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= psy216
(650 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P32542|POL_EIAVC Pol polyprotein OS=Equine infectious anemia virus (isolate CL22)
GN=pol PE=1 SV=1
Length = 1146
Score = 50.4 bits (119), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 69/172 (40%), Gaps = 26/172 (15%)
Query: 159 WELS-------VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSG 211
WE+ +PEI+Y V + + E + + YTDG K
Sbjct: 584 WEMQKGWYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGI 635
Query: 212 CAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRDSVFICTDSKSSL 271
AY+T K + +E +AI M L +TR + I DS + C + +
Sbjct: 636 AAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEG 691
Query: 272 LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVDELAK 323
L L+ SP I+ I E +I V F W+P H GI GN DE AK
Sbjct: 692 LGLEGPQSPWW---PIIQNIREKEI----VYFAWVPGHKGICGNQLADEAAK 736
Score = 42.7 bits (99), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 79/218 (36%), Gaps = 27/218 (12%)
Query: 422 QHILLECRKFRASRNKWHLKDDISALLGDDHDE----IYKCIIISAQVIKRD---EYIAP 474
Q IL +K + W ++ LL E + KC K E
Sbjct: 530 QGILWAGKKIMKANKGWSTVKNLMLLLQHVATESITRVGKCPTFKVPFTKEQVMWEMQKG 589
Query: 475 WELS-VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSGCAYITE 533
W S +PEI+Y V + + E + + YTDG K AY+T
Sbjct: 590 WYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGIAAYVTS 641
Query: 534 TESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIFRDSIFICTDSKSSLLALKNI 593
K + +E +AI M L T + I DS + C + + L L+
Sbjct: 642 NGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEGLGLEGP 697
Query: 594 MSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
SP I+ I E +I V F W+P H GI GN
Sbjct: 698 QSPWW---PIIQNIREKEI----VYFAWVPGHKGICGN 728
>sp|P11204|POL_EIAV9 Pol polyprotein OS=Equine infectious anemia virus (isolate 1369)
GN=pol PE=1 SV=1
Length = 1146
Score = 50.4 bits (119), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 69/172 (40%), Gaps = 26/172 (15%)
Query: 159 WELS-------VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSG 211
WE+ +PEI+Y V + + E + + YTDG K
Sbjct: 584 WEMQKGWYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGI 635
Query: 212 CAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRDSVFICTDSKSSL 271
AY+T K + +E +AI M L +TR + I DS + C + +
Sbjct: 636 AAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEG 691
Query: 272 LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVDELAK 323
L L+ SP I+ I E +I V F W+P H GI GN DE AK
Sbjct: 692 LGLEGPQSPWW---PIIQNIREKEI----VYFAWVPGHKGICGNQLADEAAK 736
Score = 42.7 bits (99), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 79/218 (36%), Gaps = 27/218 (12%)
Query: 422 QHILLECRKFRASRNKWHLKDDISALLGDDHDE----IYKCIIISAQVIKRD---EYIAP 474
Q IL +K + W ++ LL E + KC K E
Sbjct: 530 QGILWAGKKIMKANKGWSTVKNLMLLLQHVATESITRVGKCPTFKVPFTKEQVMWEMQKG 589
Query: 475 WELS-VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSGCAYITE 533
W S +PEI+Y V + + E + + YTDG K AY+T
Sbjct: 590 WYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGIAAYVTS 641
Query: 534 TESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIFRDSIFICTDSKSSLLALKNI 593
K + +E +AI M L T + I DS + C + + L L+
Sbjct: 642 NGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEGLGLEGP 697
Query: 594 MSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
SP I+ I E +I V F W+P H GI GN
Sbjct: 698 QSPWW---PIIQNIREKEI----VYFAWVPGHKGICGN 728
>sp|P03371|POL_EIAVY Pol polyprotein OS=Equine infectious anemia virus (strain Wyoming)
GN=pol PE=3 SV=1
Length = 1145
Score = 48.5 bits (114), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 48/172 (27%), Positives = 69/172 (40%), Gaps = 26/172 (15%)
Query: 159 WELS-------VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSG 211
WE+ +PEI+Y V + + E + + YTDG K
Sbjct: 583 WEMQKGWYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGI 634
Query: 212 CAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRDSVFICTDSKSSL 271
AY+T K + +E +AI M L +TR + I DS + C + +
Sbjct: 635 AAYVTSNGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEG 690
Query: 272 LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVDELAK 323
L L+ P + I+ I E +I V F W+P H GI GN DE AK
Sbjct: 691 LGLE---GPQNPWWPIIQNIREKEI----VYFAWVPGHKGIYGNQLADEAAK 735
Score = 40.8 bits (94), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 55/218 (25%), Positives = 79/218 (36%), Gaps = 27/218 (12%)
Query: 422 QHILLECRKFRASRNKWHLKDDISALLGDDHDE----IYKCIIISAQVIKRD---EYIAP 474
Q IL +K + W ++ LL E + KC K E
Sbjct: 529 QGILWAGKKIMKANKGWSTVKNLMLLLQHVATESITRVGKCPTFKVPFTKEQVMWEMQKG 588
Query: 475 WELS-VPEIIYLTSEKKENLSSVAVKNAFFQFKGENQNSLFCYTDGSKTAANSGCAYITE 533
W S +PEI+Y V + + E + + YTDG K AY+T
Sbjct: 589 WYYSWLPEIVYT--------HQVVHDDWRMKLVEEPTSGITIYTDGGKQNGEGIAAYVTS 640
Query: 534 TESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIFRDSIFICTDSKSSLLALKNI 593
K + +E +AI M L T + I DS + C + + L L+
Sbjct: 641 NGRTKQKRLGPVTHQVAERMAIQMALE---DTRDKQVNIVTDSYY-CWKNITEGLGLE-- 694
Query: 594 MSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
P + I+ I E +I V F W+P H GI GN
Sbjct: 695 -GPQNPWWPIIQNIREKEI----VYFAWVPGHKGIYGN 727
>sp|P05962|POL_HV2NZ Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate NIH-Z) GN=gag-pol PE=3 SV=3
Length = 1461
Score = 47.8 bits (112), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/125 (30%), Positives = 57/125 (45%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + YIT+ K+ + + +EL A M L T S P+ I
Sbjct: 1049 YTDGSCNRQSKEGKAGYITDRGRDRVKVLEQTTNQQAELEAFAMAL-----TDSGPKANI 1103
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S N +VN I+ E I + W+P+H GI GN
Sbjct: 1104 IVDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQ 1154
Query: 317 QVDEL 321
+VD L
Sbjct: 1155 EVDHL 1159
Score = 44.3 bits (103), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + YIT+ K+ + + +EL A M L+ S I
Sbjct: 1049 YTDGSCNRQSKEGKAGYITDRGRDRVKVLEQTTNQQAELEAFAMALTD----SGPKANII 1104
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S N +VN I+ E I + W+P+H GI GN +
Sbjct: 1105 VDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQE 1155
Query: 634 VPFL 637
V L
Sbjct: 1156 VDHL 1159
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 47.8 bits (112), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/152 (27%), Positives = 64/152 (42%), Gaps = 20/152 (13%)
Query: 200 YTDGSKTAANSGCAYITETE--SQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
YTDG K + + AY E + +VF N+ + EL A+ M L + P
Sbjct: 966 YTDGGKKGSKAAAAYWREGKIRREVFPGTNQQA----ELKAVLMAL------QDGPA--- 1012
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVK-INELKILNITVKFLWIPSHLGIAGNV 316
+ I TDS+ + ++ P L K I E V W+P H GI GN
Sbjct: 1013 --KMNIITDSRYAFEGMRE--EPETWGREGLWKEIGEELRRKEYVGVSWVPGHKGIGGNT 1068
Query: 317 QVDELAKNSQNAPLLSMMTSEDLKSAIKKKLL 348
+VD+ + + P+ + E L A + KL+
Sbjct: 1069 EVDQEVQKALQGPITVSLPQEILLEAGETKLV 1100
