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= psy16967
(282 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 = 47.0 bits (110), Expect = 1e-04, Method: Composition-based stats.
Identities = 29/79 (36%), Positives = 44/79 (55%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AELMAILL LQ+ K + +VTDS +L I+S+ + S I ++ + ++
Sbjct: 1063 AELMAILLALQDSKETVN----IVTDSQYALGVISSQPTQSE--SPIVQQIIEELTKKEQ 1116
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE +D
Sbjct: 1117 VYLTWVPAHKGIGGNEKID 1135
>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 = 43.1 bits (100), Expect = 0.002, Method: Composition-based stats.
Identities = 27/79 (34%), Positives = 42/79 (53%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AELMA+L+ LQ+ K + +VTDS L I+S+ + S I ++ + +
Sbjct: 1065 AELMAVLIALQDSK----EQVNIVTDSQYVLGIISSQPTQSD--SPIVQQIIEELTKKER 1118
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE +D
Sbjct: 1119 VYLTWVPAHKGIGGNEKID 1137
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 42.4 bits (98), Expect = 0.004, Method: Composition-based stats.
Identities = 40/124 (32%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 116 ILCFTDGSKTENSTSCAY-TINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
I +TDG K AY T N RL V AE MAI + L++ + +
Sbjct: 621 ITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVN 676
Query: 175 LVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE---ISFMWCPSHCGISGNEAVD 231
+VTDS + IT L S W ++ +E + F W P H GI GN+ D
Sbjct: 677 IVTDSYYCWKNITE----GLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGNQLAD 732
Query: 232 VAAK 235
AAK
Sbjct: 733 EAAK 736
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 42.4 bits (98), Expect = 0.004, Method: Composition-based stats.
Identities = 40/124 (32%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 116 ILCFTDGSKTENSTSCAY-TINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
I +TDG K AY T N RL V AE MAI + L++ + +
Sbjct: 621 ITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVN 676
Query: 175 LVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE---ISFMWCPSHCGISGNEAVD 231
+VTDS + IT L S W ++ +E + F W P H GI GN+ D
Sbjct: 677 IVTDSYYCWKNITE----GLGLEGPQSPWWPIIQNIREKEIVYFAWVPGHKGICGNQLAD 732
Query: 232 VAAK 235
AAK
Sbjct: 733 EAAK 736
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 40.8 bits (94), Expect = 0.012, Method: Composition-based stats.
Identities = 39/124 (31%), Positives = 53/124 (42%), Gaps = 12/124 (9%)
Query: 116 ILCFTDGSKTENSTSCAY-TINKNVNSFRLNVVNSVFSAELMAILLCLQNLKYLPSTKFL 174
I +TDG K AY T N RL V AE MAI + L++ + +
Sbjct: 620 ITIYTDGGKQNGEGIAAYVTSNGRTKQKRLGPVTHQV-AERMAIQMALEDTR---DKQVN 675
Query: 175 LVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE---ISFMWCPSHCGISGNEAVD 231
+VTDS + IT L + W ++ +E + F W P H GI GN+ D
Sbjct: 676 IVTDSYYCWKNITE----GLGLEGPQNPWWPIIQNIREKEIVYFAWVPGHKGIYGNQLAD 731
Query: 232 VAAK 235
AAK
Sbjct: 732 EAAK 735
>sp|A8FUS8|RNH_SHESH Ribonuclease H OS=Shewanella sediminis (strain HAW-EB3) GN=rnhA
