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= 021457
(312 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 = 58.5 bits (140), Expect = 5e-08, Method: Composition-based stats.
Identities = 27/65 (41%), Positives = 38/65 (58%), Gaps = 4/65 (6%)
Query: 174 DPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF--ICKKG 231
+P +G C+NCG+EGH+A NCR+ RKK C+ CG H ++ C + F I G
Sbjct: 387 NPIRKGTIKCFNCGKEGHIARNCRAP--RKKGCWKCGQEGHQMKDCRNGKQFFRQILASG 444
Query: 232 GHRAK 236
GH A+
Sbjct: 445 GHEAR 449
Score = 44.3 bits (103), Expect = 0.001, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRN 267
CF C K GH A++C K G C KCG GH M CRN
Sbjct: 396 CFNCGKEGHIARNCRAPRKKG------CWKCGQEGHQMKDCRN 432
>sp|O65639|CSP1_ARATH Cold shock protein 1 OS=Arabidopsis thaliana GN=CSP1 PE=2 SV=1
Length = 299
Score = 57.8 bits (138), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 41/91 (45%), Gaps = 13/91 (14%)
Query: 183 CYNCGEEGHMAVNC---------RSAVKRKKPCFVCGSLEHGVRQCSK----AQDCFICK 229
CY CG+ GH A +C RS C+ CG + H R C+ ++ C+ C
Sbjct: 200 CYTCGDVGHFARDCTQKVAAGNVRSGGGGSGTCYSCGGVGHIARDCATKRQPSRGCYQCG 259
Query: 230 KGGHRAKDCPDKHKSGFQNAQVCLKCGDSGH 260
GH A+DC + G N C KCG GH
Sbjct: 260 GSGHLARDCDQRGSGGGGNDNACYKCGKEGH 290
Score = 48.1 bits (113), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 43/107 (40%), Gaps = 29/107 (27%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKK---------PCFVCGSLEHGVRQCSKAQ---------- 223
CYNCG+ GH A +C SA + C+ CG + H R C++
Sbjct: 134 CYNCGDTGHFARDCTSAGNGDQRGATKGGNDGCYTCGDVGHVARDCTQKSVGNGDQRGAV 193
Query: 224 -----DCFICKKGGHRAKDCPDK-----HKSGFQNAQVCLKCGDSGH 260
C+ C GH A+DC K +SG + C CG GH
Sbjct: 194 KGGNDGCYTCGDVGHFARDCTQKVAAGNVRSGGGGSGTCYSCGGVGH 240
Score = 43.5 bits (101), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 47/122 (38%), Gaps = 29/122 (23%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKP---------CFVCGSLEHGVRQCSKAQD--------- 224
CYNCGE GH++ +C C+ CG H R C+ A +
Sbjct: 102 CYNCGELGHISKDCGIGGGGGGGERRSRGGEGCYNCGDTGHFARDCTSAGNGDQRGATKG 161
Query: 225 ----CFICKKGGHRAKDCPDKH-KSGFQNAQV------CLKCGDSGHDMFSCRNSYSLDD 273
C+ C GH A+DC K +G Q V C CGD GH C + +
Sbjct: 162 GNDGCYTCGDVGHVARDCTQKSVGNGDQRGAVKGGNDGCYTCGDVGHFARDCTQKVAAGN 221
Query: 274 LK 275
++
Sbjct: 222 VR 223
Score = 33.1 bits (74), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 176 PDRGWQTCYNCGEEGHMAVNC----RSAVKRKKPCFVCGSLEHGVRQCS 220
P RG CY CG GH+A +C C+ CG H R+CS
Sbjct: 251 PSRG---CYQCGGSGHLARDCDQRGSGGGGNDNACYKCGKEGHFARECS 296
>sp|Q8WW36|ZCH13_HUMAN Zinc finger CCHC domain-containing protein 13 OS=Homo sapiens
GN=ZCCHC13 PE=2 SV=1
Length = 166
Score = 57.8 bits (138), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 47/87 (54%), Gaps = 14/87 (16%)
Query: 183 CYNCGEEGHMAVNCRSAVK-RKKPCFVCGSLEHGVRQC--SKAQDCFICKKGGHRAKDCP 239
CYNCG GH+A +C+ + R++ C+ CG L H R C K Q C+ C K GH KDC
Sbjct: 67 CYNCGRSGHIAKDCKDPKRERRQHCYTCGRLGHLARDCDRQKEQKCYSCGKLGHIQKDC- 125
Query: 240 DKHKSGFQNAQV-CLKCGDSGHDMFSC 265
AQV C +CG+ GH +C
Sbjct: 126 ---------AQVKCYRCGEIGHVAINC 143
Score = 39.3 bits (90), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 3/65 (4%)
Query: 174 DPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGH 233
DP Q CY CG GH+A +C ++++ C+ CG L H + C++ + C+ C + GH
Sbjct: 82 DPKRERRQHCYTCGRLGHLARDCDR--QKEQKCYSCGKLGHIQKDCAQVK-CYRCGEIGH 138
Query: 234 RAKDC 238
A +C
Sbjct: 139 VAINC 143
Score = 32.7 bits (73), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 33/79 (41%), Gaps = 25/79 (31%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDK 241
TCY CGE G A NC + G++ C+ C + GH AKDC D
Sbjct: 46 TCYCCGESGRNAKNC----------VLLGNI------------CYNCGRSGHIAKDCKDP 83
Query: 242 HKSGFQNAQVCLKCGDSGH 260