>sp|P24107|POL_HV2CA Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate CAM2) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 47.8 bits (112), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 57/125 (45%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ K+ + + +EL A M L T S P+ I
Sbjct: 1050 YTDGSCNRQSKEGKAGYVTDRGRDKVKILEQTTNQQAELEAFAMAL-----TDSGPKANI 1104
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S N +VN I+ E I + W+P+H GI GN
Sbjct: 1105 IVDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQ 1155
Query: 317 QVDEL 321
+VD L
Sbjct: 1156 EVDHL 1160
Score = 44.3 bits (103), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ K+ + + +EL A M L+ S I
Sbjct: 1050 YTDGSCNRQSKEGKAGYVTDRGRDKVKILEQTTNQQAELEAFAMALTD----SGPKANII 1105
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S N +VN I+ E I + W+P+H GI GN +
Sbjct: 1106 VDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQE 1156
Query: 634 VPFL 637
V L
Sbjct: 1157 VDHL 1160
>sp|P17757|POL_HV2D1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate D194) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 47.0 bits (110), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 57/125 (45%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ ++ + S +EL A M L+ S P+ I
Sbjct: 1050 YTDGSCNRQSKEGKAGYVTDRGRDRVRVLEQTSNQQAELEAFAMALAD-----SGPKVNI 1104
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S N +VN I+ E I V W+P+H GI GN
Sbjct: 1105 IVDSQYVM-----GIVAGQPTESENRIVNQII----EDMIKKEAVYVAWVPAHKGIGGNQ 1155
Query: 317 QVDEL 321
+VD L
Sbjct: 1156 EVDHL 1160
Score = 43.5 bits (101), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ ++ + S +EL A M L+ S I
Sbjct: 1050 YTDGSCNRQSKEGKAGYVTDRGRDRVRVLEQTSNQQAELEAFAMALAD----SGPKVNII 1105
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S N +VN I+ E I V W+P+H GI GN +
Sbjct: 1106 VDSQYVM-----GIVAGQPTESENRIVNQII----EDMIKKEAVYVAWVPAHKGIGGNQE 1156
Query: 634 VPFL 637
V L
Sbjct: 1157 VDHL 1160
>sp|Q74120|POL_HV2KR Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate KR) GN=gag-pol PE=3 SV=3
Length = 1463
Score = 47.0 bits (110), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 38/125 (30%), Positives = 58/125 (46%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + YIT+ ++ + + +EL A M L T S P+ I
Sbjct: 1051 YTDGSCNRQSKEGKAGYITDRGRDKVRILEQTTNQQAELEAFAMAL-----TDSGPKANI 1105
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S + LVN I+ E I T+ W+P+H GI GN
Sbjct: 1106 IVDSQYVM-----GIVAGQPTESESKLVNQII----EEMIKKETLYVAWVPAHKGIGGNQ 1156
Query: 317 QVDEL 321
+VD L
Sbjct: 1157 EVDHL 1161
Score = 43.5 bits (101), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 55/124 (44%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + YIT+ ++ + + +EL A M L+ S I
Sbjct: 1051 YTDGSCNRQSKEGKAGYITDRGRDKVRILEQTTNQQAELEAFAMALTD----SGPKANII 1106
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S + LVN I+ E I T+ W+P+H GI GN +
Sbjct: 1107 VDSQYVM-----GIVAGQPTESESKLVNQII----EEMIKKETLYVAWVPAHKGIGGNQE 1157
Query: 634 VPFL 637
V L
Sbjct: 1158 VDHL 1161
>sp|P15833|POL_HV2D2 Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate D205) GN=gag-pol PE=3 SV=3
Length = 1465
Score = 46.2 bits (108), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 57/125 (45%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS +T+ Y+T+ K+ + + +EL A + L T S P+ I
Sbjct: 1050 YTDGSCNRTSKEGKAGYVTDRGKDKVKVLEQTTNQQAELEAFALAL-----TDSEPQVNI 1104
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + P + I+ KI E I V W+P+H G+ GN
Sbjct: 1105 IVDSQYVM-----GIIAAQ----PTETESPIVAKIIEEMIKKEAVYVGWVPAHKGLGGNQ 1155
Query: 317 QVDEL 321
+VD L
Sbjct: 1156 EVDHL 1160
Score = 40.4 bits (93), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS +T+ Y+T+ K+ + + +EL A + L+ S I
Sbjct: 1050 YTDGSCNRTSKEGKAGYVTDRGKDKVKVLEQTTNQQAELEAFALALTD----SEPQVNII 1105
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + P + I+ KI E I V W+P+H G+ GN +
Sbjct: 1106 VDSQYVM-----GIIAAQ----PTETESPIVAKIIEEMIKKEAVYVGWVPAHKGLGGNQE 1156
Query: 634 VPFL 637
V L
Sbjct: 1157 VDHL 1160
>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 = 45.8 bits (107), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 55/124 (44%), Gaps = 15/124 (12%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI++ L +
Sbjct: 1023 YVDGASNRETKKGKAGYVTDKGKQKVVSLTETTNQKAELQAIYLALQDSGS--------- 1073
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 317
V I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI GN Q
Sbjct: 1074 --EVNIVTDSQYALGIIQ--AQPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGGNEQ 1129
Query: 318 VDEL 321
VD+L
Sbjct: 1130 VDKL 1133
Score = 42.0 bits (97), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 52/121 (42%), Gaps = 15/121 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI++ L S
Sbjct: 1023 YVDGASNRETKKGKAGYVTDKGKQKVVSLTETTNQKAELQAIYLALQDSGS--------- 1073
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
+ I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI GN Q
Sbjct: 1074 --EVNIVTDSQYALGIIQ--AQPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGGNEQ 1129
Query: 634 V 634
V
Sbjct: 1130 V 1130
>sp|P20876|POL_HV2ST Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate ST) GN=gag-pol PE=3 SV=3
Length = 1463
Score = 45.4 bits (106), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 57/125 (45%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS K + YIT+ +L + + +EL A M + T S P+ I
Sbjct: 1051 YTDGSCNKQSREGKAGYITDRGRDKVRLLEQTTNQQAELEAFAMAV-----TDSGPKANI 1105
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S + +VN I+ E I + W+P+H GI GN
Sbjct: 1106 IVDSQYVM-----GIVAGQPTESESKIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQ 1156
Query: 317 QVDEL 321
+VD L
Sbjct: 1157 EVDHL 1161
Score = 42.0 bits (97), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS K + YIT+ +L + + +EL A M ++ S I
Sbjct: 1051 YTDGSCNKQSREGKAGYITDRGRDKVRLLEQTTNQQAELEAFAMAVTD----SGPKANII 1106
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S + +VN I+ E I + W+P+H GI GN +
Sbjct: 1107 VDSQYVM-----GIVAGQPTESESKIVNQII----EEMIKKEAIYVAWVPAHKGIGGNQE 1157
Query: 634 VPFL 637
V L
Sbjct: 1158 VDHL 1161
>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 = 45.4 bits (106), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/126 (32%), Positives = 57/126 (45%), Gaps = 19/126 (15%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI++ L S PE
Sbjct: 1029 YVDGAANRETKMGKAGYVTDRGKQKIVSLTETTNQKTELQAIYLALQE-----SGPE--- 1080
Query: 258 RDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 315
V I TDS+ +L + + S + LVN I I EL I W+P+H GI GN
Sbjct: 1081 ---VNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKFYLSWVPAHKGIGGN 1133
Query: 316 VQVDEL 321
QVD+L
Sbjct: 1134 EQVDKL 1139
Score = 37.7 bits (86), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 37/123 (30%), Positives = 53/123 (43%), Gaps = 19/123 (15%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI++ L S E
