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= psy15899
(104 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 = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 36/92 (39%), Positives = 50/92 (54%), Gaps = 12/92 (13%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAIAN-PYLS-CPIISQIYSAWCDL 62
+N AEL+AILL L+ K +V+DS +L I++ P S PI+ QI +L
Sbjct: 1059 TNQKAELMAILLALQDSKE----TVNIVTDSQYALGVISSQPTQSESPIVQQIIE---EL 1111
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ-AAKD 93
Q Y L W P+H GI GNE +D+ +KD
Sbjct: 1112 TKKEQVY--LTWVPAHKGIGGNEKIDKLVSKD 1141
>sp|Q79666|POL_HV1MV Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group O
(isolate MVP5180) GN=gag-pol PE=3 SV=3
Length = 1446
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 32/92 (34%), Positives = 49/92 (53%), Gaps = 12/92 (13%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAIAN-PYLS-CPIISQIYSAWCDL 62
+N AEL+A+L+ L+ K + +V+DS L I++ P S PI+ QI
Sbjct: 1061 TNQKAELMAVLIALQDSKE----QVNIVTDSQYVLGIISSQPTQSDSPIVQQIIE----- 1111
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ-AAKD 93
+ + V L W P+H GI GNE +D+ +KD
Sbjct: 1112 ELTKKERVYLTWVPAHKGIGGNEKIDKLVSKD 1143
>sp|Q8AII1|POL_SIVTN Gag-Pol polyprotein OS=Simian immunodeficiency virus (isolate TAN1)
GN=gag-pol PE=3 SV=4
Length = 1462
Score = 37.0 bits (84), Expect = 0.036, Method: Composition-based stats.
Identities = 30/88 (34%), Positives = 43/88 (48%), Gaps = 13/88 (14%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDS---MGSLSAIANPYLSCPIISQIYSAWCD 61
+N AEL A+ L L+ + +V+DS MG L + + S PI+ QI
Sbjct: 1087 TNQQAELWAVDLALKD----SGAQVNIVTDSQYVMGVLQGLPDQSDS-PIVEQIIQ---- 1137
Query: 62 LKTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
K + + L W P+H GI GNE VD+
Sbjct: 1138 -KLTQKTAIYLAWVPAHKGIGGNEEVDK 1164
>sp|P27973|POL_SIVV1 Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM155) GN=gag-pol PE=3 SV=2
Length = 1470
Score = 36.6 bits (83), Expect = 0.044, Method: Composition-based stats.
Identities = 31/89 (34%), Positives = 47/89 (52%), Gaps = 15/89 (16%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDS---MGSLSAIANPYLS-CPIISQIYSAWC 60
+N AEL AI + L + P + +V+DS MG L+A P S P++ QI +
Sbjct: 1086 TNQQAELTAIKMALED--SGPKVN--IVTDSQYAMGILTA--QPTQSDSPLVEQIIA--- 1136
Query: 61 DLKTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ V + + L W P+H GI GNE +D+
Sbjct: 1137 --QMVQKEAIYLQWVPAHKGIGGNEEIDK 1163
>sp|P04587|POL_HV1B5 Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate BH5) GN=gag-pol PE=1 SV=3
Length = 1447
Score = 36.2 bits (82), Expect = 0.069, Method: Composition-based stats.
Identities = 30/89 (33%), Positives = 44/89 (49%), Gaps = 11/89 (12%)
Query: 3 HCSNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWC 60
H +N EL AI L L+ + +V+DS +L I A P S +++QI
Sbjct: 1070 HTTNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE--- 1122
Query: 61 DLKTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1123 --QLIKKEKVYLAWVPAHKGIGGNEQVDK 1149
>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 = 35.4 bits (80), Expect = 0.10, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1060 TNQKTELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDRSESELVSQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1111 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1137
>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 = 35.0 bits (79), Expect = 0.12, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L LR + +V+DS +L I A P S +++QI
Sbjct: 1057 TNQKTELHAIYLALRD----SGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE----- 1107
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1108 ELIKKEKVYLSWVPAHKGIGGNEQVDK 1134
>sp|O89940|POL_HV1SE Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype G (isolate SE6165) GN=gag-pol PE=3 SV=3
Length = 1433
Score = 35.0 bits (79), Expect = 0.14, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 45/87 (51%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N AEL AI L L+ ++ +V+DS +L I A P S +++QI
Sbjct: 1058 TNQKAELQAIQLALQDSRSEVN----IVTDSQYALGIIQAQPDRSEAELVNQIIE----- 1108
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1109 QLIKKEKVYLSWVPAHKGIGGNEQVDK 1135
>sp|Q0TLC3|RNH_ECOL5 Ribonuclease H OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7UJB0|RNH_ECO27 Ribonuclease H OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|Q3Z5E9|RNH_SHISS Ribonuclease H OS=Shigella sonnei (strain Ss046) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|P0A7Y7|RNH_SHIFL Ribonuclease HI OS=Shigella flexneri GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|Q32JP9|RNH_SHIDS Ribonuclease H OS=Shigella dysenteriae serotype 1 (strain Sd197)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|Q325T2|RNH_SHIBS Ribonuclease H OS=Shigella boydii serotype 4 (strain Sb227) GN=rnhA
PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B2U352|RNH_SHIB3 Ribonuclease H OS=Shigella boydii serotype 18 (strain CDC 3083-94 /
BS512) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7LW89|RNH_ESCF3 Ribonuclease H OS=Escherichia fergusonii (strain ATCC 35469 / DSM
13698 / CDC 0568-73) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B1LHM3|RNH_ECOSM Ribonuclease H OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rnhA
PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B6HZS7|RNH_ECOSE Ribonuclease H OS=Escherichia coli (strain SE11) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7N876|RNH_ECOLU Ribonuclease H OS=Escherichia coli O17:K52:H18 (strain UMN026 /
ExPEC) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|P0A7Y4|RNH_ECOLI Ribonuclease HI OS=Escherichia coli (strain K12) GN=rnhA PE=1 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B1IPU4|RNH_ECOLC Ribonuclease H OS=Escherichia coli (strain ATCC 8739 / DSM 1576 /
Crooks) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|P0A7Y5|RNH_ECOL6 Ribonuclease HI OS=Escherichia coli O6:H1 (strain CFT073 / ATCC
700928 / UPEC) GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B1XD78|RNH_ECODH Ribonuclease H OS=Escherichia coli (strain K12 / DH10B) GN=rnhA
PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|C4ZRV1|RNH_ECOBW Ribonuclease H OS=Escherichia coli (strain K12 / MC4100 / BW2952)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7M213|RNH_ECO8A Ribonuclease H OS=Escherichia coli O8 (strain IAI1) GN=rnhA PE=3
SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7MQ23|RNH_ECO81 Ribonuclease H OS=Escherichia coli O81 (strain ED1a) GN=rnhA PE=3
SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7NKW4|RNH_ECO7I Ribonuclease H OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B5Z0I8|RNH_ECO5E Ribonuclease H OS=Escherichia coli O157:H7 (strain EC4115 / EHEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|P0A7Y6|RNH_ECO57 Ribonuclease HI OS=Escherichia coli O157:H7 GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7MBJ0|RNH_ECO45 Ribonuclease H OS=Escherichia coli O45:K1 (strain S88 / ExPEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|A7ZHV1|RNH_ECO24 Ribonuclease H OS=Escherichia coli O139:H28 (strain E24377A / ETEC)
GN=rnhA PE=3 SV=1
Length = 155
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|Q9QSR3|POL_HV1VI Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype F1 (isolate VI850) GN=gag-pol PE=3 SV=3
Length = 1430
Score = 35.0 bits (79), Expect = 0.15, Method: Composition-based stats.
Identities = 31/87 (35%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N AEL AI L L+ +V+DS +L I A P S I++QI
Sbjct: 1055 TNQKAELQAIYLALQD----SGSEVNIVTDSQYALGIIQAQPDKSESEIVNQIIE----- 1105
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1106 QLIQKERVYLSWVPAHKGIGGNEQVDK 1132
>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 = 35.0 bits (79), Expect = 0.15, Method: Composition-based stats.
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N AEL AI L L+ + P + +V+DS +L I A P S +++QI
Sbjct: 1060 TNQKAELHAIQLALQD--SRPEVN--IVTDSQYALGIIQAQPDRSGSELVNQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1111 QLIKKEKVYLSWVPAHKGIGGNEQVDK 1137
>sp|A7ZWF6|RNH_ECOHS Ribonuclease H OS=Escherichia coli O9:H4 (strain HS) GN=rnhA PE=3
SV=1
Length = 155
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHSWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|B7LHC0|RNH_ECO55 Ribonuclease H OS=Escherichia coli (strain 55989 / EAEC) GN=rnhA
PE=3 SV=1
Length = 155
Score = 34.7 bits (78), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 24/114 (21%)
Query: 4 CSNGIAELIAILLCLRSIKNHPAMRFLLVSDSM----------------GSLSAIANPYL 47
+N EL+A ++ L ++K H +L +DS G +A P
Sbjct: 42 TTNNRMELMAAIVALEALKEH--CEVILSTDSQYVRQGITQWIHSWKKRGWKTADKKPVK 99
Query: 48 SCPIISQIYSAWCDLKTVGQYYVKLMWCPSHCGIRGNEAVDQAAKDPLLSPVIE 101
+ + ++ +A +GQ+ +K W H G NE D+ A+ ++P +E
Sbjct: 100 NVDLWQRLDAA------LGQHQIKWEWVKGHAGHPENERCDELARAAAMNPTLE 147
>sp|Q82851|POL_JEMBR Gag-Pol polyprotein OS=Jembrana disease virus GN=gag-pol PE=3 SV=1
Length = 1432
Score = 34.7 bits (78), Expect = 0.17, Method: Composition-based stats.
