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BLASTX 2.2.20 [Feb-08-2009]
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.
Query= RLBV_smaller_RNA
(1363 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects
8,994,603 sequences; 3,078,807,967 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
sp|P85309.2|CASPD_HPVKA RecName: Full=Capsid protein; AltName: F... 152 8e-35
sp|P83664.2|CAPSD_HPVCO RecName: Full=Capsid protein; AltName: F... 146 6e-33
gb|AAB03575.1| nucleoprotein 146 6e-33
gb|ABH05070.1| putative nucleocapsid protein [European mountain ... 83 8e-14
gb|AAW12704.1| nucleoprotein [High Plains virus] 73 8e-11
gb|AAW12703.1| nucleoprotein [High Plains virus] 73 8e-11
>sp|P85309.2|CASPD_HPVKA RecName: Full=Capsid protein; AltName: Full=Coat protein
gb|ABC58222.1| nucleocapsid [Maize red stripe virus]
Length = 288
Score = 152 bits (384), Expect = 8e-35
Identities = 85/265 (32%), Positives = 140/265 (52%), Gaps = 17/265 (6%)
Frame = +3
Query: 183 NNNGNLKA--VEPILVNFDQLTT-------------STDAFNIKECISTSNFQLQTCYKC 317
N++G++KA ++ LVN + + T S D F++K +S+ + + Y+C
Sbjct: 7 NSSGSIKAKRIKDGLVNANDIETTVIDFSYEKPDLSSVDGFSLKSLLSSDGWHIVVAYQC 66
Query: 318 ITNSLAMXXXXXXXXXXXXXLSDVTYYIVPKVKPGAIKNVISYNRFMAICIAGIRVNLTK 497
+TNS + L ++P +KP KNV+SYNRFMA+CI I +
Sbjct: 67 VTNSEQLNNNKKNNKTQKFRLFTFDIIVIPGLKPNKSKNVVSYNRFMALCIGMICYHKKW 126
Query: 498 KIYDWNKHEYVAANTETLQVPDGVG--NKLALSCGMDEGHDLYWFYASGFEYTFDLYPVE 671
K+++W + Y NT T+ + NKLA+S G + H +WFY++GFEYTFD++P E
Sbjct: 127 KVFNWTRKSY-EDNTSTIDFNEDEDFMNKLAMSAGFSKEHKYHWFYSTGFEYTFDIFPAE 185
Query: 672 VICCVMLRLANAEEFKLSKVDDLDLVKNLASQIGKKGQIDDVLNSIGIDTISEAYAKYNS 851
VI + R ++ E K+ + DLV+ + Q+ KKG I DV++ IG TI++ Y +
Sbjct: 186 VIAMSLFRWSHRVELKIKYTHESDLVEPMVRQLTKKGTISDVMDIIGKSTIAKRYEEIVK 245
Query: 852 TRTDLVSVKRIKDTLSSLQDILKNM 926
R+ + D L ++I+K +
Sbjct: 246 DRSSTGIGTKYNDVLDEFKEIIKKI 270
>sp|P83664.2|CAPSD_HPVCO RecName: Full=Capsid protein; AltName: Full=Coat protein
sp|P83549.2|CAPSD_HPVID RecName: Full=Capsid protein; AltName: Full=Coat protein
sp|P83550.2|CAPSD_HPVKS RecName: Full=Capsid protein; AltName: Full=Coat protein
sp|P83666.2|CAPSD_HPVTX RecName: Full=Capsid protein; AltName: Full=Coat protein
sp|P83665.2|CAPSD_HPVUT RecName: Full=Capsid protein; AltName: Full=Coat protein
Length = 289
Score = 146 bits (368), Expect = 6e-33
Identities = 79/248 (31%), Positives = 127/248 (51%), Gaps = 1/248 (0%)
Frame = +3
Query: 243 TSTDAFNIKECISTSNFQLQTCYKCITNSLAMXXXXXXXXXXXXXLSDVTYYIVPKVKPG 422
+S D F++K +S+ + + Y+ +TNS + L ++P +KP
Sbjct: 42 SSVDGFSLKSLLSSDGWHIVVAYQSVTNSERLNNNKKNNKTQRFKLFTFDIIVIPGLKPN 101
Query: 423 AIKNVISYNRFMAICIAGIRVNLTKKIYDWNKHEYVA-ANTETLQVPDGVGNKLALSCGM 599
KNV+SYNRFMA+CI I + K+++W+ Y NT D NKLA+S G
Sbjct: 102 KSKNVVSYNRFMALCIGMICYHKKWKVFNWSNKRYEDNKNTINFNEDDDFMNKLAMSAGF 161
Query: 600 DEGHDLYWFYASGFEYTFDLYPVEVICCVMLRLANAEEFKLSKVDDLDLVKNLASQIGKK 779
+ H +WFY++GFEYTFD++P EVI + R ++ E K+ + DLV + Q+ K+
Sbjct: 162 SKEHKYHWFYSTGFEYTFDIFPAEVIAMSLFRWSHRVELKIKYEHESDLVAPMVRQVTKR 221
Query: 780 GQIDDVLNSIGIDTISEAYAKYNSTRTDLVSVKRIKDTLSSLQDILKNMK*VHIV**VQY 959
G I DV++ +G D I++ Y + R+ + + D L +DI + +
Sbjct: 222 GNISDVMDIVGKDIIAKKYEEIVKDRSSIGIGTKYNDILDEFKDIFNKIDSSSL---DST 278
Query: 960 IMSCFNNI 983
I +CFN I
Sbjct: 279 IKNCFNKI 286
>gb|AAB03575.1| nucleoprotein
Length = 270
Score = 146 bits (368), Expect = 6e-33