Sbjct: 1029 YVDGAANRETKMGKAGYVTDRGKQKIVSLTETTNQKTELQAIYLALQE-----SGPE--- 1080
Query: 574 RDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
+ I TDS+ +L + + S + LVN I I EL I W+P+H GI GN
Sbjct: 1081 ---VNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKFYLSWVPAHKGIGGN 1133
Query: 632 VQV 634
QV
Sbjct: 1134 EQV 1136
>sp|P18096|POL_HV2BE Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate BEN) GN=gag-pol PE=3 SV=4
Length = 1550
Score = 45.4 bits (106), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 56/125 (44%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ K+ + + +EL M L+ S P+ I
Sbjct: 1051 YTDGSCNRQSKEGKAGYVTDRGKDKVKVLEQTTNQQAELEVFRMALAD-----SGPKVNI 1105
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + S N +VN I+ E I V W+P+H GI GN
Sbjct: 1106 IVDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAVYVAWVPAHKGIGGNQ 1156
Query: 317 QVDEL 321
+VD L
Sbjct: 1157 EVDHL 1161
Score = 42.0 bits (97), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 53/124 (42%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ K+ + + +EL M L+ S I
Sbjct: 1051 YTDGSCNRQSKEGKAGYVTDRGKDKVKVLEQTTNQQAELEVFRMALAD----SGPKVNII 1106
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + S N +VN I+ E I V W+P+H GI GN +
Sbjct: 1107 VDSQYVM-----GIVAGQPTESENRIVNQII----EEMIKKEAVYVAWVPAHKGIGGNQE 1157
Query: 634 VPFL 637
V L
Sbjct: 1158 VDHL 1161
>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 = 45.4 bits (106), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 58/129 (44%), Gaps = 25/129 (19%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q + + +EL AI++ L
Sbjct: 1025 YVDGASNRETKTGKAGYVTDKGRQKVVTLTDTTNQKTELHAIYLAL-------------- 1070
Query: 258 RDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
RDS V I TDS+ +L + + S + LVN I I EL I V W+P+H GI
Sbjct: 1071 RDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAHKGI 1126
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1127 GGNEQVDKL 1135
Score = 40.4 bits (93), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 38/126 (30%), Positives = 55/126 (43%), Gaps = 25/126 (19%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q + + +EL AI++ L
Sbjct: 1025 YVDGASNRETKTGKAGYVTDKGRQKVVTLTDTTNQKTELHAIYLAL-------------- 1070
Query: 574 RDS---IFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
RDS + I TDS+ +L + + S + LVN I I EL I V W+P+H GI
Sbjct: 1071 RDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAHKGI 1126
Query: 629 AGNVQV 634
GN QV
Sbjct: 1127 GGNEQV 1132
>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 = 45.4 bits (106), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/127 (28%), Positives = 57/127 (44%), Gaps = 21/127 (16%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+TE Q +E + +EL+AI + L
Sbjct: 1027 YVDG---AANRETKLGKAGYVTEQGKQKIIKLDETTNQKAELMAILLALQD--------- 1074
Query: 255 YIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
+++V I TDS+ +L + + P + I+ +I E V W+P+H GI G
Sbjct: 1075 --SKETVNIVTDSQYALGVISS--QPTQSESPIVQQIIEELTKKEQVYLTWVPAHKGIGG 1130
Query: 315 NVQVDEL 321
N ++D+L
Sbjct: 1131 NEKIDKL 1137
Score = 40.4 bits (93), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 54/124 (43%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+TE Q +E + +EL+AI + L
Sbjct: 1027 YVDG---AANRETKLGKAGYVTEQGKQKIIKLDETTNQKAELMAILLALQD--------- 1074
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
++++ I TDS+ +L + + P + I+ +I E V W+P+H GI G
Sbjct: 1075 --SKETVNIVTDSQYALGVISS--QPTQSESPIVQQIIEELTKKEQVYLTWVPAHKGIGG 1130
Query: 631 NVQV 634
N ++
Sbjct: 1131 NEKI 1134
>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 = 45.1 bits (105), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 59/129 (45%), Gaps = 25/129 (19%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN ++T+ Q E + +EL AI + L SRPE
Sbjct: 1028 YVDG---AANRETKLGKAGHVTDKGKQKIITLTETTNQKAELHAIQLALQD-----SRPE 1079
Query: 255 YIFRDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1080 ------VNIVTDSQYALGIIQAQPDRSGSELVNQIIEQL----IKKEKVYLSWVPAHKGI 1129
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1130 GGNEQVDKL 1138
Score = 37.4 bits (85), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 38/126 (30%), Positives = 55/126 (43%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN ++T+ Q E + +EL AI + L SR E
Sbjct: 1028 YVDG---AANRETKLGKAGHVTDKGKQKIITLTETTNQKAELHAIQLALQ-----DSRPE 1079
Query: 571 YIFRDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1080 ------VNIVTDSQYALGIIQAQPDRSGSELVNQIIEQL----IKKEKVYLSWVPAHKGI 1129
Query: 629 AGNVQV 634
GN QV
Sbjct: 1130 GGNEQV 1135
>sp|P12502|POL_SIVS4 Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
F236/smH4) GN=gag-pol PE=3 SV=2
Length = 1449
Score = 44.7 bits (104), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 59/131 (45%), Gaps = 17/131 (12%)
Query: 194 QNSLFCYTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRS 251
Q + Y DGS + + Y+T+ KL + + +EL A ++ L+ S
Sbjct: 1031 QGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELEAFYLALAD-----S 1085
Query: 252 RPEY-IFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHL 310
P+ I DS ++ ++A + S + LVN I+ E I + W+P+H
Sbjct: 1086 GPKANIIVDSQYVM-----GIIAGQPTESESRLVNQII----EEMIKKEAIYVAWVPAHK 1136
Query: 311 GIAGNVQVDEL 321
GI GN +VD L
Sbjct: 1137 GIGGNQEVDHL 1147
Score = 42.4 bits (98), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 15/130 (11%)
Query: 510 QNSLFCYTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSS 567
Q + Y DGS + + Y+T+ KL + + +EL A ++ L+ S
Sbjct: 1031 QGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELEAFYLALAD----SG 1086
Query: 568 RTEYIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 627
I DS ++ ++A + S + LVN I+ E I + W+P+H G
Sbjct: 1087 PKANIIVDSQYVM-----GIIAGQPTESESRLVNQII----EEMIKKEAIYVAWVPAHKG 1137
Query: 628 IAGNVQVPFL 637
I GN +V L
Sbjct: 1138 IGGNQEVDHL 1147
>sp|P19505|POL_SIVSP Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
PBj14/BCL-3) GN=gag-pol PE=1 SV=2
Length = 1449
Score = 44.7 bits (104), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 59/131 (45%), Gaps = 17/131 (12%)
Query: 194 QNSLFCYTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRS 251
Q + Y DGS + + Y+T+ KL + + +EL A ++ L+ S
Sbjct: 1031 QGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELEAFYLALAD-----S 1085
Query: 252 RPEY-IFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHL 310
P+ I DS ++ ++A + S + LVN I+ E I + W+P+H
Sbjct: 1086 GPKANIIVDSQYVM-----GIVAGQPTESESRLVNQII----EEMIKKEAIYVAWVPAHK 1136
Query: 311 GIAGNVQVDEL 321
GI GN +VD L
Sbjct: 1137 GIGGNQEVDHL 1147
Score = 42.0 bits (97), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 15/130 (11%)
Query: 510 QNSLFCYTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSS 567
Q + Y DGS + + Y+T+ KL + + +EL A ++ L+ S
Sbjct: 1031 QGAETFYVDGSCNRQSREGKAGYVTDRGRDKAKLLEQTTNQQAELEAFYLALA----DSG 1086