+ + Q C CG GH
Sbjct: 84 KR---ERRQHCYTCGRLGH 99
>sp|Q04832|HEXP_LEIMA DNA-binding protein HEXBP OS=Leishmania major GN=HEXBP PE=4 SV=1
Length = 271
Score = 57.8 bits (138), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 35/91 (38%), Positives = 44/91 (48%), Gaps = 12/91 (13%)
Query: 182 TCYNCGEEGHMAVNCRSAV----KRKKPCFVCGSLEHGVRQC--------SKAQDCFICK 229
+C NCG+EGH A C A +R CF CG H R+C + A CF C
Sbjct: 17 SCRNCGKEGHYARECPEADSKGDERSTTCFRCGEEGHMSRECPNEARSGAAGAMTCFRCG 76
Query: 230 KGGHRAKDCPDKHKSGFQNAQVCLKCGDSGH 260
+ GH ++DCP+ K G C KCG GH
Sbjct: 77 EAGHMSRDCPNSAKPGAAKGFECYKCGQEGH 107
Score = 51.6 bits (122), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 51/119 (42%), Gaps = 31/119 (26%)
Query: 179 GWQTCYNCGEEGHMAVNCRSAVKRKKP----CFVCGSLEHGVRQCSKAQD---------- 224
G TC+ CGE GHM+ +C ++ K C+ CG H R C +Q
Sbjct: 68 GAMTCFRCGEAGHMSRDCPNSAKPGAAKGFECYKCGQEGHLSRDCPSSQGGSRGGYGQKR 127
Query: 225 --------------CFICKKGGHRAKDCPDKHKSGFQNA--QVCLKCGDSGHDMFSCRN 267
C+ C GH ++DCP+ + G+ A + C KCGD+GH C N
Sbjct: 128 GRSGAQGGYSGDRTCYKCGDAGHISRDCPNG-QGGYSGAGDRTCYKCGDAGHISRDCPN 185
Score = 47.4 bits (111), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 46/96 (47%), Gaps = 15/96 (15%)
Query: 179 GWQTCYNCGEEGHMAVNCRS-----AVKRKKPCFVCGSLEHGVRQCSKAQD--------- 224
G +TCY CG+ GH++ +C + + + C+ CG H R C Q
Sbjct: 138 GDRTCYKCGDAGHISRDCPNGQGGYSGAGDRTCYKCGDAGHISRDCPNGQGGYSGAGDRK 197
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGH 260
C+ C + GH +++CP +G + + C KCG GH
Sbjct: 198 CYKCGESGHMSRECPSAGSTGSGD-RACYKCGKPGH 232
Score = 47.4 bits (111), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 34/109 (31%), Positives = 49/109 (44%), Gaps = 32/109 (29%)
Query: 183 CYNCGEEGHMAVNCRSAV---------KRKKP-----------CFVCGSLEHGVRQCSKA 222
CY CG+EGH++ +C S+ KR + C+ CG H R C
Sbjct: 99 CYKCGQEGHLSRDCPSSQGGSRGGYGQKRGRSGAQGGYSGDRTCYKCGDAGHISRDCPNG 158
Query: 223 QD---------CFICKKGGHRAKDCPDKHKSGFQNA--QVCLKCGDSGH 260
Q C+ C GH ++DCP+ + G+ A + C KCG+SGH
Sbjct: 159 QGGYSGAGDRTCYKCGDAGHISRDCPNG-QGGYSGAGDRKCYKCGESGH 206
Score = 47.0 bits (110), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 53/108 (49%), Gaps = 20/108 (18%)
Query: 179 GWQTCYNCGEEGHMAVNC-------RSAVKRKKPCFVCGSLEHGVRQCSKA-------QD 224
G +TCY CG+ GH++ +C A RK C+ CG H R+C A +
Sbjct: 166 GDRTCYKCGDAGHISRDCPNGQGGYSGAGDRK--CYKCGESGHMSRECPSAGSTGSGDRA 223
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNA----QVCLKCGDSGHDMFSCRNS 268
C+ C K GH +++CP+ S + + C KCG++GH C +S
Sbjct: 224 CYKCGKPGHISRECPEAGGSYGGSRGGGDRTCYKCGEAGHISRDCPSS 271
>sp|P24736|GAG_HV1U4 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate U455) GN=gag PE=1 SV=3
Length = 493
Score = 57.0 bits (136), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 45/80 (56%), Gaps = 10/80 (12%)
Query: 150 EGVTTVEISDNIVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVC 209
E ++ V+ + ++ R RGPR C+NCG+EGH+A NCR+ RKK C+ C
Sbjct: 361 EAMSQVQQTSIMMQRGNFRGPRRIK--------CFNCGKEGHLAKNCRAP--RKKGCWKC 410
Query: 210 GSLEHGVRQCSKAQDCFICK 229
G H ++ C++ Q F+ K
Sbjct: 411 GKEGHQMKDCTERQANFLGK 430
Score = 41.2 bits (95), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 35/84 (41%), Gaps = 8/84 (9%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDK 241
C G GH A A+ + + + ++ G + + CF C K GH AK+C
Sbjct: 345 ACQGVGGPGHKARVLAEAMSQVQQTSIM--MQRGNFRGPRRIKCFNCGKEGHLAKNCRAP 402
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 403 RKKG------CWKCGKEGHQMKDC 420
>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 = 55.8 bits (133), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 44/78 (56%), Gaps = 10/78 (12%)
Query: 150 EGVTTVEISDNIVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVC 209