PE=3 SV=1
Length = 156
Score = 40.4 bits (93), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 38/140 (27%), Positives = 54/140 (38%), Gaps = 18/140 (12%)
Query: 119 FTDGSKTENSTSCAYTINKNVNSFRLNVVNSVF-----SAELMAILLCLQNLKYLPSTKF 173
FTDGS N Y + + + EL+A ++ L+ LK +P K
Sbjct: 10 FTDGSCLGNPGPGGYGVVMKYKQHTKEIADGFLLTTNNRMELLAPIIALEALK-VPC-KI 67
Query: 174 LLVTDSMSSLQAITSKSCNNALLSKIYST---------W--LDLVACGKEISFMWCPSHC 222
+L +DS Q IT I S+ W LDL + G EI + W H
Sbjct: 68 VLTSDSQYMRQGITQWIHGWKKKGWITSSKQPVKNVDLWKRLDLASKGHEIDWRWVKGHA 127
Query: 223 GISGNEAVDVAAKNPSPSFP 242
G NE D A+ + + P
Sbjct: 128 GHVENERCDTLAREAAEAKP 147
>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 = 38.9 bits (89), Expect = 0.040, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ ++ +VTDS +L I ++ + S+I + ++ + +
Sbjct: 1059 AELQAIYLALQD----SGSEVNIVTDSQYALGIIQAQPDKSE--SEIVNQIIEQLIQKER 1112
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1113 VYLSWVPAHKGIGGNEQVD 1131
>sp|O60930|RNH1_HUMAN Ribonuclease H1 OS=Homo sapiens GN=RNASEH1 PE=1 SV=2
Length = 286
Score = 38.9 bits (89), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 42/97 (43%), Gaps = 11/97 (11%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYS 201
AE+ A ++ K K +L TDSM ++ IT+ S +++K
Sbjct: 185 AEIHAACKAIEQAKTQNINKLVLYTDSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDF 244
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAKNPS 238
L+ + G +I +M P H G GNE D A+ +
Sbjct: 245 VALERLTQGMDIQWMHVPGHSGFIGNEEADRLAREGA 281
>sp|C3LPN8|RNH_VIBCM Ribonuclease H OS=Vibrio cholerae serotype O1 (strain M66-2)
GN=rnhA PE=3 SV=1
Length = 156
Score = 38.5 bits (88), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 42/147 (28%), Positives = 57/147 (38%), Gaps = 28/147 (19%)
Query: 115 RILCFTDGSKTENSTSCAYTI---NKNVN-----SFRLNVVNSVFSAELMAILLCLQNLK 166
++ FTDGS N Y I K V +RL N + E++A ++ LQ LK
Sbjct: 4 QVEIFTDGSCLGNPGPGGYGIVMRYKQVEKTLARGYRLTTNNRM---EMLAAVMALQALK 60
Query: 167 YLPSTKFLLVTDSMSSLQAITSKSCNNALLS---------KIYSTW--LDLVACGKEISF 215
+ +L TDS Q IT N L K W LD ++ +
Sbjct: 61 --EPCRVILTTDSQYVRQGITQWIHNWKLRGWKTADKKPVKNADLWQALDKETARHQVEW 118
Query: 216 MWCPSHCGISGNEAVD----VAAKNPS 238
W H G NE D AA+NP+
Sbjct: 119 RWVKGHAGHRENEMCDELARQAAENPT 145
>sp|Q9KPX8|RNH_VIBCH Ribonuclease HI OS=Vibrio cholerae serotype O1 (strain ATCC 39315 /
El Tor Inaba N16961) GN=rnhA PE=3 SV=1
Length = 156
Score = 38.5 bits (88), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 42/147 (28%), Positives = 57/147 (38%), Gaps = 28/147 (19%)
Query: 115 RILCFTDGSKTENSTSCAYTI---NKNVN-----SFRLNVVNSVFSAELMAILLCLQNLK 166
++ FTDGS N Y I K V +RL N + E++A ++ LQ LK
Sbjct: 4 QVEIFTDGSCLGNPGPGGYGIVMRYKQVEKTLARGYRLTTNNRM---EMLAAVMALQALK 60
Query: 167 YLPSTKFLLVTDSMSSLQAITSKSCNNALLS---------KIYSTW--LDLVACGKEISF 215
+ +L TDS Q IT N L K W LD ++ +
Sbjct: 61 --EPCRVILTTDSQYVRQGITQWIHNWKLRGWKTADKKPVKNADLWQALDKETARHQVEW 118
Query: 216 MWCPSHCGISGNEAVD----VAAKNPS 238
W H G NE D AA+NP+
Sbjct: 119 RWVKGHAGHRENEMCDELARQAAENPT 145