Query: 568 RTEYIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 627
I DS ++ ++A + S + LVN I+ E I + W+P+H G
Sbjct: 1087 PKANIIVDSQYVM-----GIVAGQPTESESRLVNQII----EEMIKKEAIYVAWVPAHKG 1137
Query: 628 IAGNVQVPFL 637
I GN +V L
Sbjct: 1138 IGGNQEVDHL 1147
>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 = 43.9 bits (102), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI + L +
Sbjct: 1033 YVDGAANRETKKGKAGYVTDRGRQKVVSLTETTNQKTELQAIHLALQDSGS--------- 1083
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 317
V I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI GN Q
Sbjct: 1084 --EVNIVTDSQYALGIIQ--AQPDKSESEIVNQIIEQLIQKDKVYLSWVPAHKGIGGNEQ 1139
Query: 318 VDEL 321
VD+L
Sbjct: 1140 VDKL 1143
Score = 40.0 bits (92), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 33/121 (27%), Positives = 51/121 (42%), Gaps = 15/121 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI + L S
Sbjct: 1033 YVDGAANRETKKGKAGYVTDRGRQKVVSLTETTNQKTELQAIHLALQDSGS--------- 1083
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
+ I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI GN Q
Sbjct: 1084 --EVNIVTDSQYALGIIQ--AQPDKSESEIVNQIIEQLIQKDKVYLSWVPAHKGIGGNEQ 1139
Query: 634 V 634
V
Sbjct: 1140 V 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 = 43.5 bits (101), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 34/126 (26%), Positives = 57/126 (45%), Gaps = 19/126 (15%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + + YIT+ Q + + +EL AI M L S P+
Sbjct: 1054 YVDGACNRQSKEGKAGYITQQGKQRVQQLENTTNQQAELTAIKMALED-----SGPK--- 1105
Query: 258 RDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 315
V I TDS+ ++ L + S + LV I+ ++ + + W+P+H GI GN
Sbjct: 1106 ---VNIVTDSQYAMGILTAQPTQSDSPLVEQIIAQM----VQKEAIYLQWVPAHKGIGGN 1158
Query: 316 VQVDEL 321
++D+L
Sbjct: 1159 EEIDKL 1164
>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 = 43.5 bits (101), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 55/129 (42%), Gaps = 25/129 (19%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI + L
Sbjct: 1026 YVDG---AANRETKLGKAGYVTDKGKQKIITLTETTNQKAELQAIQLALQD--------- 1073
Query: 255 YIFRDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
R V I TDS+ +L + + S LVN I+ ++ I V W+P+H GI
Sbjct: 1074 --SRSEVNIVTDSQYALGIIQAQPDRSEAELVNQIIEQL----IKKEKVYLSWVPAHKGI 1127
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1128 GGNEQVDKL 1136
Score = 39.7 bits (91), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 55/126 (43%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI + L SR+E
Sbjct: 1026 YVDG---AANRETKLGKAGYVTDKGKQKIITLTETTNQKAELQAIQLALQ-----DSRSE 1077
Query: 571 YIFRDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+ I TDS+ +L + + S LVN I+ ++ I V W+P+H GI
Sbjct: 1078 ------VNIVTDSQYALGIIQAQPDRSEAELVNQIIEQL----IKKEKVYLSWVPAHKGI 1127
Query: 629 AGNVQV 634
GN QV
Sbjct: 1128 GGNEQV 1133
>sp|P04584|POL_HV2RO Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate ROD) GN=gag-pol PE=1 SV=3
Length = 1464
Score = 43.1 bits (100), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 53/125 (42%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ K + + +EL A M L T S P+ I
Sbjct: 1052 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMAL-----TDSGPKVNI 1106
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ S S P + I+ +I E I + W+P+H GI GN
Sbjct: 1107 IVDSQYVMGISASQ---------PTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQ 1157
Query: 317 QVDEL 321
+VD L
Sbjct: 1158 EVDHL 1162
Score = 38.9 bits (89), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 50/124 (40%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ K + + +EL A M L+ S I
Sbjct: 1052 YTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALT----DSGPKVNII 1107
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ S S P + I+ +I E I + W+P+H GI GN +
Sbjct: 1108 VDSQYVMGISASQ---------PTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQE 1158
Query: 634 VPFL 637
V L
Sbjct: 1159 VDHL 1162
>sp|P05896|POL_SIVM1 Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate
Mm142-83) GN=gag-pol PE=1 SV=2
Length = 1448
Score = 43.1 bits (100), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 54/125 (43%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
Y DGS K + YIT+ K+ + + +EL A M L T S P+ I
Sbjct: 1036 YVDGSCSKQSKEGKAGYITDRGKDKVKVLEQTTNQQAELEAFLMAL-----TDSGPKANI 1090
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++ S + LVN I+ E I + W+P+H GI GN
Sbjct: 1091 IVDSQYVM-----GIITGCPTESESRLVNQII----EEMIKKTEIYVAWVPAHKGIGGNQ 1141
Query: 317 QVDEL 321
++D L
Sbjct: 1142 EIDHL 1146
Score = 39.7 bits (91), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 51/124 (41%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DGS K + YIT+ K+ + + +EL A M L+ S I
Sbjct: 1036 YVDGSCSKQSKEGKAGYITDRGKDKVKVLEQTTNQQAELEAFLMALT----DSGPKANII 1091
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++ S + LVN I+ E I + W+P+H GI GN +
Sbjct: 1092 VDSQYVM-----GIITGCPTESESRLVNQII----EEMIKKTEIYVAWVPAHKGIGGNQE 1142
Query: 634 VPFL 637
+ L
Sbjct: 1143 IDHL 1146
>sp|P23426|POL_VILV1 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS1)
GN=pol PE=3 SV=1
Length = 1105
Score = 43.1 bits (100), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 49/120 (40%), Gaps = 12/120 (10%)
Query: 200 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRD 259
YTDG K YI T + F++Y E + EL AI C + PE
Sbjct: 577 YTDGGKKNGRGSLGYIAST-GEKFRIYEEGTNQQLELRAI----EEAC--KQGPE----- 624
Query: 260 SVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVD 319
+ I TDS+ + + + N I +I EL + W+P H GI N ++D
Sbjct: 625 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELMHNKEKIGVHWVPGHKGIPQNEEID 684
Score = 37.4 bits (85), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 45/119 (37%), Gaps = 12/119 (10%)
Query: 516 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIFRD 575
YTDG K YI T + F++Y E + EL AI +
Sbjct: 577 YTDGGKKNGRGSLGYIAST-GEKFRIYEEGTNQQLELRAIEEACKQ-----------GPE 624
Query: 576 SIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQV 634
+ I TDS+ + + + N I +I EL + W+P H GI N ++
Sbjct: 625 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELMHNKEKIGVHWVPGHKGIPQNEEI 683
>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 = 43.1 bits (100), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 55/126 (43%), Gaps = 19/126 (15%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI + L +
Sbjct: 1023 YVDGAANRETKQGKAGYVTDKGRQKVISITETTNQKTELQAIHLALQDSGS--------- 1073
Query: 258 RDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 315
V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI GN
Sbjct: 1074 --EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKDRVYLSWVPAHKGIGGN 1127
Query: 316 VQVDEL 321
QVD+L
Sbjct: 1128 EQVDKL 1133
Score = 39.3 bits (90), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 19/123 (15%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI + L S