E ++ V+ + ++ R RGPR C+NCG+EGH+A NCR+ RKK C+ C
Sbjct: 361 EAMSQVQQTSIMMQRGNFRGPRRIK--------CFNCGKEGHLAKNCRAP--RKKGCWKC 410
Query: 210 GSLEHGVRQCSKAQDCFI 227
G H ++ C++ Q F+
Sbjct: 411 GKEGHQMKDCTERQANFL 428
Score = 42.4 bits (98), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 35/84 (41%), Gaps = 8/84 (9%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDK 241
C G GH A A+ + + + ++ G + + CF C K GH AK+C
Sbjct: 345 ACQGVGGPGHKARVLAEAMSQVQQTSIM--MQRGNFRGPRRIKCFNCGKEGHLAKNCRAP 402
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 403 RKKG------CWKCGKEGHQMKDC 420
>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 = 53.5 bits (127), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H +++C++ Q F+
Sbjct: 393 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKECTERQANFL 435
Score = 39.7 bits (91), Expect = 0.025, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKEC 427
>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 = 53.5 bits (127), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 6/67 (8%)
Query: 174 DPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF----ICK 229
+P +G C+NCG+EGH+A NCR+ RK+ C+ CG H ++ C + +
Sbjct: 387 NPNRKGPIKCFNCGKEGHIAKNCRAP--RKRGCWKCGQEGHQMKDCKNGRQANFFREVLA 444
Query: 230 KGGHRAK 236
GGH A+
Sbjct: 445 SGGHEAR 451
Score = 43.5 bits (101), Expect = 0.002, Method: Composition-based stats.
Identities = 20/43 (46%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRN 267
CF C K GH AK+C K G C KCG GH M C+N
Sbjct: 396 CFNCGKEGHIAKNCRAPRKRG------CWKCGQEGHQMKDCKN 432
>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 = 53.1 bits (126), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 173 FDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
F P R + C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 380 FKGPKRAIK-CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCTERQANF 430
Score = 40.8 bits (94), Expect = 0.013, Method: Composition-based stats.
Identities = 19/45 (42%), Positives = 22/45 (48%), Gaps = 6/45 (13%)
Query: 221 KAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
+A CF C K GH A++C K G C KCG GH M C
Sbjct: 385 RAIKCFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKDC 423
>sp|Q8R1J3|ZCHC9_MOUSE Zinc finger CCHC domain-containing protein 9 OS=Mus musculus
GN=Zcchc9 PE=2 SV=1
Length = 273
Score = 53.1 bits (126), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 49/107 (45%), Gaps = 14/107 (13%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKP----CFVCGSLEHGVRQCSKAQD----------CFI 227
C++C + GH +C + ++ + C+ CGS EH + +C D CF+
Sbjct: 129 VCFHCRQPGHGIADCPAVLESQDMGTGICYRCGSTEHEMSKCRANVDPALGEFPFAKCFV 188
Query: 228 CKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNSYSLDDL 274
C + GH ++ CPD K + + C CG H CR + + D +
Sbjct: 189 CGEMGHLSRSCPDNTKGVYADGGSCKLCGSVEHFKKDCRENQNSDRI 235
Score = 41.2 bits (95), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 217 RQCSK--AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCR 266
RQ +K A CF C++ GH DCP +S +C +CG + H+M CR
Sbjct: 120 RQAAKKNAMVCFHCRQPGHGIADCPAVLESQDMGTGICYRCGSTEHEMSKCR 171
>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 = 53.1 bits (126), Expect = 3e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 32/45 (71%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H +++C++ Q F+
Sbjct: 392 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKECTERQANFL 434
Score = 40.0 bits (92), Expect = 0.021, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNPATIMMQRGNFRNQRKNVKCFNCGKEGHIARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKEC 426
>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 = 53.1 bits (126), Expect = 3e-06, Method: Composition-based stats.
