAGERIIDIIATDIQTTKLQTQI----LKVQNFXVYYRDSR---DP 1390 Query 200 SGKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1391 IWKGPAKLLWKGEGAVVIQDNGDIK--VVPRRKAKII 1425 >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: 1209 to 1416 Score:90.1 bits(222), Expect:1e-20, Method:Compositional matrix adjust., Identities:65/216(30%), Positives:108/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1209 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKIVHTDNGSN 1268 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1269 FTSAAVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1328 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1329 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSRDPI 1382 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + K I Sbjct 1383 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKVKII 1416 >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: 1205 to 1412 Score:90.1 bits(222), Expect:1e-20, Method:Compositional matrix adjust., Identities:64/216(30%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + +++ +DNG Sbjct 1205 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQEAAFFILKLAGGWPVKAIHTDNGSN 1264 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1265 FTSGAVKAACWWADIKQEFGIPYNPQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAV 1324 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1325 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSRDPI 1378 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P + AK I Sbjct 1379 WKGPAKLLWKGEGAVVIQD--NSEIKVVPRRKAKII 1412 >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: 1203 to 1410 Score:89.7 bits(221), Expect:1e-20, Method:Compositional matrix adjust., Identities:64/216(30%), Positives:110/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1203 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKIIHTDNGSN 1262 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ G+P+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1263 FTSTVVKAACWWAGIQQEFGVPYNPQSQGVVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1322 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1323 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQITKIQ--NFRVYFRDSRDPV 1376 Query 202 KDQP-RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 P + KG+ +V++D + + V+P + AK I Sbjct 1377 WKGPAKLLWKGEGAVVIQD--NNEIKVVPRRKAKII 1410 >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: 1213 to 1420 Score:89.7 bits(221), Expect:1e-20, Method:Compositional matrix adjust., Identities:65/212(31%), Positives:106/212(50%), Gaps:6/212(2%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I++V V SG I AE + E+GQE ++ + + + +DNG Sbjct 1213 WQLDCTHLEGKIIIVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKVVHTDNGSN 1272 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1273 FTSAAVKAACWWANIKQEFGIPYNPQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAV 1332 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQFCYYRIRKRGHQES-GKDQ 204 N KRKGG+G I + I K K KIQ +R+ R +++ K Sbjct 1333 FIHNFKRKGGIGGYSAGERIIDMIATDIQTKELQKQITKIQ--NFRVYYRDNRDPIWKGP 1390 Query 205 PRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1391 AKLLWKGEGAVVIQDNSDIK--VVPRRKAKII 1420 >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: 1157 to 1364 Score:89.7 bits(221), Expect:1e-20, Method:Compositional matrix adjust., Identities:65/215(30%), Positives:107/215(49%), Gaps:12/215(5%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQVD TH E +++V V SG I AE + E+GQE ++ + +++ +DNGP Sbjct 1157 WQVDCTHLEGKVIIVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGPN 1216 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1217 FTSAAVKAACWWADIKQEFGIPYNPQSQGVVESLNKELKKIIGQVRDQAEHLKTAVQMAV 1276 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + + + K QK + YYR + Sbjct 1277 FIHNFKRKGGIGGYTAGERIIDIIATDIQTSELQKQILK-VQKFRV-YYRDSR---DPIW 1331 Query 202 KDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K KG+ +V++D K V+P + AK I Sbjct 1332 KGPATLLWKGEGAVVIQDQGELK--VVPRRKAKII 1364 >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: 1181 to 1408 Score:89.7 bits(221), Expect:2e-20, Method:Compositional matrix adjust., Identities:69/241(29%), Positives:118/241(48%), Gaps:19/241(7%) Query 2 NQCEICKEARTPAVIRGGNKRGVNHWQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQ 61 N+C++ EA + G WQ+D TH E ++LV V SG I AE + E+GQ Sbjct 1181 NKCQLKGEA-----MHGQVDCSPGIWQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQ 1235 Query 62 EFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 E ++ + + + +DNG F + + + + ++ GIP+NPQSQ +VE + Sbjct 1236 ETAYFILKLAGRWPVKVIHTDNGSNFTSAAVKAVCWWANIQQEFGIPYNPQSQGVVESMN 1295 Query 122 QLLKSTLKKFQPQFVAVESAIAAALVAINIKRKGGLGTSP-----MDIFIYNKEQKRINN 176 + LK + + + Q +++A+ A+ N KRKGG+G +DI + + K + Sbjct 1296 KELKKIIGQVREQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL-- 1353 Query 177 KYNKNSQKIQFCYYRIRKRGHQES-GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKF 235 K KIQ +R+ R ++ K + KG+ +V++D K V+P + AK Sbjct 1354 --QKQISKIQ--NFRVYYRDSRDPIWKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKAKI 1407 Query 236 I 236 I Sbjct 1408 I 1408 >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: 1623 to 1760 Score:89.4 bits(220), Expect:2e-20, Method:Composition-based stats., Identities:55/139(40%), Positives:76/139(54%), Gaps:9/139(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGV---NHWQVDYTHY----ENIILLVWVETNSGLIYAE 53 V C+ C A TP G N RG+ WQ+D TH+ + + V V+T SG I A Sbjct 1623 VKACKQCVVA-TPVPHLGVNPRGLVPNAIWQMDVTHFTPFGKQRFVHVTVDTFSGFILAT 1681 Query 54 KVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 GE+ + V+H A G P ++++DNGP + + Q Q L +KH TGIP+NPQ Sbjct 1682 PQTGEASKNVISHVIHCLATIGKPHTIKTDNGPGYTGKNFQDFCQKLQIKHVTGIPYNPQ 1741 Query 113 SQAIVERAHQLLKSTLKKF 131 Q +VERAHQ LK+ L + Sbjct 1742 GQGVVERAHQTLKNALNRL 1760 >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: 1205 to 1412 Score:89.4 bits(220), Expect:2e-20, Method:Compositional matrix adjust., Identities:62/216(29%), Positives:107/216(49%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1205 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKVVHTDNGSN 1264 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1265 FTSATVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1324 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + + + Q I+ +R+ R ++ Sbjct 1325 FIHNFKRKGGIGGYSAGERIIDIIATDIQTRELQK------QIIKIQNFRVYYRDSRDPI 1378 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + K I Sbjct 1379 WKGPAKLLWKGEGAVVIQDNSDIK--VVPRRKVKII 1412 >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: 1208 to 1415 Score:89.0 bits(219), Expect:3e-20, Method:Compositional matrix adjust., Identities:62/215(29%), Positives:110/215(51%), Gaps:12/215(5%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+G+E ++ + + + + +DNG Sbjct 1208 WQLDCTHLEGQVILVAVHVASGYIEAEVIPAETGKETAYFLLKLASRWPVKVIHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + ++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1268 FTSAAVKAACWWADIQQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQESG 201 N KRKGG+G +DI + + K + + + N QK + YYR Sbjct 1328 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKELQKQIS-NIQKFR-VYYR---DSRDPIW 1382 Query 202 KDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P ++AK I Sbjct 1383 KGPAKLLWKGEGAVVIQD--NSEIKVVPRREAKII 1415 >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: 1204 to 1411 Score:89.0 bits(219), Expect:3e-20, Method:Compositional matrix adjust., Identities:65/216(30%), Positives:108/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1204 