Sbjct: 1023 YVDGAANRETKQGKAGYVTDKGRQKVISITETTNQKTELQAIHLALQDSGS--------- 1073
Query: 574 RDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI GN
Sbjct: 1074 --EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKDRVYLSWVPAHKGIGGN 1127
Query: 632 VQV 634
QV
Sbjct: 1128 EQV 1130
>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 = 42.7 bits (99), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 44/132 (33%), Positives = 59/132 (44%), Gaps = 31/132 (23%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI++ L
Sbjct: 1028 YIDG---AANRETKLGKAGYVTDRGKQKVVSLTETTNQKTELQAIYLAL----------- 1073
Query: 255 YIFRDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSH 309
+DS V I TDS+ +L + + S + LVN I I EL I V W+P+H
Sbjct: 1074 ---QDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAH 1126
Query: 310 LGIAGNVQVDEL 321
GI GN QVD+L
Sbjct: 1127 KGIGGNEQVDKL 1138
Score = 37.7 bits (86), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 56/129 (43%), Gaps = 31/129 (24%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI++ L
Sbjct: 1028 YIDG---AANRETKLGKAGYVTDRGKQKVVSLTETTNQKTELQAIYLAL----------- 1073
Query: 571 YIFRDS---IFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSH 625
+DS + I TDS+ +L + + S + LVN I I EL I V W+P+H
Sbjct: 1074 ---QDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAH 1126
Query: 626 LGIAGNVQV 634
GI GN QV
Sbjct: 1127 KGIGGNEQV 1135
>sp|P35956|POL_VILVK Pol polyprotein OS=Maedi visna virus (strain KV1772) GN=pol PE=1
SV=1
Length = 1101
Score = 42.4 bits (98), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 50/120 (41%), Gaps = 12/120 (10%)
Query: 200 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRD 259
YTDG K YIT T + F+++ E + EL AI C + PE
Sbjct: 573 YTDGGKKNGRGSLGYITST-GEKFRIHEEGTNQQLELRAI----EEAC--KQGPE----- 620
Query: 260 SVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVD 319
+ I TDS+ + + + N I +I EL + W+P H GI N ++D
Sbjct: 621 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 680
Score = 37.0 bits (84), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 46/119 (38%), Gaps = 12/119 (10%)
Query: 516 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIFRD 575
YTDG K YIT T + F+++ E + EL AI +
Sbjct: 573 YTDGGKKNGRGSLGYITST-GEKFRIHEEGTNQQLELRAIEEACKQ-----------GPE 620
Query: 576 SIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQV 634
+ I TDS+ + + + N I +I EL + W+P H GI N ++
Sbjct: 621 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEI 679
>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 = 42.4 bits (98), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 56/129 (43%), Gaps = 25/129 (19%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI + L +
Sbjct: 1023 YVDG---AANRETKLGKAGYVTDRGRQKVVPLTETTNQKTELQAIHLALQDSGS------ 1073
Query: 255 YIFRDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1074 -----EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IQKEKVYLSWVPAHKGI 1124
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1125 GGNEQVDKL 1133
Score = 38.5 bits (88), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 53/126 (42%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI + L S
Sbjct: 1023 YVDG---AANRETKLGKAGYVTDRGRQKVVPLTETTNQKTELQAIHLALQDSGS------ 1073
Query: 571 YIFRDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1074 -----EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IQKEKVYLSWVPAHKGI 1124
Query: 629 AGNVQV 634
GN QV
Sbjct: 1125 GGNEQV 1130
>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 = 42.4 bits (98), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 58/129 (44%), Gaps = 25/129 (19%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q + + +EL AI++ L
Sbjct: 1025 YVDGASNRETKVGKAGYVTDKGRQKVITLTDTTNQKTELQAIYLAL-------------- 1070
Query: 258 RDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
+DS V I TDS+ +L + + S + LVN I I EL I V W+P+H GI
Sbjct: 1071 QDSGIEVNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAHKGI 1126
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1127 GGNEQVDKL 1135
Score = 37.7 bits (86), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 37/123 (30%), Positives = 54/123 (43%), Gaps = 19/123 (15%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q + + +EL AI++ L S E
Sbjct: 1025 YVDGASNRETKVGKAGYVTDKGRQKVITLTDTTNQKTELQAIYLALQ-----DSGIE--- 1076
Query: 574 RDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
+ I TDS+ +L + + S + LVN I I EL I V W+P+H GI GN
Sbjct: 1077 ---VNIVTDSQYALGIIQAQPDKSESELVNQI---IEEL-IKKEKVYLSWVPAHKGIGGN 1129
Query: 632 VQV 634
QV
Sbjct: 1130 EQV 1132
>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 = 42.0 bits (97), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 36/126 (28%), Positives = 55/126 (43%), Gaps = 19/126 (15%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI + L +
Sbjct: 1023 YVDGASNRETKKGKAGYVTDRGRQKAVSLTETTNQKAELQAIQLALQDSGS--------- 1073
Query: 258 RDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 315
V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI GN
Sbjct: 1074 --EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKEKVYLSWVPAHKGIGGN 1127
Query: 316 VQVDEL 321
QVD+L
Sbjct: 1128 EQVDKL 1133
Score = 38.1 bits (87), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 19/123 (15%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI + L S
Sbjct: 1023 YVDGASNRETKKGKAGYVTDRGRQKAVSLTETTNQKAELQAIQLALQDSGS--------- 1073
Query: 574 RDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGN 631
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI GN
Sbjct: 1074 --EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKEKVYLSWVPAHKGIGGN 1127
Query: 632 VQV 634
QV
Sbjct: 1128 EQV 1130
>sp|P12451|POL_HV2SB Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate SBLISY) GN=gag-pol PE=3 SV=3
Length = 1462
Score = 42.0 bits (97), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 54/124 (43%), Gaps = 15/124 (12%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
YTDGS + + YIT+ ++ + + +EL A M + T S P+
Sbjct: 1050 YTDGSCNRQSKEGKAGYITDRGKDKVRILEQTTNQQAELEAFAMAV-----TDSGPK--- 1101
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 317
V I DS+ + + P + I+ KI E I + W+P+H GI GN +
Sbjct: 1102 ---VNIVVDSQYVMGIVTG--QPAESESRIVNKIIEEMIKKEAIYVAWVPAHKGIGGNQE 1156
Query: 318 VDEL 321
+D L
Sbjct: 1157 IDHL 1160
Score = 37.4 bits (85), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 53/124 (42%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + YIT+ ++ + + +EL A M ++ S I
Sbjct: 1050 YTDGSCNRQSKEGKAGYITDRGKDKVRILEQTTNQQAELEAFAMAVTD----SGPKVNIV 1105
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++ + S + +VN I+ E I + W+P+H GI GN +
Sbjct: 1106 VDSQYVM-----GIVTGQPAESESRIVNKII----EEMIKKEAIYVAWVPAHKGIGGNQE 1156
Query: 634 VPFL 637
+ L
Sbjct: 1157 IDHL 1160