Identities = 22/44 (50%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H V+ C++ Q F
Sbjct: 389 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQVKDCTERQANF 430
Score = 37.7 bits (86), Expect = 0.12, Method: Composition-based stats.
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH + C
Sbjct: 389 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQVKDC 423
>sp|P04589|POL_HV1EL Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate ELI) GN=gag-pol PE=3 SV=3
Length = 1435
Score = 53.1 bits (126), Expect = 3e-06, Method: Composition-based stats.
Identities = 26/74 (35%), Positives = 41/74 (55%), Gaps = 9/74 (12%)
Query: 154 TVEISDNIVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLE 213
T ++ ++ R +GPR C+NCG+EGH+A NCR+ RKK C+ CG
Sbjct: 371 TNSVTTAMMQRGNFKGPRKI-------IKCFNCGKEGHIAKNCRAP--RKKGCWRCGKEG 421
Query: 214 HGVRQCSKAQDCFI 227
H ++ C++ Q F+
Sbjct: 422 HQLKDCTERQANFL 435
Score = 38.5 bits (88), Expect = 0.064, Method: Composition-based stats.
Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPDK 241
C G H A A+ + ++ G + K CF C K GH AK+C
Sbjct: 350 CQGVGGPSHKARVLAEAMSQATNSVTTAMMQRGNFKGPRKIIKCFNCGKEGHIAKNCRAP 409
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C +CG GH + C
Sbjct: 410 RKKG------CWRCGKEGHQLKDC 427
>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 = 53.1 bits (126), Expect = 3e-06, Method: Composition-based stats.
Identities = 22/44 (50%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H ++ CS+ Q F
Sbjct: 387 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCSERQANF 428
Score = 39.7 bits (91), Expect = 0.029, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKDC 421
>sp|O12157|GAG_HV192 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype C (isolate 92BR025) GN=gag PE=3 SV=3
Length = 496
Score = 52.8 bits (125), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H V+ C++ Q F+ K
Sbjct: 389 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQVKDCTERQANFLGK 433
Score = 35.8 bits (81), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH + C
Sbjct: 389 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQVKDC 423
>sp|P0C1K7|GAG_HV19N Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate 92NG083) GN=gag PE=3 SV=2
Length = 497
Score = 52.8 bits (125), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 33/47 (70%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H +++C++ Q F+ K
Sbjct: 393 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKECTERQANFLGK 437
Score = 38.1 bits (87), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKEC 427
>sp|Q9QC00|GAG_HV197 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 97ZR-EQTB11) GN=gag PE=3 SV=2
Length = 495
Score = 52.8 bits (125), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ CS+ Q F+ K
Sbjct: 387 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCSERQANFLGK 431
Score = 38.5 bits (88), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 36/92 (39%), Gaps = 23/92 (25%)
Query: 182 TCYNCGEEGH--------MAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGH 233
C G GH M+ SAV ++ F G R+ K CF C K GH
Sbjct: 345 ACQGVGGPGHKARVLAEAMSQVTNSAVMMQRGNF------KGQRRIIK---CFNCGKEGH 395
Query: 234 RAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
A++C K G C KCG GH M C
Sbjct: 396 LARNCRAPRKKG------CWKCGKEGHQMKDC 421
>sp|Q8N567|ZCHC9_HUMAN Zinc finger CCHC domain-containing protein 9 OS=Homo sapiens
GN=ZCCHC9 PE=2 SV=2
Length = 271
Score = 52.4 bits (124), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 29/101 (28%), Positives = 46/101 (45%), Gaps = 14/101 (13%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKP----CFVCGSLEHGVRQCSKAQD----------CFI 227
C++C + GH +C +A++ + C+ CGS EH + +C D CF+
Sbjct: 129 VCFHCRKPGHGIADCPAALENQDMGTGICYRCGSTEHEITKCKAKVDPALGEFPFAKCFV 188
Query: 228 CKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268
C + GH ++ CPD K + + C CG H C S
Sbjct: 189 CGEMGHLSRSCPDNPKGLYADGGGCKLCGSVEHLKKDCPES 229
Score = 40.4 bits (93), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 33/89 (37%), Gaps = 14/89 (15%)
Query: 170 PRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRK------KPCFVCGSLEHGVRQC---- 219
P + D G CY CG H C++ V CFVCG + H R C
Sbjct: 144 PAALENQDMGTGICYRCGSTEHEITKCKAKVDPALGEFPFAKCFVCGEMGHLSRSCPDNP 203
Query: 220 ----SKAQDCFICKKGGHRAKDCPDKHKS 244
+ C +C H KDCP+ S
Sbjct: 204 KGLYADGGGCKLCGSVEHLKKDCPESQNS 232
Score = 38.9 bits (89), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 28/52 (53%), Gaps = 2/52 (3%)