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGSN 1263 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1264 FISNTVKAACWWAGIQQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1323 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R ++ Sbjct 1324 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQIMKIQ--NFRVYYRDSRDPI 1377 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + K I Sbjct 1378 WKGPAKLLWKGEGAVVLQDNSDIK--VVPRRKVKII 1411 >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: 1203 to 1409 Score:89.0 bits(219), Expect:3e-20, Method:Compositional matrix adjust., Identities:66/216(31%), Positives:108/216(50%), Gaps:15/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + +DNG Sbjct 1203 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVRVIHTDNGSN 1262 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1263 FTSAVVKAACWWADIKQEFGIPYNPQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAV 1322 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + K KIQ +R+ R +E Sbjct 1323 FIHNFKRKGGIGGYSAGERIIDIIATDIQTKEL----QKQITKIQ--NFRVYYRDSREPI 1376 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V+++ E + V+P + AK I Sbjct 1377 WKGPAKLLWKGEGAVVIQNSEIK---VVPRRKAKII 1409 >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: 1208 to 1415 Score:88.2 bits(217), Expect:4e-20, Method:Compositional matrix adjust., Identities:61/216(28%), Positives:107/216(49%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I++V V SG I AE + E+GQE ++ + + + +DNGP Sbjct 1208 WQLDCTHLEGKIIIVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGPN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + + GIP+NPQSQ +VE ++ LK + + Q +++A+ A+ Sbjct 1268 FISAAVKAACWWANITQEFGIPYNPQSQGVVESMNKELKKIIGQVGDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + K + Q I+ +R+ R ++ Sbjct 1328 FIHNFKRKGGIGGYSAGERIIDIIASDIQTKELQK------QIIKIQNFRVYYRDSRDPI 1381 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P + AK + Sbjct 1382 WKGPAKLLWKGEGAVVIQD--NNEIKVVPRRKAKIL 1415 >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: 1205 to 1412 Score:87.8 bits(216), Expect:7e-20, Method:Compositional matrix adjust., Identities:63/216(29%), Positives:109/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1205 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQEAAFFILKLAGRWPVKVIHTDNGSN 1264 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1265 FTSGAVKAACWWADIKQEFGIPYNPQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAV 1324 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + + + + K KIQ +R+ R ++ Sbjct 1325 FIHNFKRKGGIGGYSAGERIIDIIATDIQTREL----QKQITKIQ--NFRVYYRDSRDPI 1378 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P + AK I Sbjct 1379 WKGPAKLPWKGEGAVVIQD--NSEIKVVPRRKAKII 1412 >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: 1218 to 1425 Score:87.4 bits(215), Expect:7e-20, Method:Compositional matrix adjust., Identities:62/211(29%), Positives:104/211(49%), Gaps:4/211(1%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG + AE + E+GQE ++ + + + +DNG Sbjct 1218 WQLDCTHLEGKIILVAVHVASGYLEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGSN 1277 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + +K GIP+NPQSQ VE ++ LK + + + Q +++A+ A+ Sbjct 1278 FTSATVKAACWWANIKQEFGIPYNPQSQGAVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1337 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES-GKDQP 205 N KRKGG+G I + I N +Q ++ +R+ R ++ K Sbjct 1338 FIHNFKRKGGIGGYTAGERIIDIIATDIQTT-NLQTQILKVQNFRVYYRDSRDPIWKGPA 1396 Query 206 RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D K V+P + AK I Sbjct 1397 KLLWKGEGAVVIQDNGDIK--VVPRRKAKII 1425 >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: 1217 to 1424 Score:87.0 