>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 = 42.0 bits (97), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 40/132 (30%), Positives = 58/132 (43%), Gaps = 31/132 (23%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T Q + + +EL AI++ L
Sbjct: 1028 YVDG---AANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLAL----------- 1073
Query: 255 YIFRDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSH 309
+DS V I TDS+ +L + + S + LVN I+ ++ I V W+P+H
Sbjct: 1074 ---QDSGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIEQL----IKKEKVYLAWVPAH 1126
Query: 310 LGIAGNVQVDEL 321
GI GN QVD+L
Sbjct: 1127 KGIGGNEQVDKL 1138
Score = 37.0 bits (84), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 54/126 (42%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T Q + + +EL AI++ L S E
Sbjct: 1028 YVDG---AANRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIYLALQ-----DSGLE 1079
Query: 571 YIFRDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1080 ------VNIVTDSQYALGIIQAQPDQSESELVNQIIEQL----IKKEKVYLAWVPAHKGI 1129
Query: 629 AGNVQV 634
GN QV
Sbjct: 1130 GGNEQV 1135
>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 = 41.6 bits (96), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 55/127 (43%), Gaps = 21/127 (16%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI + L +
Sbjct: 1021 YVDG---AANRETKLGKAGYVTDRGRQKVVSLTETTNQKTELHAIHLALQDSGS------ 1071
Query: 255 YIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
V I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI G
Sbjct: 1072 -----EVNIVTDSQYALGIIQ--AQPDRSESEIVNQIIEKLIEKEKVYLSWVPAHKGIGG 1124
Query: 315 NVQVDEL 321
N QVD+L
Sbjct: 1125 NEQVDKL 1131
Score = 38.1 bits (87), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 52/124 (41%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI + L S
Sbjct: 1021 YVDG---AANRETKLGKAGYVTDRGRQKVVSLTETTNQKTELHAIHLALQDSGS------ 1071
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+ I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI G
Sbjct: 1072 -----EVNIVTDSQYALGIIQ--AQPDRSESEIVNQIIEKLIEKEKVYLSWVPAHKGIGG 1124
Query: 631 NVQV 634
N QV
Sbjct: 1125 NEQV 1128
>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 = 41.6 bits (96), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 55/127 (43%), Gaps = 21/127 (16%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN YIT+ Q E + +EL AI + L +
Sbjct: 1027 YVDG---AANRETKLGKAGYITDRGRQKVVSLTETTNQKTELQAIQLALQDSGS------ 1077
Query: 255 YIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
V I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI G
Sbjct: 1078 -----EVNIVTDSQYALGIIQ--AHPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGG 1130
Query: 315 NVQVDEL 321
N QVD+L
Sbjct: 1131 NEQVDKL 1137
Score = 37.7 bits (86), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 52/124 (41%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN YIT+ Q E + +EL AI + L S
Sbjct: 1027 YVDG---AANRETKLGKAGYITDRGRQKVVSLTETTNQKTELQAIQLALQDSGS------ 1077
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+ I TDS+ +L ++ P+ + I+ +I E I V W+P+H GI G
Sbjct: 1078 -----EVNIVTDSQYALGIIQ--AHPDKSESEIVNQIIEQLIQKERVYLSWVPAHKGIGG 1130
Query: 631 NVQV 634
N QV
Sbjct: 1131 NEQV 1134
>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 = 41.6 bits (96), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 55/127 (43%), Gaps = 21/127 (16%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI + L +
Sbjct: 1032 YVDG---AANRETKIGKAGYVTDRGRQKIVSLTETTNQKTELQAIQLALQDSGS------ 1082
Query: 255 YIFRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
V I TDS+ +L + + P+ + I+ +I E I V W+P+H GI G
Sbjct: 1083 -----EVNIVTDSQYALGII--LAQPDKSESEIVNQIIEQLISKERVYLSWVPAHKGIGG 1135
Query: 315 NVQVDEL 321
N QVD+L
Sbjct: 1136 NEQVDKL 1142
Score = 38.1 bits (87), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 52/124 (41%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI + L S
Sbjct: 1032 YVDG---AANRETKIGKAGYVTDRGRQKIVSLTETTNQKTELQAIQLALQDSGS------ 1082
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+ I TDS+ +L + + P+ + I+ +I E I V W+P+H GI G
Sbjct: 1083 -----EVNIVTDSQYALGII--LAQPDKSESEIVNQIIEQLISKERVYLSWVPAHKGIGG 1135
Query: 631 NVQV 634
N QV
Sbjct: 1136 NEQV 1139
>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 = 41.6 bits (96), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 55/124 (44%), Gaps = 15/124 (12%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T+ Q E + +EL AI + L +
Sbjct: 1023 YVDGAAHRETKKGRAGYVTDRGRQKVVSITETTNQKAELQAICLALQDSGS--------- 1073
Query: 258 RDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 317
V I TDS+ +L ++ P+ ++++ +I E I + W+P+H GI GN Q
Sbjct: 1074 --EVNIVTDSQYALGIIQ--AQPDKSESDLVNQIIEQLIKKERIYLSWVPAHKGIGGNEQ 1129
Query: 318 VDEL 321
VD+L
Sbjct: 1130 VDKL 1133
Score = 37.7 bits (86), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 31/121 (25%), Positives = 52/121 (42%), Gaps = 15/121 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T+ Q E + +EL AI + L S
Sbjct: 1023 YVDGAAHRETKKGRAGYVTDRGRQKVVSITETTNQKAELQAICLALQDSGS--------- 1073
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
+ I TDS+ +L ++ P+ ++++ +I E I + W+P+H GI GN Q
Sbjct: 1074 --EVNIVTDSQYALGIIQ--AQPDKSESDLVNQIIEQLIKKERIYLSWVPAHKGIGGNEQ 1129
Query: 634 V 634
V
Sbjct: 1130 V 1130
>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 = 41.6 bits (96), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 57/130 (43%), Gaps = 27/130 (20%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T Q + + +EL AI++ L
Sbjct: 1028 YVDG---AANRETKLGKAGYVTNKGRQKVVSLTDTTNQKTELQAIYLAL----------- 1073
Query: 255 YIFRDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 311
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1074 ---QDSGLEVNIVTDSQYALGIIQ--AQPDRSESELVSQIIEQLIKKEKVYLAWVPAHKG 1128
Query: 312 IAGNVQVDEL 321
I GN QVD+L
Sbjct: 1129 IGGNEQVDKL 1138
Score = 36.6 bits (83), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 54/127 (42%), Gaps = 27/127 (21%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T Q + + +EL AI++ L
Sbjct: 1028 YVDG---AANRETKLGKAGYVTNKGRQKVVSLTDTTNQKTELQAIYLAL----------- 1073
Query: 571 YIFRDS---IFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 627
+DS + I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1074 ---QDSGLEVNIVTDSQYALGIIQ--AQPDRSESELVSQIIEQLIKKEKVYLAWVPAHKG 1128
Query: 628 IAGNVQV 634
I GN QV
Sbjct: 1129 IGGNEQV 1135
>sp|Q76634|POL_HV2UC Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype B
(isolate UC1) GN=gag-pol PE=3 SV=3
Length = 1471
Score = 41.6 bits (96), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 56/125 (44%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ K+ + + +EL A + L S P+ I
Sbjct: 1051 YTDGSCNRASKEGKAGYVTDRGKDKVKVLEQTTNQQAELEAFALALQD-----SGPQVNI 1105
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++A + + + LVN I+ E I + W+P+H G+ GN
Sbjct: 1106 IVDSQYVM-----GIVAGQPTETESPLVNQII----EEMIKKEAIYVGWVPAHRGLGGNQ 1156
Query: 317 QVDEL 321