Identities = 30/104 (28%), Positives = 47/104 (45%), Gaps = 16/104 (15%)
Query: 1 MFHCSNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAIANPYLSCPIISQIYSAWC 60
+F +N AEL A+L+ L ++ PA + +++DS + + P W
Sbjct: 990 VFPGTNQQAELKAVLMAL---QDGPA-KMNIITDSRYAFEGMREE----PETWGREGLW- 1040
Query: 61 DLKTVGQY-----YVKLMWCPSHCGIRGNEAVDQAAKDPLLSPV 99
K +G+ YV + W P H GI GN VDQ + L P+
Sbjct: 1041 --KEIGEELRRKEYVGVSWVPGHKGIGGNTEVDQEVQKALQGPI 1082
>sp|P27980|POL_SIVVG Gag-Pol polyprotein OS=Simian immunodeficiency virus agm.vervet
(isolate AGM3) GN=gag-pol PE=3 SV=2
Length = 1465
Score = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 31/89 (34%), Positives = 47/89 (52%), Gaps = 15/89 (16%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDS---MGSLSAIANPYLS-CPIISQIYSAWC 60
+N AEL+AI + L + P + +V+DS MG L+A P S P+I QI +
Sbjct: 1087 TNQQAELMAIKMALED--SGPNVN--IVTDSQYAMGILTA--QPTQSDSPLIEQIIAL-- 1138
Query: 61 DLKTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
V ++ + L W P+ GI GNE +D+
Sbjct: 1139 ---MVQKHQIYLQWVPADKGIGGNEEIDK 1164
>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 = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1059 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1109
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1110 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1136
>sp|P05961|POL_HV1MN Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate MN) GN=gag-pol PE=1 SV=3
Length = 1441
Score = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1066 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1116
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1117 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1143
>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 = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1064 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1114
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1115 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1141
>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 = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1060 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1111 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1137
>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 = 34.7 bits (78), Expect = 0.18, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1062 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1112
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1113 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1139
>sp|P05959|POL_HV1RH Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group M
subtype B (isolate RF/HAT3) GN=gag-pol PE=1 SV=3
Length = 1436
Score = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1061 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1111
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1112 QLIKKEKVYLAWVPAHKGIGGNEQVDR 1138
>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 = 34.3 bits (77), Expect = 0.22, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1061 TNQKTELQAINLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1111
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1112 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1138
>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 = 34.3 bits (77), Expect = 0.22, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1057 TNQKTELQAINLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1107
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1108 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1134
>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 = 33.9 bits (76), Expect = 0.26, Method: Composition-based stats.
Identities = 30/86 (34%), Positives = 42/86 (48%), Gaps = 11/86 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S ++SQI
Sbjct: 1060 TNQKTELQAIHLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVSQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVD 88
+ + + V L W P+H GI GNE VD
Sbjct: 1111 QLIKKEKVYLAWVPAHKGIGGNEQVD 1136
>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 = 33.9 bits (76), Expect = 0.26, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S +++QI
Sbjct: 1060 TNQKTELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDQSESELVNQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1111 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1137
>sp|O91080|POL_HV1YF Gag-Pol polyprotein OS=Human immunodeficiency virus type 1 group N
(isolate YBF30) GN=gag-pol PE=3 SV=3
Length = 1449
Score = 33.9 bits (76), Expect = 0.28, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 44/87 (50%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N AEL AIL+ L+ +V+DS ++ I + P S ++SQI
Sbjct: 1070 TNQKAELQAILMALQ----ESGRDVNIVTDSQYAMGIIHSQPDKSESELVSQIIE----- 1120
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1121 ELIKKERVYLSWVPAHKGIGGNEQVDK 1147
>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 = 33.9 bits (76), Expect = 0.29, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S +++QI
Sbjct: 1060 TNQKTELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE----- 1110
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1111 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1137
>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 = 33.9 bits (76), Expect = 0.29, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 11/87 (12%)
Query: 5 SNGIAELIAILLCLRSIKNHPAMRFLLVSDSMGSLSAI-ANPYLS-CPIISQIYSAWCDL 62
+N EL AI L L+ + +V+DS +L I A P S +++QI
Sbjct: 1072 TNQKTELQAIYLALQD----SGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIE----- 1122
Query: 63 KTVGQYYVKLMWCPSHCGIRGNEAVDQ 89
+ + + V L W P+H GI GNE VD+
Sbjct: 1123 QLIKKEKVYLAWVPAHKGIGGNEQVDK 1149
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
0.325 0.137 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 35,503,524
Number of Sequences: 539616
Number of extensions: 1164616
Number of successful extensions: 3326
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 3243
Number of HSP's gapped (non-prelim): 101
length of query: 104
length of database: 191,569,459
effective HSP length: 73
effective length of query: 31
effective length of database: 152,177,491
effective search space: 4717502221
effective search space used: 4717502221
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)