bits(214), Expect:1e-19, Method:Compositional matrix adjust., Identities:61/216(28%), Positives:108/216(50%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG + AE + E+GQE ++ + + + +DNG Sbjct 1217 WQLDCTHLEGKIILVAVHVASGYLEAEVIPAETGQETAYFILKLAGRWPVKVIHTDNGSN 1276 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + ++ GIP+NPQSQ VE ++ LK + + + Q +++A+ A+ Sbjct 1277 FTSATVKAACWWANIQQEFGIPYNPQSQGAVESMNKELKKIIGQIRDQAEHLKTAVQMAV 1336 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQE-S 200 N KRKGG+G +DI + + ++ +Q ++ +R+ R +E + Sbjct 1337 FIHNFKRKGGIGGYTAGERIIDIIATDIQTTKL------QTQILKVQNFRVYYRDSREPT 1390 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + AK I Sbjct 1391 WKGPAKLLWKGEGAVVIQDNGDIK--VVPRRKAKII 1424 >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: 1206 to 1413 Score:86.7 bits(213), Expect:1e-19, Method:Compositional matrix adjust., Identities:63/212(30%), Positives:104/212(49%), Gaps:6/212(2%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I++V V SG I AE + E+GQE ++ + + +DNG Sbjct 1206 WQLDCTHLEGKIIIVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVTVIHTDNGSN 1265 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + + GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1266 FTSAAVKAACWWANITQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1325 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQFCYYRIRKRGHQESGKDQP 205 N KRKGG+G I + I K K KIQ +R+ R ++ P Sbjct 1326 FIHNFKRKGGIGGYSAGERIIDIIASDIQTKELQKQITKIQ--NFRVYYRDSRDPVWKGP 1383 Query 206 -RYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D + + V+P + AK I Sbjct 1384 AKLLWKGEGAVVIQD--NNEIKVVPRRKAKII 1413 >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: 1209 to 1416 Score:86.7 bits(213), Expect:1e-19, Method:Compositional matrix adjust., Identities:61/216(28%), Positives:105/216(48%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E I+LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1209 WQLDCTHLEGKIILVAVHVASGYIEAEVIPAETGQETAYFILKLAGRWPVKMIHTDNGSN 1268 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + + GIP+NPQSQ +VE ++ LK + + + Q + +A+ A+ Sbjct 1269 FTSAAVKAACWWADIHQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLRTAVQMAV 1328 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KRKGG+G +DI + K + + + Q +R+ R ++ Sbjct 1329 FIHNFKRKGGIGGYSARERIIDIIATDIPTKELQKQIS------QIQKFRVYYRDSRDPI 1382 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D + + V+P + AK I Sbjct 1383 WKGPAKLLWKGEGAVVIQD--NSEIKVVPRRKAKII 1416 >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: 623 to 784 Score:86.3 bits(212), Expect:2e-19, Method:Compositional matrix adjust., Identities:55/163(34%), Positives:85/163(52%), Gaps:13/163(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENI----ILLVWVETNSGLIYAE 53 V QC+ C E P G N RG+ WQ+D TH + L V ++T SG+++A Sbjct 623 VTQCQSCCEF-LPVPHVGINPRGIRPLQVWQMDVTHVSSFGKLQYLHVSIDTCSGIMFAS 681 Query 54 KVKGESGQEFRIKVMH-WYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + GE + W A P L++DNGPA+ ++ Q + + V H TG+P+NPQ Sbjct 682 PLTGEKASHVIQHCLEAWSAWGKPRLLKTDNGPAYTSQKFQQFCRQMDVTHLTGLPYNPQ 741 Query 113 SQAIVERAHQLLKSTLKKFQPQFVAV----ESAIAAALVAINI 151 Q IVERAH+ LK+ L K + + + + +++ AL +N Sbjct 742 GQGIVERAHRTLKTYLIKQKRELEEILPQHQESLSMALFTLNF 784 >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: 541 to 677 Score:86.3 bits(212), Expect:2e-19, Method:Compositional matrix adjust., Identities:52/138(38%), Positives:74/138(53%), Gaps:9/138(6%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENI----ILLVWVETNSGLIYAE 53 V QC+ C E P G N RG+ WQ+D TH + L V ++T SG+++A Sbjct 541 VTQCQSCCEF-LPVPHVGINPRGIRPLQVWQMDVTHVSSFGKLQYLHVSIDTCSGIMFAS 599 Query 54 KVKGESGQEFRIKVMH-WYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + GE + W A P L++DNGPA+ ++ Q + + V H