Query: 217 RQCSK--AQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCR 266
RQ +K A CF C+K GH DCP ++ +C +CG + H++ C+
Sbjct: 120 RQAAKKNAMVCFHCRKPGHGIADCPAALENQDMGTGICYRCGSTEHEITKCK 171
>sp|P20873|GAG_HV1JR Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate JRCSF) GN=gag PE=3 SV=3
Length = 504
Score = 52.4 bits (124), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 33/47 (70%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H +++C++ Q F+ K
Sbjct: 392 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKECTERQANFLGK 436
Score = 40.0 bits (92), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 35/85 (41%), Gaps = 10/85 (11%)
Query: 183 CYNCGEEGHMA-VNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPD 240
C G GH A V + + P + ++ G R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNPATIM--MQRGNFRNQRKNVKCFNCGKEGHIARNCRA 407
Query: 241 KHKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 408 PRKKG------CWKCGKEGHQMKEC 426
>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 = 52.4 bits (124), Expect = 4e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 398 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 440
Score = 41.6 bits (96), Expect = 0.007, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 32/83 (38%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G H A A+ + ++ G + K CF C K GH A++C
Sbjct: 356 CQGVGGPSHKARVLAEAMSQATNSTAAIMMQRGNFKGQKRIKCFNCGKEGHLARNCRAPR 415
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 416 KKG------CWKCGKEGHQMKDC 432
>sp|P36627|BYR3_SCHPO Cellular nucleic acid-binding protein homolog
OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843)
GN=byr3 PE=4 SV=1
Length = 179
Score = 52.4 bits (124), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 44/102 (43%), Gaps = 15/102 (14%)
Query: 174 DPPDRGWQTCYNCGEEGHMAVNCRS----------AVKRKKPCFVCGSLEHGVRQCSKAQ 223
P R CY CG GH+A +CR+ + C+ CGS H R C+
Sbjct: 76 SPNPRQGAECYKCGRVGHIARDCRTNGQQSGGRFGGHRSNMNCYACGSYGHQARDCTMGV 135
Query: 224 DCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
C+ C K GHR+ +C + Q+C KC GH +C
Sbjct: 136 KCYSCGKIGHRSFECQQA-----SDGQLCYKCNQPGHIAVNC 172
Score = 49.7 bits (117), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 41/87 (47%), Gaps = 9/87 (10%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQD---CFICKKGGHRAKDCP 239
CYNCGE GH A C + C+ C H +C++ Q C+ C GH +DCP
Sbjct: 19 CYNCGENGHQAREC----TKGSICYNCNQTGHKASECTEPQQEKTCYACGTAGHLVRDCP 74
Query: 240 DKHKSGFQNAQVCLKCGDSGHDMFSCR 266
+ Q A+ C KCG GH CR
Sbjct: 75 SS-PNPRQGAE-CYKCGRVGHIARDCR 99
Score = 43.1 bits (100), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 46/104 (44%), Gaps = 24/104 (23%)
Query: 181 QTCYNCGEEGHMAVNCRSAVKRKKP--CFVCGSLEHGVRQC-SKAQ-------------D 224
+TCY CG GH+ +C S+ ++ C+ CG + H R C + Q +
Sbjct: 58 KTCYACGTAGHLVRDCPSSPNPRQGAECYKCGRVGHIARDCRTNGQQSGGRFGGHRSNMN 117
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSCRNS 268
C+ C GH+A+DC K C CG GH F C+ +
Sbjct: 118 CYACGSYGHQARDCTMGVK--------CYSCGKIGHRSFECQQA 153
Score = 42.4 bits (98), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 200 VKRKKP-CFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDS 258
R P C+ CG H R+C+K C+ C + GH+A +C + Q + C CG +
Sbjct: 12 TTRPGPRCYNCGENGHQARECTKGSICYNCNQTGHKASECTEP-----QQEKTCYACGTA 66
Query: 259 GHDMFSCRNS 268
GH + C +S
Sbjct: 67 GHLVRDCPSS 76
>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 = 52.4 bits (124), Expect = 4e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 392 CFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 434
Score = 42.4 bits (98), Expect = 0.004, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKTVKCFNCGKEGHIAKNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>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 = 52.4 bits (124), Expect = 5e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 392 CFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 434
Score = 42.0 bits (97), Expect = 0.007, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 31/83 (37%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + + R K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNPATIMIQKGNFRNQRKTVKCFNCGKEGHIAKNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>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 = 52.4 bits (124), Expect = 5e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 392 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 434