Identities = 79/248 (31%), Positives = 127/248 (51%), Gaps = 1/248 (0%)
Frame = +3
Query: 243 TSTDAFNIKECISTSNFQLQTCYKCITNSLAMXXXXXXXXXXXXXLSDVTYYIVPKVKPG 422
+S D F++K +S+ + + Y+ +TNS + L ++P +KP
Sbjct: 23 SSVDGFSLKSLLSSDGWHIVVAYQSVTNSERLNNNKKNNKTQRFKLFTFDIIVIPGLKPN 82
Query: 423 AIKNVISYNRFMAICIAGIRVNLTKKIYDWNKHEYVA-ANTETLQVPDGVGNKLALSCGM 599
KNV+SYNRFMA+CI I + K+++W+ Y NT D NKLA+S G
Sbjct: 83 KSKNVVSYNRFMALCIGMICYHKKWKVFNWSNKRYEDNKNTINFNEDDDFMNKLAMSAGF 142
Query: 600 DEGHDLYWFYASGFEYTFDLYPVEVICCVMLRLANAEEFKLSKVDDLDLVKNLASQIGKK 779
+ H +WFY++GFEYTFD++P EVI + R ++ E K+ + DLV + Q+ K+
Sbjct: 143 SKEHKYHWFYSTGFEYTFDIFPAEVIAMSLFRWSHRVELKIKYEHESDLVAPMVRQVTKR 202
Query: 780 GQIDDVLNSIGIDTISEAYAKYNSTRTDLVSVKRIKDTLSSLQDILKNMK*VHIV**VQY 959
G I DV++ +G D I++ Y + R+ + + D L +DI + +
Sbjct: 203 GNISDVMDIVGKDIIAKKYEEIVKDRSSIGIGTKYNDILDEFKDIFNKIDSSSL---DST 259
Query: 960 IMSCFNNI 983
I +CFN I
Sbjct: 260 IKNCFNKI 267
>gb|ABH05070.1| putative nucleocapsid protein [European mountain ash
ringspot-associated virus]
Length = 314
Score = 82.8 bits (203), Expect = 8e-14
Identities = 61/247 (24%), Positives = 109/247 (44%), Gaps = 13/247 (5%)
Frame = +3
Query: 135 KTYNINDVKDGITKDFNNNGNLK----AVEPILVNFDQLTTSTDAFNIKECISTSNFQLQ 302
KT D++ I N+ N+ AV P L T + D FNI + N +
Sbjct: 40 KTIKFLDMRGNIATSARNSLNISPGVFAVNPFLGE----TLAEDTFNILDYAGLGN--VD 93
Query: 303 TCYKCITNSLAMXXXXXXXXXXXXXLSD-VTYYIVPKVKPGAIKNVISYNRFMAICIAGI 479
C ++ S + +SD +V ++ ++NV+S+N+ A+ I
Sbjct: 94 ACASHLSRSQELREQVTEKTLREVPISDSYVLKVVSNLQATTVQNVVSFNKACAVMSFNI 153
Query: 480 RVNLTKKIYDWNKHEYVA--ANTETLQVPDGVGNKLALSCGMDEGHDLYWFYASGFEYTF 653
+ T ++YDW K+EYV+ + +V + N+LA + Y+ G+E+ +
Sbjct: 154 LRHTTDEMYDWTKNEYVSLGLKEKAAKVNPNIINRLAGQINLSPQSPYYYLVTPGYEFLY 213
Query: 654 DLYPVEVICCVMLRLANAEEFKL-SKVDDLDLVKNLASQIGKK-----GQIDDVLNSIGI 815
D YP E I ++++A + L + D D+ +L ++I K+ IDD++ IG
Sbjct: 214 DAYPAETIAMTLVKMAYRKTMNLPDSMKDSDICSSLNAKINKRHNLAVNNIDDIIKQIGK 273
Query: 816 DTISEAY 836
I + Y
Sbjct: 274 KHIEDMY 280
>gb|AAW12704.1| nucleoprotein [High Plains virus]
Length = 100
Score = 72.8 bits (177), Expect = 8e-11
Identities = 34/92 (36%), Positives = 52/92 (56%), Gaps = 1/92 (1%)
Frame = +3
Query: 498 KIYDWNKHEYVA-ANTETLQVPDGVGNKLALSCGMDEGHDLYWFYASGFEYTFDLYPVEV 674
K+++W+ Y NT D NKLA+S G + H +WFY++GFEYTFD++P EV
Sbjct: 9 KVFNWSNKRYEDNKNTINFNEDDDFMNKLAMSAGFSKEHKYHWFYSTGFEYTFDIFPAEV 68
Query: 675 ICCVMLRLANAEEFKLSKVDDLDLVKNLASQI 770
I + R ++ E K+ + DLV + Q+
Sbjct: 69 IAMSLFRWSHRVELKIKYEHESDLVAPMVRQV 100
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF excluding environmental samples
from WGS projects
Posted date: Jun 4, 2009 5:40 PM
Number of letters in database: 3,078,807,967
Number of sequences in database: 8,994,603
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 8994603
Number of Hits to DB: 5,492,690,251
Number of extensions: 101053918
Number of successful extensions: 250509
Number of sequences better than 1.0e-04: 6
Number of HSP's gapped: 250209
Number of HSP's successfully gapped: 6
Length of query: 454
Length of database: 3,078,807,967
Length adjustment: 139
Effective length of query: 315
Effective length of database: 1,828,558,150
Effective search space: 575995817250
Effective search space used: 575995817250
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
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