TG+P+NPQ Sbjct 600 PLTGEKASHVIQHCLEAWSAWGKPRLLKTDNGPAYTSQKFQQFCRQMDVTHLTGLPYNPQ 659 Query 113 SQAIVERAHQLLKSTLKK 130 Q IVERAH+ LK+ L K Sbjct 660 GQGIVERAHRTLKAYLIK 677 >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: 1208 to 1415 Score:86.3 bits(212), Expect:2e-19, Method:Compositional matrix adjust., Identities:61/216(28%), Positives:106/216(49%), Gaps:14/216(6%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V SG I AE + E+GQE ++ + + + +DNG Sbjct 1208 WQLDCTHLEGKVILVAVHVASGYIEAEVIPAETGQETAYFLLKLAGRWPVKVVHTDNGSN 1267 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G+K GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1268 FTSAAVKAACWWAGIKQEFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAV 1327 Query 147 VAINIKRKGGLGTSP-----MDIFIYNKEQKRINNKYNKNSQKIQFCYYRIRKRGHQES- 200 N KR+ G+G +DI + + K + Q I+ +R+ R ++ Sbjct 1328 FIHNFKRRRGIGGYSAGERIIDIIATDIQTKELQK------QIIKIQNFRVYYRDSRDPI 1381 Query 201 GKDQPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 K + KG+ +V++D K V+P + K I Sbjct 1382 WKGPAKLLWKGEGAVVIQDKSDIK--VVPRRKVKII 1415 >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: 576 to 749 Score:85.1 bits(209), Expect:4e-19, Method:Compositional matrix adjust., Identities:57/175(33%), Positives:87/175(49%), Gaps:13/175(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGV---NHWQVDYTHYENIILL----VWVETNSGLIYAE 53 V QC+ C E P G N RG+ WQ+D TH + L V V+T SG+++A Sbjct 576 VTQCQNCCEF-LPTPHMGINPRGIRPLQMWQMDVTHIPSFGRLQYVHVSVDTCSGVMFAT 634 Query 54 KVKGESGQEFRIKVMHWYALFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQS 113 + GE + ++ +G +++DNGPA+ ++ + + + V H TG+P+NPQ Sbjct 635 PLTGEKASYVIQHCLEAWSAWGKPRIKTDNGPAYTSQKFRQFCRQMDVTHLTGLPYNPQG 694 Query 114 QAIVERAHQLLKSTLKKFQPQFVAV-----ESAIAAALVAINIKRKGGLGTSPMD 163 Q IVERAH+ LKS L K + V A++ AL +N G + D Sbjct 695 QGIVERAHRTLKSYLIKQKGSIEDVLPSVPRVAVSMALFTLNFLNCDAQGHTAAD 749 >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: 1203 to 1410 Score:84.7 bits(208), Expect:7e-19, Method:Compositional matrix adjust., Identities:62/213(29%), Positives:103/213(48%), Gaps:8/213(3%) Query 27 WQVDYTHYENIILLVWVETNSGLIYAEKVKGESGQEFRIKVMHWYALFGPESLQSDNGPA 86 WQ+D TH E ++LV V S I AE + E+GQE ++ + + + +DNG Sbjct 1203 WQLDCTHLEGKVILVAVHVASEYIEAEVIPAETGQETAYFILKLAGRWPVKIIHTDNGSN 1262 Query 87 FAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLKKFQPQFVAVESAIAAAL 146 F + + + G++ GIP+NPQSQ +VE ++ LK + + + Q +++A+ A+ Sbjct 1263 FTSAAVKASCWWAGIQQEFGIPYNPQSQGVVESINKELKKIIGQVRDQAEHLKTAVQMAV 1322 Query 147 VAINIKRKGGLGTSPMDIFIYNKEQKRINNK-YNKNSQKIQ--FCYYRIRKRGHQESGKD 203 N KRKGG+G I + I + K KIQ YYR K Sbjct 1323 FIHNFKRKGGIGGYSAGERIIDIISTDIQTRELQKQITKIQNFRVYYR---DSRNPVWKG 1379 Query 204 QPRYCGKGKEPIVVKDIESEKYLVIPYKDAKFI 236 + KG+ +V++D + + ++P + AK I Sbjct 1380 PAKLLWKGEGAVVIQD--NSEIKIVPRRKAKII 1410 >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: 1527 to 1710 Score:84.7 bits(208), Expect:8e-19, Method:Compositional matrix adjust., Identities:59/185(32%), Positives:89/185(48%), Gaps:14/185(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGV---NHWQVDYTHYENIILL----VWVETNSGLIYAE 53 V QC C P G N +G+ WQ+D THY L V ++T SG + A Sbjct 1527 VKQCPTCV-TYLPIPHFGVNPKGLVPNMLWQMDVTHYSEFGKLKYVHVSIDTFSGFLVAT 1585 Query 54 KVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 GE+ + ++H +++ G P +++DNGP + + + L +KHT GIP+NPQ Sbjct 1586 LQTGEATKHVIAHLLHCFSIIGQPIHIKTDNGPGYTSSNFRAFCSKLHIKHTFGIPYNPQ 1645 Query 113 SQAIVERAHQLLKSTLKKFQ-----PQFVAVESAIAAALVAINIKRKGGLGTSPMDIFIY 167 Q IVERAH LK+TL+K + P + + + AL +N S D F + Sbjct 1646 GQGIVERAHLSLKNTLEKIKKGEWYPTQGSPRNILNHALFILNFLNLDAQNKSAADRFWH 1705 Query 168 NKEQK 172 +K Sbjct 1706 TSSKK 1710 >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: 1175 to 1335 Score:82.0 bits(201), Expect:5e-18, Method:Composition-based