>sp|A5F633|RNH_VIBC3 Ribonuclease H OS=Vibrio cholerae serotype O1 (strain ATCC 39541 /
Ogawa 395 / O395) GN=rnhA PE=3 SV=1
Length = 156
Score = 38.5 bits (88), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 42/147 (28%), Positives = 57/147 (38%), Gaps = 28/147 (19%)
Query: 115 RILCFTDGSKTENSTSCAYTI---NKNVN-----SFRLNVVNSVFSAELMAILLCLQNLK 166
++ FTDGS N Y I K V +RL N + E++A ++ LQ LK
Sbjct: 4 QVEIFTDGSCLGNPGPGGYGIVMRYKQVEKTLARGYRLTTNNRM---EMLAAVMALQALK 60
Query: 167 YLPSTKFLLVTDSMSSLQAITSKSCNNALLS---------KIYSTW--LDLVACGKEISF 215
+ +L TDS Q IT N L K W LD ++ +
Sbjct: 61 --EPCRVILTTDSQYVRQGITQWIHNWKLRGWKTADKKPVKNADLWQALDKETARHQVEW 118
Query: 216 MWCPSHCGISGNEAVD----VAAKNPS 238
W H G NE D AA+NP+
Sbjct: 119 RWVKGHAGHRENEMCDELARQAAENPT 145
>sp|O70338|RNH1_MOUSE Ribonuclease H1 OS=Mus musculus GN=Rnaseh1 PE=2 SV=1
Length = 285
Score = 38.1 bits (87), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 11/97 (11%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYS 201
AE+ A + K +K +L TDSM ++ IT+ S +++K
Sbjct: 184 AEIHAACKAIMQAKAQNISKLVLYTDSMFTINGITNWVQGWKKNGWRTSTGKDVINKEDF 243
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAKNPS 238
LD + G +I +M P H G GNE D A+ +
Sbjct: 244 MELDELTQGMDIQWMHIPGHSGFVGNEEADRLAREGA 280
>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 = 38.1 bits (87), Expect = 0.076, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 43/79 (54%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ ++ +VTDS +L I ++ + S++ + ++ + ++
Sbjct: 1059 AELQAIQLALQD----SGSEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEK 1112
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1113 VYLSWVPAHKGIGGNEQVD 1131
>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 = 38.1 bits (87), Expect = 0.079, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AIL+ LQ +VTDS ++ I S+ + S++ S ++ + +
Sbjct: 1074 AELQAILMALQE----SGRDVNIVTDSQYAMGIIHSQPDKSE--SELVSQIIEELIKKER 1127
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1128 VYLSWVPAHKGIGGNEQVD 1146
>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 = 37.7 bits (86), Expect = 0.085, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ ++ +VTDS +L I ++ + S + + ++ + +
Sbjct: 1059 AELQAICLALQD----SGSEVNIVTDSQYALGIIQAQPDKSE--SDLVNQIIEQLIKKER 1112
Query: 213 ISFMWCPSHCGISGNEAVD 231
I W P+H GI GNE VD
Sbjct: 1113 IYLSWVPAHKGIGGNEQVD 1131
>sp|Q5BK46|RNH1_RAT Ribonuclease H1 OS=Rattus norvegicus GN=Rnaseh1 PE=2 SV=1
Length = 285
Score = 37.7 bits (86), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 42/97 (43%), Gaps = 11/97 (11%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITS-----------KSCNNALLSKIYS 201
AE+ A + K +K +L TDSM ++ IT+ S +++K
Sbjct: 184 AEIHAACKAITQAKAQNISKLVLYTDSMFTINGITNWVQGWKKNGWRTSTGKDVINKEDF 243
Query: 202 TWLDLVACGKEISFMWCPSHCGISGNEAVDVAAKNPS 238
LD + G +I +M P H G GNE D A+ +
Sbjct: 244 MELDELTQGMDIQWMHIPGHSGFVGNEEADRLAREGA 280
>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 = 37.7 bits (86), Expect = 0.10, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 43/79 (54%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ + P +VTDS +L I ++ + S++ + ++ + ++
