BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy17038
(399 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q77373|POL_HV1AN Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group O
(isolate ANT70) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 41.2 bits (95), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 34/62 (54%), Gaps = 5/62 (8%)
Query: 7 NSSKDSLSALQSI--QNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDR 64
N DS AL I Q S +PI Q+I L K + + + TWVP+H GI GNE+ D+
Sbjct: 1080 NIVTDSQYALGVISSQPTQSESPIVQQIIEELTKKEQV---YLTWVPAHKGIGGNEKIDK 1136
Query: 65 LA 66
L
Sbjct: 1137 LV 1138
>sp|Q79666|POL_HV1MV Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group O
(isolate MVP5180) GN=gag-pol PE=3 SV=3
Length = 1446
Score = 39.3 bits (90), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 18 SIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRL 65
S Q S +PI Q+I L K + + + TWVP+H GI GNE+ D+L
Sbjct: 1095 SSQPTQSDSPIVQQIIEELTKKERV---YLTWVPAHKGIGGNEKIDKL 1139
>sp|P05895|POL_SIVVT Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM TYO-1) GN=gag-pol PE=3 SV=2
Length = 1467
Score = 39.3 bits (90), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
S +P+ ++I ++++ + I + WVP+H GI GNEE D+L + +
Sbjct: 1129 SDSPLVEQIIALMIQKQQI---YLQWVPAHKGIGGNEEIDKLVSKGI 1172
>sp|P05959|POL_HV1RH Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate RF/HAT3) GN=gag-pol PE=1 SV=3
Length = 1436
Score = 39.3 bits (90), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ DRL
Sbjct: 1087 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDRLVST 1142
Query: 69 AL 70
+
Sbjct: 1143 GI 1144
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 38.9 bits (89), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 34/58 (58%), Gaps = 4/58 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLA 66
S+ + LQ + ++ S +PI ++I L + +++ WVP+H GI GNEE D+L
Sbjct: 1113 SQYVMGVLQGLPDQ-SDSPIVEQIIQKLTQKT---AIYLAWVPAHKGIGGNEEVDKLV 1166
>sp|P18802|POL_HV1ND Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate NDK) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 38.9 bits (89), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L +
Sbjct: 1083 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSQ 1138
Query: 69 AL 70
+
Sbjct: 1139 GI 1140
>sp|P12499|POL_HV1Z2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate Z2/CDC-Z34) GN=gag-pol PE=1 SV=3
Length = 1436
Score = 38.9 bits (89), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L +
Sbjct: 1087 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSQ 1142
Query: 69 AL 70
+
Sbjct: 1143 GI 1144
>sp|P20892|POL_HV1OY Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate OYI) GN=gag-pol PE=3 SV=3
Length = 1434
Score = 37.7 bits (86), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1085 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1140
Query: 69 AL 70
+
Sbjct: 1141 GI 1142
>sp|P05961|POL_HV1MN Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate MN) GN=gag-pol PE=1 SV=3
Length = 1441
Score = 37.7 bits (86), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1092 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1147
Query: 69 AL 70
+
Sbjct: 1148 GI 1149
>sp|Q73368|POL_HV1B9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (strain 89.6) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 37.7 bits (86), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|P03369|POL_HV1A2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate ARV2/SF2) GN=gag-pol PE=1 SV=3
Length = 1437
Score = 37.7 bits (86), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1088 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1143
Query: 69 AL 70
+
Sbjct: 1144 GI 1145
>sp|P04588|POL_HV1MA Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate MAL) GN=gag-pol PE=1 SV=3
Length = 1440
Score = 37.7 bits (86), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K+K ++ +WVP+H GI GNE+ D+L
Sbjct: 1091 SQYALGIIQAQPDKSESEIVNQIIEQLIQKDK----VYLSWVPAHKGIGGNEQVDKLVSS 1146
Query: 69 AL 70
+
Sbjct: 1147 GI 1148
>sp|P20875|POL_HV1JR Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate JRCSF) GN=gag-pol PE=1 SV=3
Length = 1439
Score = 37.7 bits (86), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1090 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1145
Query: 69 AL 70
+
Sbjct: 1146 GI 1147
>sp|Q02836|POL_SIVG1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.grivet
(isolate AGM gr-1) GN=gag-pol PE=3 SV=2