stats., Identities:53/162(33%), Positives:86/162(53%), Gaps:13/162(8%) Query 1 VNQCEICK----EARTP-AVIRGGNKRGVNHWQVDYTHYE----NIILLVWVETNSGLIY 51 V C CK + R P IR G+ V WQ D TH LLVWV+T SG++ Sbjct 1175 VQACHTCKVINPQGRLPQGYIRRGHAPNVI-WQGDVTHLHYKRYKYCLLVWVDTYSGVVS 1233 Query 52 AEKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWN 110 + E+G + + ++ ++ G P S+ +DNG A+ ++ Q L +KH+T +P+N Sbjct 1234 VSCRRKETGSDCVVSLLAAISILGKPHSINTDNGTAYLSQEFQQFCSSLSIKHSTHVPYN 1293 Query 111 PQSQAIVERAHQLLKSTLKKF--QPQFVAVESAIAAALVAIN 150 P S +VER + +LK+ + K+ + +E+AI+ +L IN Sbjct 1294 PTSSGLVERTNGILKTLISKYLLDNHHLPLETAISKSLWTIN 1335 >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: 1197 to 1357 Score:79.3 bits(194), Expect:4e-17, Method:Composition-based stats., Identities:55/162(34%), Positives:92/162(56%), Gaps:13/162(8%) Query 1 VNQCEICKEARTPAVI-RGGNKRGV--NH-WQVDYTH--YENII--LLVWVETNSGLIYA 52 + C C++ + RG +RG+ NH WQ D TH Y+N + L VWV+T SG I A Sbjct 1197 LRSCHACRKNNPQHQMPRGHIRRGLLPNHIWQGDITHFKYKNTLYRLHVWVDTFSGAISA 1256 Query 53 EKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNP 111 + + E+ E ++ A G P + +DNGPA+ ++ + L ++HTT +P+NP Sbjct 1257 TQKRKETSSEAISSLLQAIAQLGKPSYINTDNGPAYISQDFLSMCTSLAIRHTTHVPYNP 1316 Query 112 QSQAIVERAHQLLKSTLKKF---QPQFVAVESAIAAALVAIN 150 S +VER++ +LK+ L K+ +P + +++A++ AL IN Sbjct 1317 TSSGLVERSNGILKTLLYKYFTDRPD-LPMDNALSIALWTIN 1357 >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: 1214 to 1357 Score:79.0 bits(193), Expect:6e-17, Method:Composition-based stats., Identities:53/145(37%), Positives:86/145(59%), Gaps:12/145(8%) Query 17 RGGNKRGV--NH-WQVDYTH--YENII--LLVWVETNSGLIYAEKVKGESGQEFRIKVMH 69 RG +RG+ NH WQ D TH Y+N + L VWV+T SG I A + + E+ E ++ Sbjct 1214 RGHIRRGLLPNHIWQGDITHFKYKNTLYRLHVWVDTFSGAISATQKRKETSSEAISSLLQ 1273 Query 70 WYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTL 128 A G P + +DNGPA+ ++ + L ++HTT +P+NP S +VER++ +LK+ L Sbjct 1274 AIAHLGKPSYINTDNGPAYISQDFLNMCTSLAIRHTTHVPYNPTSSGLVERSNGILKTLL 1333 Query 129 KKF---QPQFVAVESAIAAALVAIN 150 K+ +P + +++A++ AL IN Sbjct 1334 YKYFTDKPD-LPMDNALSIALWTIN 1357 >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: 1175 to 1335 Score:78.2 bits(191), Expect:1e-16, Method:Composition-based stats., Identities:51/162(31%), Positives:86/162(53%), Gaps:13/162(8%) Query 1 VNQCEICK----EARTP-AVIRGGNKRGVNHWQVDYTHYE----NIILLVWVETNSGLIY 51 V C CK + R P IR G+ + WQ D TH + LLVWV+T SG + Sbjct 1175 VQACHTCKVINPQGRLPQGYIRRGHAPN-DIWQGDVTHLQYKRYKYCLLVWVDTYSGAVS 1233 Query 52 AEKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWN 110 + E+G + ++ ++ G P+++ +DNG A+ ++ Q L +KH+T IP+N Sbjct 1234 VSCRRKETGSDCVASLLVAISILGKPQNINTDNGAAYLSQEFQQFCNSLAIKHSTHIPYN 1293 Query 111 PQSQAIVERAHQLLKSTLKKF--QPQFVAVESAIAAALVAIN 150 P S +VER + +LK+ + K+ + +E+A++ +L IN Sbjct 1294 PTSSGLVERTNGILKTLISKYLLDNHHLPLETAVSKSLWTIN 1335 >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: 1197 to 1357 Score:78.2 bits(191), Expect:1e-16, Method:Composition-based stats., Identities:54/162(33%), Positives:92/162(56%), Gaps:13/162(8%) Query 1 VNQCEICKEARTPAVIRGGN-KRGV--NH-WQVDYTH--YENII--LLVWVETNSGLIYA 52 + C C++ + G+ +RG+ NH WQ D TH Y+N + L VWV+T SG I A Sbjct 1197 LRSCHACRKNNPQHQMPQGHIRRGLLPNHIWQGDITHFKYKNTLYRLHVWVDTFSGAISA 1256 Query 53 EKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNP 111 + + E+ E ++ A G P + +DNGPA+ ++ + L ++HTT +P+NP Sbjct 1257 TQKRKETSSEAISSLLQAIAYLGKPSYINTDNGPAYISQDFLNMCTSLAIRHTTHVPYNP 1316 Query 112 QSQAIVERAHQLLKSTLKKF---QPQFVAVESAIAAALVAIN 150 S +VER++ +LK+ L K+ +P + +++A++ AL IN Sbjct 1317 TSSGLVERSNGILKTLLYKYFTDKPD-LPMDNALSIALWTIN 1357 >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: 1470 to 1628 Score:78.2 bits(191), Expect:1e-16, Method:Compositional matrix