Sbjct: 1064 AELHAIQLALQDSR--PEVN--IVTDSQYALGIIQAQPDRSG--SELVNQIIEQLIKKEK 1117
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1118 VYLSWVPAHKGIGGNEQVD 1136
>sp|Q75002|POL_HV1ET Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate ETH2220) GN=gag-pol PE=3 SV=3
Length = 1439
Score = 37.4 bits (85), Expect = 0.11, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ ++ +VTDS +L I ++ + S+I + ++ + + +
Sbjct: 1069 ELQAIQLALQD----SGSEVNIVTDSQYALGIILAQPDKSE--SEIVNQIIEQLISKERV 1122
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1123 YLSWVPAHKGIGGNEQVD 1140
>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 = 0.14, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ + +VTDS +L I + + S+I + ++ + ++
Sbjct: 1063 AELQAIQLALQD----SEVEVNIVTDSQYALGIIQGQPDTSE--SEIVNQIIEELIKKEK 1116
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE +D
Sbjct: 1117 VYLSWVPAHKGIGGNEQID 1135
>sp|Q1A249|POL_SIVEK Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate EK505)
GN=gag-pol PE=3 SV=3
Length = 1448
Score = 37.4 bits (85), Expect = 0.14, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL A+L+ LQ+ + +VTDS L I S+ + S++ + ++ + +
Sbjct: 1073 AELQAVLMALQD----AGQEVNIVTDSQYVLGIIHSQPDKSE--SELVNQIIEELIKKER 1126
Query: 213 ISFMWCPSHCGISGNEAVD 231
I W P+H GI GNE +D
Sbjct: 1127 IYLSWVPAHKGIGGNEQID 1145
>sp|P35956|POL_VILVK Pol polyprotein OS=Maedi visna virus (strain KV1772) GN=pol PE=1
SV=1
Length = 1101
Score = 37.0 bits (84), Expect = 0.14, Method: Composition-based stats.
Identities = 32/114 (28%), Positives = 48/114 (42%), Gaps = 7/114 (6%)
Query: 119 FTDGSKTENSTSCAYTINKNVNSFRLNVVNSVFSAELMAIL-LCLQNLKYLPSTKFLLVT 177
+TDG K S Y I FR++ + EL AI C Q K +VT
Sbjct: 573 YTDGGKKNGRGSLGY-ITSTGEKFRIHEEGTNQQLELRAIEEACKQG-----PEKMNIVT 626
Query: 178 DSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
DS + + + + + I + ++LV ++I W P H GI NE +D
Sbjct: 627 DSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 680
>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 = 37.0 bits (84), Expect = 0.14, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1065 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDRSE--SELVSQIIEQLIKKEKV 1118
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1119 YLAWVPAHKGIGGNEQVD 1136
>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 = 37.0 bits (84), Expect = 0.16, Method: Composition-based stats.
Identities = 24/79 (30%), Positives = 44/79 (55%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AI L LQ+ + ++ +VTDS +L I ++ + +++ + ++ + ++
Sbjct: 1062 AELQAIQLALQDSR----SEVNIVTDSQYALGIIQAQPDRSE--AELVNQIIEQLIKKEK 1115
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1116 VYLSWVPAHKGIGGNEQVD 1134
>sp|Q9IDV9|POL_HV1YB Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group N
(isolate YBF106) GN=gag-pol PE=3 SV=3
Length = 1449
Score = 36.6 bits (83), Expect = 0.20, Method: Composition-based stats.
Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 6/79 (7%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKE 212
AEL AILL LQ + +VTDS ++ I S+ + S + ++ + +
Sbjct: 1074 AELQAILLALQE----SGQEANIVTDSQYAMGIIHSQPDKSE--SDLVGQIIEELIKKER 1127
Query: 213 ISFMWCPSHCGISGNEAVD 231
+ W P+H GI GNE VD
Sbjct: 1128 VYLSWVPAHKGIGGNEQVD 1146
>sp|P23427|POL_VILV2 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS2)
GN=pol PE=3 SV=1
Length = 1105
Score = 36.6 bits (83), Expect = 0.22, Method: Composition-based stats.
Identities = 32/114 (28%), Positives = 48/114 (42%), Gaps = 7/114 (6%)
Query: 119 FTDGSKTENSTSCAYTINKNVNSFRLNVVNSVFSAELMAIL-LCLQNLKYLPSTKFLLVT 177
+TDG K S Y I FR++ + EL AI C Q K +VT
Sbjct: 577 YTDGGKKNGRGSLGY-IASTGEKFRIHEEGTNQQLELRAIEEACKQG-----PEKMNIVT 630
Query: 178 DSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
DS + + + + + I + ++LV ++I W P H GI NE +D
Sbjct: 631 DSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 684
>sp|P03370|POL_VILV Pol polyprotein OS=Maedi visna virus (strain 1514) GN=pol PE=3 SV=1
Length = 1105
Score = 36.6 bits (83), Expect = 0.22, Method: Composition-based stats.
Identities = 32/114 (28%), Positives = 48/114 (42%), Gaps = 7/114 (6%)
Query: 119 FTDGSKTENSTSCAYTINKNVNSFRLNVVNSVFSAELMAIL-LCLQNLKYLPSTKFLLVT 177
+TDG K S Y I FR++ + EL AI C Q K +VT
Sbjct: 577 YTDGGKKNGRGSLGY-IASTGEKFRIHEEGTNQQLELRAIEEACKQG-----PEKMNIVT 630
Query: 178 DSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEISFMWCPSHCGISGNEAVD 231
DS + + + + + I + ++LV ++I W P H GI NE +D
Sbjct: 631 DSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 684
>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 = 36.6 bits (83), Expect = 0.22, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1066 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1119
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1120 YLAWVPAHKGIGGNEQVD 1137
>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 = 0.22, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1065 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1118
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1119 YLAWVPAHKGIGGNEQVD 1136
>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 = 36.6 bits (83), Expect = 0.22, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1071 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1124
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1125 YLAWVPAHKGIGGNEQVD 1142
>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 = 36.6 bits (83), Expect = 0.22, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1069 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1122
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1123 YLAWVPAHKGIGGNEQVD 1140
>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 = 36.6 bits (83), Expect = 0.23, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ ++ +VTDS +L I ++ + S+I + ++ + ++
Sbjct: 1070 ELQAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDKSE--SEIVNQIIEQLIQKDKV 1123
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1124 YLSWVPAHKGIGGNEQVD 1141
>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 = 36.6 bits (83), Expect = 0.23, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1067 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1120
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1121 YLAWVPAHKGIGGNEQVD 1138
>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 = 36.6 bits (83), Expect = 0.23, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1065 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1118
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1119 YLAWVPAHKGIGGNEQVD 1136
>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 = 36.6 bits (83), Expect = 0.23, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1064 ELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1117
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1118 YLAWVPAHKGIGGNEQVD 1135
>sp|A1RK75|RNH_SHESW Ribonuclease H OS=Shewanella sp. (strain W3-18-1) GN=rnhA PE=3 SV=1