+VD L
Sbjct: 1157 EVDHL 1161
Score = 37.4 bits (85), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 53/124 (42%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ K+ + + +EL A + L S I
Sbjct: 1051 YTDGSCNRASKEGKAGYVTDRGKDKVKVLEQTTNQQAELEAFALALQD----SGPQVNII 1106
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++A + + + LVN I+ E I + W+P+H G+ GN +
Sbjct: 1107 VDSQYVM-----GIVAGQPTETESPLVNQII----EEMIKKEAIYVGWVPAHRGLGGNQE 1157
Query: 634 VPFL 637
V L
Sbjct: 1158 VDHL 1161
>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 = 41.6 bits (96), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 57/127 (44%), Gaps = 21/127 (16%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + + Y+T+ Q + + +EL AI + L
Sbjct: 1028 YVDGAANRDTKSGKAGYVTDRGRQKVVSLADTTNQKTELQAIHLAL-------------- 1073
Query: 258 RDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI G
Sbjct: 1074 QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGG 1131
Query: 315 NVQVDEL 321
N QVD+L
Sbjct: 1132 NEQVDKL 1138
Score = 36.6 bits (83), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 21/124 (16%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + + Y+T+ Q + + +EL AI + L
Sbjct: 1028 YVDGAANRDTKSGKAGYVTDRGRQKVVSLADTTNQKTELQAIHLAL-------------- 1073
Query: 574 RDS---IFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+DS + I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI G
Sbjct: 1074 QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGG 1131
Query: 631 NVQV 634
N QV
Sbjct: 1132 NEQV 1135
>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 = 41.2 bits (95), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 58/130 (44%), Gaps = 27/130 (20%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q + + + +EL AI + L
Sbjct: 1029 YVDG---AANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQAINLAL----------- 1074
Query: 255 YIFRDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 311
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1075 ---QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKG 1129
Query: 312 IAGNVQVDEL 321
I GN QVD+L
Sbjct: 1130 IGGNEQVDKL 1139
Score = 36.6 bits (83), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 54/124 (43%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q + + + +EL AI + L S E
Sbjct: 1029 YVDG---AANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQAINLALQ-----DSGLE 1080
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+ I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI G
Sbjct: 1081 ------VNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGG 1132
Query: 631 NVQV 634
N QV
Sbjct: 1133 NEQV 1136
>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 = 41.2 bits (95), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 58/130 (44%), Gaps = 27/130 (20%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q + + + +EL AI + L
Sbjct: 1025 YVDG---AANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQAINLAL----------- 1070
Query: 255 YIFRDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 311
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1071 ---QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKG 1125
Query: 312 IAGNVQVDEL 321
I GN QVD+L
Sbjct: 1126 IGGNEQVDKL 1135
Score = 36.6 bits (83), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 55/127 (43%), Gaps = 27/127 (21%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q + + + +EL AI + L
Sbjct: 1025 YVDG---AANRETKLGKAGYVTDRGRQKVVPFTDTTNQKTELQAINLAL----------- 1070
Query: 571 YIFRDS---IFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 627
+DS + I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1071 ---QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKG 1125
Query: 628 IAGNVQV 634
I GN QV
Sbjct: 1126 IGGNEQV 1132
>sp|P18042|POL_HV2G1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 2 subtype A
(isolate Ghana-1) GN=gag-pol PE=1 SV=4
Length = 1464
Score = 41.2 bits (95), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 55/125 (44%), Gaps = 17/125 (13%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEY-I 256
YTDGS + + Y+T+ ++ + +EL A M L T S P+ I
Sbjct: 1052 YTDGSCNRQSKEGKARYVTDRGRDKVRVLERTTNQQAELEAFAMTL-----TDSGPKVNI 1106
Query: 257 FRDSVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNV 316
DS ++ ++ + S + +VN I+ E I V W+P+H GI GN
Sbjct: 1107 IVDSQYVM-----GIVVGQPTESESRIVNQII----EDMIKKEAVYVAWVPAHKGIGGNQ 1157
Query: 317 QVDEL 321
+VD L
Sbjct: 1158 EVDHL 1162
Score = 37.0 bits (84), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 15/124 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
YTDGS + + Y+T+ ++ + +EL A M L+ S I
Sbjct: 1052 YTDGSCNRQSKEGKARYVTDRGRDKVRVLERTTNQQAELEAFAMTLTD----SGPKVNII 1107
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
DS ++ ++ + S + +VN I+ E I V W+P+H GI GN +
Sbjct: 1108 VDSQYVM-----GIVVGQPTESESRIVNQII----EDMIKKEAVYVAWVPAHKGIGGNQE 1158
Query: 634 VPFL 637
V L
Sbjct: 1159 VDHL 1162
>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 = 40.8 bits (94), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 33/129 (25%), Positives = 60/129 (46%), Gaps = 25/129 (19%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+TE Q E + +EL+A+ + L
Sbjct: 1029 YVDG---AANRNTKLGKAGYVTEQGKQNIIKLEETTNQKAELMAVLIALQD--------- 1076
Query: 255 YIFRDSVFICTDSKS--SLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
++ V I TDS+ +++ + S + +V I+ ++ + + + +T W+P+H GI
Sbjct: 1077 --SKEQVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTKKERVYLT----WVPAHKGI 1130
Query: 313 AGNVQVDEL 321
GN ++D+L
Sbjct: 1131 GGNEKIDKL 1139
Score = 36.2 bits (82), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 30/126 (23%), Positives = 57/126 (45%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+TE Q E + +EL+A+ + L
Sbjct: 1029 YVDG---AANRNTKLGKAGYVTEQGKQNIIKLEETTNQKAELMAVLIALQD--------- 1076
Query: 571 YIFRDSIFICTDSKS--SLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
++ + I TDS+ +++ + S + +V I+ ++ + + + +T W+P+H GI
Sbjct: 1077 --SKEQVNIVTDSQYVLGIISSQPTQSDSPIVQQIIEELTKKERVYLT----WVPAHKGI 1130
Query: 629 AGNVQV 634
GN ++
Sbjct: 1131 GGNEKI 1136
>sp|P03370|POL_VILV Pol polyprotein OS=Maedi visna virus (strain 1514) GN=pol PE=3 SV=1
Length = 1105
Score = 40.8 bits (94), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 12/120 (10%)
Query: 200 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRD 259
YTDG K YI T + F+++ E + EL AI C + PE
Sbjct: 577 YTDGGKKNGRGSLGYIAST-GEKFRIHEEGTNQQLELRAI----EEAC--KQGPE----- 624
Query: 260 SVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVD 319
+ I TDS+ + + + N I +I EL + W+P H GI N ++D
Sbjct: 625 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 684
>sp|P23427|POL_VILV2 Pol polyprotein OS=Maedi visna virus (strain 1514 / clone LV1-1KS2)
GN=pol PE=3 SV=1
Length = 1105
Score = 40.8 bits (94), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 49/120 (40%), Gaps = 12/120 (10%)