adjust., Identities:53/161(33%), Positives:79/161(49%), Gaps:13/161(8%) Query 1 VNQCEICKE-ARTPAVIRGGNKRGVNH---WQVDYTHYENIILL----VWVETNSGLIYA 52 V C C + P + G N RG+ WQ+D TH L V V+T S +A Sbjct 1470 VKLCPNCPDWGHAPQL--GVNPRGLKPRVLWQMDVTHVSEFGKLKYVHVTVDTYSHFTFA 1527 Query 53 EKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNP 111 GE+ ++ + +A G P+ +++DN PA+ + Q + + H TGIP+NP Sbjct 1528 TARTGEATKDVLQHLAQSFAYMGFPQKIKTDNAPAYVSRSIQEFLARWKISHVTGIPYNP 1587 Query 112 QSQAIVERAHQLLKSTLKKFQP--QFVAVESAIAAALVAIN 150 Q QAIVER HQ +K+ L K Q ++ +A AL +N Sbjct 1588 QGQAIVERTHQNIKAQLNKLQKAGKYYTPHHLLAHALFVLN 1628 >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: 1470 to 1628 Score:78.2 bits(191), Expect:1e-16, Method:Compositional matrix adjust., Identities:53/161(33%), Positives:79/161(49%), Gaps:13/161(8%) Query 1 VNQCEICKE-ARTPAVIRGGNKRGVNH---WQVDYTHYENIILL----VWVETNSGLIYA 52 V C C + P + G N RG+ WQ+D TH L V V+T S +A Sbjct 1470 VKLCPNCPDWGHAPQL--GVNPRGLKPRVLWQMDVTHVSEFGKLKYVHVTVDTYSHFTFA 1527 Query 53 EKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNP 111 GE+ ++ + +A G P+ +++DN PA+ + Q + + H TGIP+NP Sbjct 1528 TARTGEATKDVLQHLAQSFAYMGIPQKIKTDNAPAYVSRSIQEFLARWKISHVTGIPYNP 1587 Query 112 QSQAIVERAHQLLKSTLKKFQP--QFVAVESAIAAALVAIN 150 Q QAIVER HQ +K+ L K Q ++ +A AL +N Sbjct 1588 QGQAIVERTHQNIKAQLNKLQKAGKYYTPHHLLAHALFVLN 1628 >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: 1496 to 1616 Score:73.2 bits(178), Expect:6e-15, Method:Compositional matrix adjust., Identities:46/121(38%), Positives:64/121(52%), Gaps:8/121(6%) Query 18 GGNKRGV--NH-WQVDYTHYENIILL----VWVETNSGLIYAEKVKGESGQEFRIKVMHW 70 G N RG+ NH WQ D TH L V ++T S + A GES + ++ Sbjct 1496 GVNPRGLRPNHLWQTDVTHIPQFGRLKYVHVSIDTFSNFLMASLHTGESTRHCIQHLLFC 1555 Query 71 YALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAHQLLKSTLK 129 ++ G P++L++DNGP + + Q + H TGIP+NPQ Q IVERAHQ +K L Sbjct 1556 FSTSGIPQTLKTDNGPGYTSRSFQRFCLSFQIHHKTGIPYNPQGQGIVERAHQRIKHQLL 1615 Query 130 K 130 K Sbjct 1616 K 1616 >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: 1196 to 1356 Score:71.6 bits(174), Expect:2e-14, Method:Composition-based stats., Identities:56/162(35%), Positives:85/162(52%), Gaps:13/162(8%) Query 1 VNQCEICKEARTPAVI-RGGNKRGV--NH-WQVDYTHYENI----ILLVWVETNSGLIYA 52 V C C+ + + RG +RG+ NH WQ D THY+ L VWV+T SG + Sbjct 1196 VQTCHTCQTINSQHHMPRGYIRRGLLPNHIWQGDVTHYKYKKYKYCLHVWVDTFSGAVSV 1255 Query 53 EKVKGESGQEFRIKVMHWYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNP 111 K E+ E V+ +L G P + +DNGPAF ++ Q +KH+T IP+NP Sbjct 1256 SCKKKETSCETISAVLQAISLLGKPLHINTDNGPAFLSQEFQEFCTSYRIKHSTHIPYNP 1315 Query 112 QSQAIVERAHQLLKSTLKKFQ---PQFVAVESAIAAALVAIN 150 S +VER + ++K+ L K+ P + +++AI AL +N Sbjct 1316 TSSGLVERTNGVIKNLLNKYLLDCPN-LPLDNAIHKALWTLN 1356 >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: 1314 to 1448 Score:71.6 bits(174), Expect:2e-14, Method:Composition-based stats., Identities:45/137(33%), Positives:70/137(51%), Gaps:10/137(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENIILLVWVETNSGLIYAEKVKG 57 V C C A PA+ G N RG+ WQ D+T + W+ + V Sbjct 1314 VQTCPHCNSA--PALEAGVNPRGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVT 1371 Query 58 ESGQEFRIKVMHWYA-----LFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + G+ + V H +A L P+++++DNG F ++ T+ + G+ HTTGIP N Q Sbjct 1372 QHGRVTSVAVQHHWATAIAVLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQ 1431 Query 113 SQAIVERAHQLLKSTLK 129 QA+VERA++LLK ++ Sbjct 1432 GQAMVERANRLLKDRIR 1448 >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: 1314 to 1448 Score:70.5 bits(171), Expect:5e-14, Method:Composition-based stats., Identities:44/137(32%), Positives:69/137(50%), Gaps:10/137(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENIILLVWVETNSGLIYAEKVKG 57 V C C A PA+ G N RG+ WQ D+T + W+ + V Sbjct 1314 