Length = 1472
Score = 37.4 bits (85), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
S++P+ ++I L+K + + + WVP+H GI GN E D+L + +
Sbjct: 1122 SNSPLVEQIIQALMKKRQV---YLQWVPAHKGIGGNTEIDKLVSKGI 1165
>sp|P35963|POL_HV1Y2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate YU-2) GN=gag-pol PE=1 SV=3
Length = 1435
Score = 37.4 bits (85), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ + S ++Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDRSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|P04589|POL_HV1EL Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate ELI) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 37.4 bits (85), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L +
Sbjct: 1086 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSQ 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|Q1A267|POL_SIVMB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate MB66)
GN=gag-pol PE=3 SV=4
Length = 1438
Score = 37.4 bits (85), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 5/66 (7%)
Query: 7 NSSKDSLSALQSIQNE--FSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDR 64
N DS AL IQ + S + I +I L+K + + + +WVP+H GI GNE+ D+
Sbjct: 1080 NIVTDSQYALGIIQGQPDTSESEIVNQIIEELIKKEKV---YLSWVPAHKGIGGNEQIDK 1136
Query: 65 LAKEAL 70
L +
Sbjct: 1137 LVSSGI 1142
>sp|Q9Q720|POL_HV1V9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype H (isolate VI991) GN=gag-pol PE=3 SV=3
Length = 1436
Score = 37.0 bits (84), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K LS WVP+H GI GNE+ D+L
Sbjct: 1087 SQYALGIIQAQPDKSESELVNQIIEELIKKEKFYLS----WVPAHKGIGGNEQVDKLVSS 1142
Query: 69 AL 70
+
Sbjct: 1143 GI 1144
>sp|O41798|POL_HV19N Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate 92NG083) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 37.0 bits (84), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ + S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDRSGSELVNQIIEQLIKKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|O89290|POL_HV193 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate 93BR020) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 37.0 bits (84), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1081 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLSWVPAHKGIGGNEQVDKLVSA 1136
Query: 69 AL 70
+
Sbjct: 1137 GI 1138
>sp|P04585|POL_HV1H2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate HXB2) GN=gag-pol PE=1 SV=4
Length = 1435
Score = 37.0 bits (84), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDQSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|Q9QBZ5|POL_HV1MP Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP255) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 37.0 bits (84), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1081 SQYALGIIQAQPDKSESELVNQIIEQLIQKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1136
Query: 69 AL 70
+
Sbjct: 1137 GI 1138
>sp|Q9QBY3|POL_HV196 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 96CM-MP535) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 37.0 bits (84), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S+ + Q I ++ K + ++ +WVP+H GI GNE+ D+L
Sbjct: 1081 SQYALGIIQAQPDKSESDLVNQIIEQLIKKER----IYLSWVPAHKGIGGNEQVDKLVSA 1136
Query: 69 AL 70
+
Sbjct: 1137 GI 1138
>sp|Q9WC54|POL_HV1S2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9280) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 37.0 bits (84), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1083 SQYALGIIQAQPDKSESELVNQIIEELIKKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1138
Query: 69 AL 70
+
Sbjct: 1139 GI 1140
>sp|Q9WC63|POL_HV1S9 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype J (isolate SE9173) GN=gag-pol PE=3 SV=3
Length = 1432
Score = 37.0 bits (84), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1083 SQYALGIIQAQPDKSESELVNQIIEELIKKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1138
Query: 69 AL 70
+
Sbjct: 1139 GI 1140
>sp|P27973|POL_SIVV1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM155) GN=gag-pol PE=3 SV=2
Length = 1470
Score = 37.0 bits (84), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 30/47 (63%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
S +P+ ++I +V+ + +++ WVP+H GI GNEE D+L + +
Sbjct: 1126 SDSPLVEQIIAQMVQKE---AIYLQWVPAHKGIGGNEEIDKLVSKGV 1169
>sp|Q9QBZ9|POL_HV197 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 97ZR-EQTB11) GN=gag-pol PE=3 SV=2
Length = 1429