Score = 41.2 bits (95), Expect = 0.011, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKIVKCFNCGKEGHIARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>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 = 52.0 bits (123), Expect = 6e-06, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 173 FDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
F P R + C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 384 FKGPRRTIK-CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCTERQANF 434
Score = 39.7 bits (91), Expect = 0.030, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKDC 427
>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 = 52.0 bits (123), Expect = 6e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 394 CFNCGKEGHIAKNCRAP--RKKGCWRCGREGHQMKDCTERQANFL 436
Score = 40.4 bits (93), Expect = 0.018, Method: Composition-based stats.
Identities = 20/49 (40%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 217 RQCSKAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
R K CF C K GH AK+C K G C +CG GH M C
Sbjct: 386 RNQRKTVKCFNCGKEGHIAKNCRAPRKKG------CWRCGREGHQMKDC 428
>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 = 52.0 bits (123), Expect = 6e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 391 CFNCGKEGHIAKNCRAP--RKKGCWKCGREGHQMKDCTERQANFL 433
Score = 40.4 bits (93), Expect = 0.016, Method: Composition-based stats.
Identities = 28/84 (33%), Positives = 34/84 (40%), Gaps = 9/84 (10%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPDK 241
C G GH A A+ + V ++ G + K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVNSVTVM--MQKGNFKNQRKTVKCFNCGKEGHIAKNCRAP 407
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 408 RKKG------CWKCGREGHQMKDC 425
>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 = 52.0 bits (123), Expect = 6e-06, Method: Composition-based stats.
Identities = 22/49 (44%), Positives = 32/49 (65%), Gaps = 2/49 (4%)
Query: 178 RGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
R + C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 388 RKFVKCFNCGKEGHIARNCRAP--RKKGCWKCGREGHQMKDCTERQAKF 434
Score = 38.9 bits (89), Expect = 0.053, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHIARNCRAPRKKG------CWKCGREGHQMKDC 427
>sp|P04592|GAG_HV1EL Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype D (isolate ELI) GN=gag PE=3 SV=3
Length = 500
Score = 52.0 bits (123), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 42/76 (55%), Gaps = 9/76 (11%)
Query: 154 TVEISDNIVLRKLLRGPRYFDPPDRGWQTCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLE 213
T ++ ++ R +GPR C+NCG+EGH+A NCR+ RKK C+ CG
Sbjct: 371 TNSVTTAMMQRGNFKGPRKII-------KCFNCGKEGHIAKNCRAP--RKKGCWRCGKEG 421
Query: 214 HGVRQCSKAQDCFICK 229
H ++ C++ Q F+ +
Sbjct: 422 HQLKDCTERQANFLGR 437
Score = 37.7 bits (86), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPDK 241
C G H A A+ + ++ G + K CF C K GH AK+C
Sbjct: 350 CQGVGGPSHKARVLAEAMSQATNSVTTAMMQRGNFKGPRKIIKCFNCGKEGHIAKNCRAP 409
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C +CG GH + C
Sbjct: 410 RKKG------CWRCGKEGHQLKDC 427
>sp|P04594|GAG_HV1MA Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype A (isolate MAL) GN=gag PE=3 SV=3
Length = 505
Score = 51.6 bits (122), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 398 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 442
Score = 40.0 bits (92), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 32/84 (38%), Gaps = 6/84 (7%)
Query: 182 TCYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDK 241
C G H A A+ + ++ G + K CF C K GH A++C
Sbjct: 355 ACQGVGGPSHKARVLAEAMSQATNSTAAIMMQRGNFKGQKRIKCFNCGKEGHLARNCRAP 414
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 415 RKKG------CWKCGKEGHQMKDC 432
>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 = 51.6 bits (122), Expect = 7e-06, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 392 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANF 433
Score = 41.2 bits (95), Expect = 0.011, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKIVKCFNCGKEGHIARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>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 = 51.6 bits (122), Expect = 7e-06, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 387 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANF 428
Score = 39.3 bits (90), Expect = 0.033, Method: Composition-based stats.