VQTCPHCNSA--PALEAGVNPRGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVT 1371 Query 58 ESGQEFRIKVMHWYA-----LFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + G+ + H +A L P+++++DNG F ++ T+ + G+ HTTGIP N Q Sbjct 1372 QHGRVTSVAAQHHWATAIAVLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQ 1431 Query 113 SQAIVERAHQLLKSTLK 129 QA+VERA++LLK ++ Sbjct 1432 GQAMVERANRLLKDKIR 1448 >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: 1314 to 1448 Score:70.5 bits(171), Expect:6e-14, Method:Composition-based stats., Identities:44/137(32%), Positives:69/137(50%), Gaps:10/137(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENIILLVWVETNSGLIYAEKVKG 57 V C C A PA+ G N RG+ WQ D+T + W+ + V Sbjct 1314 VQTCPHCNSA--PALEAGVNPRGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVT 1371 Query 58 ESGQEFRIKVMHWYA-----LFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + G+ + H +A L P+++++DNG F ++ T+ + G+ HTTGIP N Q Sbjct 1372 QHGRVTSVAAQHHWATAIAVLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQ 1431 Query 113 SQAIVERAHQLLKSTLK 129 QA+VERA++LLK ++ Sbjct 1432 GQAMVERANRLLKDKIR 1448 >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: 1314 to 1448 Score:70.1 bits(170), Expect:6e-14, Method:Composition-based stats., Identities:44/137(32%), Positives:69/137(50%), Gaps:10/137(7%) Query 1 VNQCEICKEARTPAVIRGGNKRGVNH---WQVDYTHYENIILLVWVETNSGLIYAEKVKG 57 V C C A PA+ G N RG+ WQ D+T + W+ + V Sbjct 1314 VQTCPHCNSA--PALEAGVNPRGLGPLQIWQTDFTLEPRMAPRSWLAVTVDTASSAIVVT 1371 Query 58 ESGQEFRIKVMHWYA-----LFGPESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQ 112 + G+ + H +A L P+++++DNG F ++ T+ + G+ HTTGIP N Q Sbjct 1372 QHGRVTSVAAQHHWATAIAVLGRPKAIKTDNGSCFTSKSTREWLARWGIAHTTGIPGNSQ 1431 Query 113 SQAIVERAHQLLKSTLK 129 QA+VERA++LLK ++ Sbjct 1432 GQAMVERANRLLKDKIR 1448 >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: 1432 to 1561 Score:67.0 bits(162), Expect:8e-13, Method:Composition-based stats., Identities:46/130(35%), Positives:69/130(53%), Gaps:7/130(5%) Query 9 EARTPAVIRGGNKRGVNHWQVDYTH-----YENIILLVWVETNSGLIYAEKVKGESGQEF 63 +A+ A +R R HW+VD+T Y LLV+V+T SG + A K E+ + Sbjct 1432 KAKIGAGVRVRGHRPGTHWEVDFTEVKPGLYGYKYLLVFVDTFSGWVEAFPTKRETAKVV 1491 Query 64 RIKVMH-WYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 K++ + FG P+ L SDNGPAFA++ +Q + LG+ + PQS VER + Sbjct 1492 SKKLLEDIFPRFGMPQVLGSDNGPAFASQVSQSVADLLGIDWKLHCAYRPQSSGQVERMN 1551 Query 122 QLLKSTLKKF 131 + +K TL K Sbjct 1552 RTIKETLTKL 1561 >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: 1432 to 1561 Score:67.0 bits(162), Expect:8e-13, Method:Composition-based stats., Identities:46/130(35%), Positives:69/130(53%), Gaps:7/130(5%) Query 9 EARTPAVIRGGNKRGVNHWQVDYTH-----YENIILLVWVETNSGLIYAEKVKGESGQEF 63 +A+ A +R R HW+VD+T Y LLV+V+T SG + A K E+ + Sbjct 1432 KAKIGAGVRVRGHRPGTHWEVDFTEVKPGLYGYKYLLVFVDTFSGWVEAFPTKRETAKVV 1491 Query 64 RIKVMH-WYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 K++ + FG P+ L SDNGPAFA++ +Q + LG+ + PQS VER + Sbjct 1492 SKKLLEDIFPRFGMPQVLGSDNGPAFASQVSQSVADLLGIDWKLHCAYRPQSSGQVERMN 1551 Query 122 QLLKSTLKKF 131 + +K TL K Sbjct 1552 RTIKETLTKL 1561 >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: 1432 to 1561 Score:66.6 bits(161), Expect:9e-13, Method:Composition-based stats., Identities:46/130(35%), Positives:69/130(53%), Gaps:7/130(5%) Query 9 EARTPAVIRGGNKRGVNHWQVDYTH-----YENIILLVWVETNSGLIYAEKVKGESGQEF 63 +A+ A +R R HW+VD+T Y LLV+V+T SG + A K E+ + Sbjct 1432 KAKIGAGVRVRGHRPGTHWEVDFTEVKPGLYGYKYLLVFVDTFSGWVEAFPTKRETAKVV 1491 Query 64 RIKVMH-WYALFG-PESLQSDNGPAFAAEPTQLLMQYLGVKHTTGIPWNPQSQAIVERAH 121 K++ + FG P+ L SDNGPAFA++ +Q + LG+ + PQS VER + Sbjct 1492 TKKLLEDIFPRFGMPQVLGSDNGPAFASQVSQSVADLLGIDWKLHCAYRPQSSGQVERMN 1551 Query 122 QLLKSTLKKF 131 + +K TL K Sbjct 1552 RTIKETLTKL 1561