Score = 36.6 bits (83), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K++ ++ +WVP+H GI GNE+ D+L
Sbjct: 1081 SQYALGIIQAQPDKSESELVNQIIEQLIKKDR----VYLSWVPAHKGIGGNEQVDKLVSS 1136
Query: 69 AL 70
+
Sbjct: 1137 GI 1138
>sp|P0C6F2|POL_HV1LW Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate LW123) GN=gag-pol PE=1 SV=1
Length = 1435
Score = 36.6 bits (83), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|P03367|POL_HV1BR Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BRU/LAI) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.6 bits (83), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1098 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1153
Query: 69 AL 70
+
Sbjct: 1154 GI 1155
>sp|P03366|POL_HV1B1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH10) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.6 bits (83), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1098 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1153
Query: 69 AL 70
+
Sbjct: 1154 GI 1155
>sp|P04587|POL_HV1B5 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH5) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.6 bits (83), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ WVP+H GI GNE+ D+L
Sbjct: 1098 SQYALGIIQAQPDKSESELVNQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDKLVSA 1153
Query: 69 AL 70
+
Sbjct: 1154 GI 1155
>sp|O93215|POL_HV190 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype H (isolate 90CF056) GN=gag-pol PE=3 SV=4
Length = 1435
Score = 36.6 bits (83), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1086 SQYALGIIQAQPDKSESELVNQIIEELIKKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1141
Query: 69 AL 70
+
Sbjct: 1142 GV 1143
>sp|P24740|POL_HV1U4 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate U455) GN=gag-pol PE=1 SV=3
Length = 1428
Score = 36.6 bits (83), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ + S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1079 SQYALGIIQAQPDRSESEIVNQIIEKLIEKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1134
Query: 69 AL 70
+
Sbjct: 1135 GI 1136
>sp|P12497|POL_HV1N5 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate NY5) GN=gag-pol PE=1 SV=4
Length = 1435
Score = 36.6 bits (83), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S ++Q I ++ K K ++ WVP+H GI GNE+ D L
Sbjct: 1086 SQYALGIIQAQPDKSESELVSQIIEQLIKKEK----VYLAWVPAHKGIGGNEQVDGLVSA 1141
Query: 69 AL 70
+
Sbjct: 1142 GI 1143
>sp|P17283|POL_SIVCZ Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate CPZ
GAB1) GN=gag-pol PE=3 SV=2
Length = 1384
Score = 36.2 bits (82), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ L +QS + S + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1035 SQYVLGIIQSQPDHSESELVNQIIEELIKKEK----IYLSWVPAHKGIGGNEQVDKLVSA 1090
Query: 69 AL 70
+
Sbjct: 1091 GI 1092
>sp|O12158|POL_HV192 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate 92BR025) GN=gag-pol PE=1 SV=2
Length = 1431
Score = 35.8 bits (81), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K + ++ +WVP+H GI GNE+ D+L
Sbjct: 1082 SQYALGIIQAQPDKSESELVNQIIEQLIKKER----VYLSWVPAHKGIGGNEQVDKLVSS 1137
Query: 69 AL 70
+
Sbjct: 1138 GI 1139
>sp|Q89928|POL_HV2EH Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate EHO) GN=gag-pol PE=3 SV=3
Length = 1464
Score = 35.8 bits (81), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
+ +PI +EI ++K + I + WVP+H G+ GN+E D L + +
Sbjct: 1121 TESPIVREIIEEMIKKEKI---YVGWVPAHKGLGGNQEVDHLVSQGI 1164
>sp|P19560|POL_BIV29 Gag-Pol polyprotein OS=Bovine immunodeficiency virus (strain R29)
GN=gag-pol PE=1 SV=2
Length = 1475
Score = 35.8 bits (81), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 7 NSSKDSLSALQSIQNE---FSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESD 63
N DS A + ++ E ++ I EI IL +++ WVP+H GI GN E+D
Sbjct: 1055 NIITDSRYAYEGMREEPETWAREGIWLEIAKILPFKQYV---GVGWVPAHKGIGGNTEAD 1111
Query: 64 RLAKEALSSNSPS 76
K+AL +P
Sbjct: 1112 EGVKKALEQMAPC 1124
>sp|Q9QBZ1|POL_HV1M2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP257) GN=gag-pol PE=3 SV=3
Length = 1434
Score = 35.8 bits (81), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K + ++ +WVP+H GI GNE+ D+L
Sbjct: 1085 SQYALGIIQAHPDKSESEIVNQIIEQLIQKER----VYLSWVPAHKGIGGNEQVDKLVST 1140
Query: 69 AL 70
+
Sbjct: 1141 GI 1142
>sp|Q9QSR3|POL_HV1VI Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate VI850) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 35.8 bits (81), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ ++ S + Q I ++ K + ++ +WVP+H GI GNE+ D+L