Query: 200 YTDGSKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIFRD 259
YTDG K YI T + F+++ E + EL AI C + PE
Sbjct: 577 YTDGGKKNGRGSLGYIAST-GEKFRIHEEGTNQQLELRAI----EEAC--KQGPE----- 624
Query: 260 SVFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQVD 319
+ I TDS+ + + + N I +I EL + W+P H GI N ++D
Sbjct: 625 KMNIVTDSRYAYEFMLRNWDEEVIRNPIQARIMELVHNKEKIGVHWVPGHKGIPQNEEID 684
>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 = 40.8 bits (94), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 39/129 (30%), Positives = 56/129 (43%), Gaps = 25/129 (19%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q E + +EL AI + L +
Sbjct: 1024 YVDG---AANREIKMGKAGYVTDRGRQKIVSITETTNQKTELQAIQLALQDSGS------ 1074
Query: 255 YIFRDSVFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1075 -----EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKERVYLSWVPAHKGI 1125
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1126 GGNEQVDKL 1134
Score = 37.0 bits (84), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 53/126 (42%), Gaps = 25/126 (19%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q E + +EL AI + L S
Sbjct: 1024 YVDG---AANREIKMGKAGYVTDRGRQKIVSITETTNQKTELQAIQLALQDSGS------ 1074
Query: 571 YIFRDSIFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+ I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1075 -----EVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKERVYLSWVPAHKGI 1125
Query: 629 AGNVQV 634
GN QV
Sbjct: 1126 GGNEQV 1131
>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 = 40.8 bits (94), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 55/127 (43%), Gaps = 21/127 (16%)
Query: 200 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG+ + Y+T Q + + +EL AI + L
Sbjct: 1034 YVDGAANRETKKGKAGYVTNRGRQKVVSLTDTTNQKTELQAIHLAL-------------- 1079
Query: 258 RDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 314
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI G
Sbjct: 1080 QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGG 1137
Query: 315 NVQVDEL 321
N QVD+L
Sbjct: 1138 NEQVDKL 1144
Score = 35.8 bits (81), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 51/121 (42%), Gaps = 15/121 (12%)
Query: 516 YTDGS--KTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG+ + Y+T Q + + +EL AI + L S E
Sbjct: 1034 YVDGAANRETKKGKAGYVTNRGRQKVVSLTDTTNQKTELQAIHLALQ-----DSGLE--- 1085
Query: 574 RDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAGNVQ 633
+ I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI GN Q
Sbjct: 1086 ---VNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGGNEQ 1140
Query: 634 V 634
V
Sbjct: 1141 V 1141
>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 = 40.4 bits (93), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 38/129 (29%), Positives = 56/129 (43%), Gaps = 25/129 (19%)
Query: 200 YTDG--SKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPEYIF 257
Y DG S+ Y+T Q + + +EL AI + L
Sbjct: 1040 YVDGAASRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIHLAL-------------- 1085
Query: 258 RDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 312
+DS V I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1086 QDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKEKVYLAWVPAHKGI 1141
Query: 313 AGNVQVDEL 321
GN QVD+L
Sbjct: 1142 GGNEQVDKL 1150
Score = 35.8 bits (81), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 53/126 (42%), Gaps = 25/126 (19%)
Query: 516 YTDG--SKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG S+ Y+T Q + + +EL AI + L
Sbjct: 1040 YVDGAASRETKLGKAGYVTNRGRQKVVTLTDTTNQKTELQAIHLAL-------------- 1085
Query: 574 RDS---IFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+DS + I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1086 QDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKEKVYLAWVPAHKGI 1141
Query: 629 AGNVQV 634
GN QV
Sbjct: 1142 GGNEQV 1147
>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 = 40.4 bits (93), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 47/89 (52%), Gaps = 12/89 (13%)
Query: 241 MLLSHICNTRSRPEYI---FRDS---VFICTDSKSSL--LALKNIMSPNHLVNNILVKIN 292
+ L+H N ++ + I +DS V I TDS+ +L + + S + LVN I+ ++
Sbjct: 1066 VTLTHTTNQKTELQAIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL- 1124
Query: 293 ELKILNITVKFLWIPSHLGIAGNVQVDEL 321
I V W+P+H GI GN QVD+L
Sbjct: 1125 ---IKKEKVYLAWVPAHKGIGGNEQVDKL 1150
Score = 34.7 bits (78), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 52/126 (41%), Gaps = 25/126 (19%)
Query: 516 YTDG--SKTAANSGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTEYIF 573
Y DG S+ Y+T Q + +EL AI + L
Sbjct: 1040 YVDGAASRETKLGKAGYVTNRGRQKVVTLTHTTNQKTELQAIHLAL-------------- 1085
Query: 574 RDS---IFICTDSKSSL--LALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGI 628
+DS + I TDS+ +L + + S + LVN I+ ++ I V W+P+H GI
Sbjct: 1086 QDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQL----IKKEKVYLAWVPAHKGI 1141
Query: 629 AGNVQV 634
GN QV
Sbjct: 1142 GGNEQV 1147
>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 = 40.4 bits (93), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 38/130 (29%), Positives = 57/130 (43%), Gaps = 27/130 (20%)
Query: 200 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHICNTRSRPE 254
Y DG AAN Y+T+ Q + + +EL AI + L
Sbjct: 1027 YVDG---AANRETKLGKAGYVTDRGRQKVVSLTDTTNQKTELQAIHLAL----------- 1072
Query: 255 YIFRDS---VFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLG 311
+DS V I TDS+ +L ++ P+ + ++ +I E I V W+P+H G
Sbjct: 1073 ---QDSGLEVNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKG 1127
Query: 312 IAGNVQVDEL 321
I GN QVD+L
Sbjct: 1128 IGGNEQVDKL 1137
Score = 35.4 bits (80), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 53/124 (42%), Gaps = 21/124 (16%)
Query: 516 YTDGSKTAAN-----SGCAYITETESQVFKLYNENSVFSSELLAIFMLLSHIYSTSSRTE 570
Y DG AAN Y+T+ Q + + +EL AI + L S E
Sbjct: 1027 YVDG---AANRETKLGKAGYVTDRGRQKVVSLTDTTNQKTELQAIHLALQ-----DSGLE 1078
Query: 571 YIFRDSIFICTDSKSSLLALKNIMSPNHLVNNILVKINELKILNITVKFLWIPSHLGIAG 630
+ I TDS+ +L ++ P+ + ++ +I E I V W+P+H GI G
Sbjct: 1079 ------VNIVTDSQYALGIIQ--AQPDKSESELVSQIIEQLIKKEKVYLAWVPAHKGIGG 1130
Query: 631 NVQV 634
N QV
Sbjct: 1131 NEQV 1134
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
0.320 0.134 0.392
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 219,380,436
Number of Sequences: 539616
Number of extensions: 8745113
Number of successful extensions: 24116
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 47
Number of HSP's that attempted gapping in prelim test: 23933
Number of HSP's gapped (non-prelim): 222
length of query: 650
length of database: 191,569,459
effective HSP length: 124
effective length of query: 526
effective length of database: 124,657,075
effective search space: 65569621450
effective search space used: 65569621450
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 65 (29.6 bits)