Length = 156
Score = 36.6 bits (83), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 39/146 (26%), Positives = 59/146 (40%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD V+ I +
Sbjct: 63 -EPCRVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKVSQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE D+ A++ + + P
Sbjct: 122 WVKGHAGHAENERCDILARSAAEANP 147
>sp|A4Y6C1|RNH_SHEPC Ribonuclease H OS=Shewanella putrefaciens (strain CN-32 / ATCC
BAA-453) GN=rnhA PE=3 SV=1
Length = 156
Score = 36.6 bits (83), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 39/146 (26%), Positives = 59/146 (40%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD V+ I +
Sbjct: 63 -EPCRVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKVSQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE D+ A++ + + P
Sbjct: 122 WVKGHAGHAENERCDILARSAAEANP 147
>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 = 36.2 bits (82), Expect = 0.25, Method: Composition-based stats.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 10/81 (12%)
Query: 153 AELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSK--SCNNALLSKIYSTWLDLVACG 210
AEL AI + L++ K +VTDS ++ +T++ ++ L+ +I + + A
Sbjct: 1090 AELTAIKMALED----SGPKVNIVTDSQYAMGILTAQPTQSDSPLVEQIIAQMVQKEA-- 1143
Query: 211 KEISFMWCPSHCGISGNEAVD 231
I W P+H GI GNE +D
Sbjct: 1144 --IYLQWVPAHKGIGGNEEID 1162
>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 = 36.2 bits (82), Expect = 0.25, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ ++ +VTDS +L I + + S+I + ++ + + +
Sbjct: 1064 ELQAIQLALQD----SGSEVNIVTDSQYALGIIQAHPDKSE--SEIVNQIIEQLIQKERV 1117
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1118 YLSWVPAHKGIGGNEQVD 1135
>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 = 36.2 bits (82), Expect = 0.26, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1062 ELQAINLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1115
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1116 YLAWVPAHKGIGGNEQVD 1133
>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 = 36.2 bits (82), Expect = 0.27, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ S ++ + +++
Sbjct: 1066 ELQAINLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVSQIIEQLIKKEKV 1119
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1120 YLAWVPAHKGIGGNEQVD 1137
>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 = 36.2 bits (82), Expect = 0.30, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ ++ +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 1060 ELQAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIQKEKV 1113
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1114 YLSWVPAHKGIGGNEQVD 1131
>sp|A1S6T0|RNH_SHEAM Ribonuclease H OS=Shewanella amazonensis (strain ATCC BAA-1098 /
SB2B) GN=rnhA PE=3 SV=1
Length = 156
Score = 36.2 bits (82), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 57/147 (38%), Gaps = 24/147 (16%)
Query: 115 RILCFTDGSKTENSTSCAYTI--------NKNVNSFRLNVVNSVFSAELMAILLCLQNLK 166
+I +TDGS N Y + + + F L N + EL+A ++ L++LK
Sbjct: 6 QIRIYTDGSCLGNPGPGGYGVVMIYKQHRKELADGFALTTNNRM---ELLAPIVALESLK 62
Query: 167 YLPSTKFLLVTDSMSSLQAITS-----KSCNNALLSKI----YSTW--LDLVACGKEISF 215
+L +DS Q IT K SK W LD A ++ +
Sbjct: 63 --EPCDVILTSDSQYMRQGITEWIHGWKKKGWVTASKTPVKNVDLWQRLDAAAAKHKVDW 120
Query: 216 MWCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE D A+ + + P
Sbjct: 121 RWVKGHAGHAENERCDTLAREAAEAKP 147
>sp|A9L0F2|RNH_SHEB9 Ribonuclease H OS=Shewanella baltica (strain OS195) GN=rnhA PE=3
SV=1
Length = 156
Score = 35.8 bits (81), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 57/146 (39%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD + I +
Sbjct: 63 -EPCQVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKASQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE DV A+ + S P
Sbjct: 122 WVKGHAGHAENERCDVLARTAAESKP 147
>sp|A6WMW8|RNH_SHEB8 Ribonuclease H OS=Shewanella baltica (strain OS185) GN=rnhA PE=3
SV=1
Length = 156