Sbjct: 1081 SQYALGIIQAQPDKSESEIVNQIIEQLIQKER----VYLSWVPAHKGIGGNEQVDKLVSA 1136
Query: 69 AL 70
+
Sbjct: 1137 GV 1138
>sp|O89940|POL_HV1SE Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate SE6165) GN=gag-pol PE=3 SV=3
Length = 1433
Score = 35.8 bits (81), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 34/62 (54%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ +L +Q+ + + + Q I ++ K K ++ +WVP+H GI GNE+ D+L
Sbjct: 1084 SQYALGIIQAQPDRSEAELVNQIIEQLIKKEK----VYLSWVPAHKGIGGNEQVDKLVSS 1139
Query: 69 AL 70
+
Sbjct: 1140 GI 1141
>sp|P35956|POL_VILVK Pol polyprotein OS=Maedi visna virus (strain KV1772) GN=pol PE=1
SV=1
Length = 1101
Score = 35.4 bits (80), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 16 LQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
L++ E NPI I LV NK + +H WVP H GI NEE DR E
Sbjct: 636 LRNWDEEVIRNPIQARIME-LVHNKEKIGVH--WVPGHKGIPQNEEIDRYISEIF 687
>sp|P03370|POL_VILV Pol polyprotein OS=Maedi visna virus (strain 1514) GN=pol PE=3 SV=1
Length = 1105
Score = 35.4 bits (80), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 16 LQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
L++ E NPI I LV NK + +H WVP H GI NEE DR E
Sbjct: 640 LRNWDEEVIRNPIQARIME-LVHNKEKIGVH--WVPGHKGIPQNEEIDRYISEIF 691
>sp|P23427|POL_VILV2 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS2)
GN=pol PE=3 SV=1
Length = 1105
Score = 35.4 bits (80), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 16 LQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
L++ E NPI I LV NK + +H WVP H GI NEE DR E
Sbjct: 640 LRNWDEEVIRNPIQARIME-LVHNKEKIGVH--WVPGHKGIPQNEEIDRYISEIF 691
>sp|P27980|POL_SIVVG Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM3) GN=gag-pol PE=3 SV=2
Length = 1465
Score = 35.4 bits (80), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 28/47 (59%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
S +P+ ++I ++V+ I + WVP+ GI GNEE D+L + +
Sbjct: 1127 SDSPLIEQIIALMVQKHQI---YLQWVPADKGIGGNEEIDKLVSQGM 1170
>sp|O91080|POL_HV1YF Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group N
(isolate YBF30) GN=gag-pol PE=3 SV=3
Length = 1449
Score = 35.4 bits (80), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 35/62 (56%), Gaps = 4/62 (6%)
Query: 9 SKDSLSALQSIQNEFSSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKE 68
S+ ++ + S ++ S ++Q I ++ K + ++ +WVP+H GI GNE+ D+L
Sbjct: 1096 SQYAMGIIHSQPDKSESELVSQIIEELIKKER----VYLSWVPAHKGIGGNEQVDKLVSS 1151
Query: 69 AL 70
+
Sbjct: 1152 GI 1153
>sp|P22382|POL_SIVGB Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate GB1)
GN=gag-pol PE=3 SV=2
Length = 1441
Score = 35.4 bits (80), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 29/47 (61%), Gaps = 3/47 (6%)
Query: 24 SSNPIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAKEAL 70
+ +PI +EI L+K K ++ +W+P+H GI GNE+ D+L +
Sbjct: 1109 TDHPIVKEIIE-LMKGKE--KIYLSWLPAHKGIGGNEQIDKLVSSGI 1152
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 35.4 bits (80), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 27 PIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAK 67
PI Q IR K I+ +F WVP H GI GN+ +D AK
Sbjct: 703 PIIQNIRE-----KEIV--YFAWVPGHKGICGNQLADEAAK 736
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 35.4 bits (80), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 7/41 (17%)
Query: 27 PIAQEIRNILVKNKHILSLHFTWVPSHVGIVGNEESDRLAK 67
PI Q IR K I+ +F WVP H GI GN+ +D AK
Sbjct: 703 PIIQNIRE-----KEIV--YFAWVPGHKGICGNQLADEAAK 736
>sp|O70338|RNH1_MOUSE Ribonuclease H1 OS=Mus musculus GN=Rnaseh1 PE=2 SV=1
Length = 285
Score = 35.4 bits (80), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 43 LSLHFTWVPSHVGIVGNEESDRLAKEA 69
+ + + +P H G VGNEE+DRLA+E
Sbjct: 253 MDIQWMHIPGHSGFVGNEEADRLAREG 279
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.313 0.131 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 147,605,133
Number of Sequences: 539616
Number of extensions: 6279125
Number of successful extensions: 15802
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 108
Number of HSP's that attempted gapping in prelim test: 15733
Number of HSP's gapped (non-prelim): 179
length of query: 399
length of database: 191,569,459
effective HSP length: 120
effective length of query: 279
effective length of database: 126,815,539
effective search space: 35381535381
effective search space used: 35381535381
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 62 (28.5 bits)