Identities = 19/45 (42%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 221 KAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
K CF C K GH A++C K G C KCG GH M C
Sbjct: 383 KIVKCFNCGKEGHIARNCRAPRKKG------CWKCGKEGHQMKDC 421
>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 = 51.6 bits (122), Expect = 8e-06, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 387 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANF 428
Score = 39.3 bits (90), Expect = 0.036, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHIARNCRAPRKKG------CWKCGKEGHQMKDC 421
>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 = 51.6 bits (122), Expect = 8e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 30/45 (66%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 392 CFNCGKEGHTARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 434
Score = 41.6 bits (96), Expect = 0.007, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKIVKCFNCGKEGHTARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|P03366|POL_HV1B1 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH10) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 51.6 bits (122), Expect = 8e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 30/45 (66%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 392 CFNCGKEGHTARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFL 434
Score = 42.0 bits (97), Expect = 0.006, Method: Composition-based stats.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNTATIMMQRGNFRNQRKMVKCFNCGKEGHTARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|Q9QBZ6|GAG_HV1MP Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F2 (isolate MP255) GN=gag PE=3 SV=2
Length = 492
Score = 51.6 bits (122), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 387 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 431
Score = 37.7 bits (86), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHIARNCRAPRKKG------CWKCGKEGHQMKDC 421
>sp|Q73367|GAG_HV1B9 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (strain 89.6) GN=gag PE=3 SV=3
Length = 500
Score = 51.2 bits (121), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 392 CFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 436
Score = 41.2 bits (95), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKTVKCFNCGKEGHIAKNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|Q9QBY4|GAG_HV196 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype K (isolate 96CM-MP535) GN=gag PE=3 SV=2
Length = 495
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 387 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 431
Score = 37.4 bits (85), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHIARNCRAPRKKG------CWKCGKEGHQMKDC 421
>sp|O89939|GAG_HV1SE Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate SE6165) GN=gag PE=3 SV=3
Length = 495
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 393 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 437
Score = 37.7 bits (86), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHLARNCRAPRKKG------CWKCGKEGHQMKDC 427
>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 = 51.2 bits (121), Expect = 9e-06, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ R+K C+ CG H ++ C++ Q F+
Sbjct: 394 CFNCGKEGHIAKNCRAP--RRKGCWKCGKEGHQLKDCTERQANFL 436
Score = 38.1 bits (87), Expect = 0.075, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 21/45 (46%), Gaps = 6/45 (13%)
Query: 221 KAQDCFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
K CF C K GH AK+C + G C KCG GH + C
Sbjct: 390 KTIKCFNCGKEGHIAKNCRAPRRKG------CWKCGKEGHQLKDC 428
>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 = 51.2 bits (121), Expect = 9e-06, Method: Composition-based stats.
Identities = 21/45 (46%), Positives = 30/45 (66%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH A NCR+ RKK C+ CG H ++ C++ Q F+
Sbjct: 390 CFNCGKEGHTAKNCRAP--RKKGCWKCGREGHQMKDCTERQANFL 432
Score = 42.4 bits (98), Expect = 0.005, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 34/84 (40%), Gaps = 7/84 (8%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPDK 241
C G GH A A+ + ++ G + K+ CF C K GH AK+C
Sbjct: 347 CQGVGGPGHKARVLAEAMSQVTGSATAVMMQRGNFKGPRKSIKCFNCGKEGHTAKNCRAP 406
Query: 242 HKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 407 RKKG------CWKCGREGHQMKDC 424
>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 = 51.2 bits (121), Expect = 9e-06, Method: Composition-based stats.
Identities = 21/44 (47%), Positives = 30/44 (68%), Gaps = 2/44 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCF 226
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F
Sbjct: 387 CFNCGKEGHIAKNCRAP--RKKGCWKCGREGHQMKDCTERQAKF 428
Score = 40.0 bits (92), Expect = 0.024, Method: Composition-based stats.