Score = 35.8 bits (81), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 57/146 (39%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD + I +
Sbjct: 63 -EPCQVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKASQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE DV A+ + S P
Sbjct: 122 WVKGHAGHAENERCDVLARTAAESKP 147
>sp|A3D440|RNH_SHEB5 Ribonuclease H OS=Shewanella baltica (strain OS155 / ATCC BAA-1091)
GN=rnhA PE=3 SV=1
Length = 156
Score = 35.8 bits (81), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 57/146 (39%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD + I +
Sbjct: 63 -EPCQVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKASQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE DV A+ + S P
Sbjct: 122 WVKGHAGHAENERCDVLARTAAESKP 147
>sp|B8E599|RNH_SHEB2 Ribonuclease H OS=Shewanella baltica (strain OS223) GN=rnhA PE=3
SV=1
Length = 156
Score = 35.8 bits (81), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 40/146 (27%), Positives = 57/146 (39%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L++LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIIALESLK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
+ +L +DS Q I + +N K W LD + I +
Sbjct: 63 -EPCQVVLTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKASQMHTIDWQ 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G + NE DV A+ + S P
Sbjct: 122 WVKGHAGHAENERCDVLARTAAESKP 147
>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 = 35.8 bits (81), Expect = 0.32, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 42/78 (53%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ ++ +VTDS +L I ++ + S+I + ++ + +++
Sbjct: 1058 ELHAIHLALQD----SGSEVNIVTDSQYALGIIQAQPDRSE--SEIVNQIIEKLIEKEKV 1111
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1112 YLSWVPAHKGIGGNEQVD 1129
>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 = 35.8 bits (81), Expect = 0.33, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 1065 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDQSE--SELVNQIIEQLIKKEKV 1118
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1119 YLAWVPAHKGIGGNEQVD 1136
>sp|A0KXS6|RNH_SHESA Ribonuclease H OS=Shewanella sp. (strain ANA-3) GN=rnhA PE=3 SV=1
Length = 158
Score = 35.8 bits (81), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 41/146 (28%), Positives = 56/146 (38%), Gaps = 24/146 (16%)
Query: 116 ILCFTDGSKTENSTSCAYTINKNV--------NSFRLNVVNSVFSAELMAILLCLQNLKY 167
I FTDGS N Y I N + F L N + EL+A ++ L+ LK
Sbjct: 7 IHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFALTTNNRM---ELLAPIVALEALK- 62
Query: 168 LPSTKFLLVTDSMSSLQAITSK---------SCNNALLSKIYSTW--LDLVACGKEISFM 216
K +L +DS Q IT+ +N K W LD A +I +
Sbjct: 63 -EPCKVILTSDSQYMRQGITTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWR 121
Query: 217 WCPSHCGISGNEAVDVAAKNPSPSFP 242
W H G NE D A+ + + P
Sbjct: 122 WVKGHAGHPENERCDQLARAAAEASP 147
>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 = 35.8 bits (81), Expect = 0.36, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 6/78 (7%)
Query: 154 ELMAILLCLQNLKYLPSTKFLLVTDSMSSLQAITSKSCNNALLSKIYSTWLDLVACGKEI 213
EL AI L LQ+ + +VTDS +L I ++ + S++ + ++ + +++
Sbjct: 1065 ELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSE--SELVNQIIEQLIKKEKV 1118
Query: 214 SFMWCPSHCGISGNEAVD 231
W P+H GI GNE VD
Sbjct: 1119 YLAWVPAHKGIGGNEQVD 1136
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
0.318 0.131 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 104,090,354
Number of Sequences: 539616
Number of extensions: 4133977
Number of successful extensions: 9639
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 97
Number of HSP's that attempted gapping in prelim test: 9626
Number of HSP's gapped (non-prelim): 103
length of query: 282
length of database: 191,569,459
effective HSP length: 116
effective length of query: 166
effective length of database: 128,974,003
effective search space: 21409684498
effective search space used: 21409684498
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.7 bits)