Identities = 19/41 (46%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH AK+C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHIAKNCRAPRKKG------CWKCGREGHQMKDC 421
>sp|P35962|GAG_HV1Y2 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate YU-2) GN=gag PE=1 SV=2
Length = 500
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 392 CFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 436
Score = 41.2 bits (95), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKTVKCFNCGKEGHIAKNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|Q9QSR4|GAG_HV1VI Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate VI850) GN=gag PE=3 SV=3
Length = 491
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 386 CFNCGKEGHIARNCRAP--RKKGCWKCGREGHQMKDCTERQANFLGK 430
Score = 37.0 bits (84), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 386 CFNCGKEGHIARNCRAPRKKG------CWKCGREGHQMKDC 420
>sp|P03348|GAG_HV1BR Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BRU/LAI) GN=gag PE=1 SV=3
Length = 512
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 392 CFNCGKEGHIARNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 436
Score = 39.7 bits (91), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKIVKCFNCGKEGHIARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|P12494|GAG_HV1J3 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate JH32) GN=gag PE=3 SV=3
Length = 500
Score = 51.2 bits (121), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 392 CFNCGKEGHLARNCRAP--RKKGCWKCGKEGHQMKDCNERQANFLGK 436
Score = 40.0 bits (92), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH A++C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNSTTIMMQRGNFRNQRKIIKCFNCGKEGHLARNCRAPR 409
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 410 KKG------CWKCGKEGHQMKDC 426
>sp|O89291|GAG_HV193 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate 93BR020) GN=gag PE=3 SV=3
Length = 492
Score = 51.2 bits (121), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 387 CFNCGKEGHIAKNCRAP--RKKGCWKCGREGHQMKDCTERQANFLGK 431
Score = 38.1 bits (87), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH AK+C K G C KCG GH M C
Sbjct: 387 CFNCGKEGHIAKNCRAPRKKG------CWKCGREGHQMKDC 421
>sp|O93182|GAG_HV190 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype H (isolate 90CF056) GN=gag PE=3 SV=3
Length = 500
Score = 51.2 bits (121), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 393 CFNCGKEGHIARNCRAP--RKKGCWKCGREGHQMKDCTERQANFLGK 437
Score = 37.4 bits (85), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 225 CFICKKGGHRAKDCPDKHKSGFQNAQVCLKCGDSGHDMFSC 265
CF C K GH A++C K G C KCG GH M C
Sbjct: 393 CFNCGKEGHIARNCRAPRKKG------CWKCGREGHQMKDC 427
>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 = 51.2 bits (121), Expect = 1e-05, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 31/45 (68%), Gaps = 2/45 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFI 227
C+NCG+EGH+A NCR+ RK+ C+ CG H ++ C++ Q F+
Sbjct: 395 CFNCGKEGHIAKNCRAP--RKRGCWKCGKEGHQMKDCTERQANFL 437
Score = 41.6 bits (96), Expect = 0.008, Method: Composition-based stats.
Identities = 27/83 (32%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICKKGGHRAKDCPDKH 242
C G GH A A+ + R K CF C K GH AK+C
Sbjct: 353 CQGVGGPGHKARVLAEAMSQVTNSATIMMQRGNFRNQRKIIKCFNCGKEGHIAKNCRAPR 412
Query: 243 KSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 413 KRG------CWKCGKEGHQMKDC 429
>sp|P12493|GAG_HV1N5 Gag polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate NY5) GN=gag PE=1 SV=3
Length = 500
Score = 51.2 bits (121), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 22/47 (46%), Positives = 32/47 (68%), Gaps = 2/47 (4%)
Query: 183 CYNCGEEGHMAVNCRSAVKRKKPCFVCGSLEHGVRQCSKAQDCFICK 229
C+NCG+EGH+A NCR+ RKK C+ CG H ++ C++ Q F+ K
Sbjct: 392 CFNCGKEGHIAKNCRAP--RKKGCWKCGKEGHQMKDCTERQANFLGK 436
Score = 40.8 bits (94), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 35/85 (41%), Gaps = 10/85 (11%)
Query: 183 CYNCGEEGHMA-VNCRSAVKRKKPCFVCGSLEHG-VRQCSKAQDCFICKKGGHRAKDCPD 240
C G GH A V + + P + ++ G R K CF C K GH AK+C
Sbjct: 350 CQGVGGPGHKARVLAEAMSQVTNPATIM--IQKGNFRNQRKTVKCFNCGKEGHIAKNCRA 407
Query: 241 KHKSGFQNAQVCLKCGDSGHDMFSC 265
K G C KCG GH M C
Sbjct: 408 PRKKG------CWKCGKEGHQMKDC 426
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
0.316 0.133 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 122,858,432
Number of Sequences: 539616
Number of extensions: 5556031
Number of successful extensions: 71307
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 235
Number of HSP's successfully gapped in prelim test: 660
Number of HSP's that attempted gapping in prelim test: 58180
Number of HSP's gapped (non-prelim): 11440
length of query: 312
length of database: 191,569,459
effective HSP length: 117
effective length of query: 195
effective length of database: 128,434,387
effective search space: 25044705465
effective search space used: 25044705465
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (28.1 bits)