Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 418 e-117
Alignment gi|NP_001074392.1| MHC cell surface glycoprotein [Bos taurus]. 303 2e-82
Alignment gi|NP_001029840.2| boLa class II histocompatibility antigen, DQ... 300 1e-81
Alignment gi|NP_001012694.2| major histocompatibility complex, class II, ... 286 2e-77
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 280 1e-75
Alignment gi|XP_001253929.2| PREDICTED: major histocompatibility complex,... 278 4e-75
Alignment gi|XP_002697362.1| PREDICTED: histocompatibility complex, class... 265 4e-71
Alignment gi|XP_582099.3| PREDICTED: histocompatibility complex, class II... 265 4e-71
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 258 7e-69
Alignment gi|NP_001077254.1| MHC class II antigen DS beta [Bos taurus]. 254 6e-68
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus].
Length = 271
Score = 418 bits (1075), Expect = e-117
Identities = 197/258 (76%), Positives = 226/258 (87%)
Frame = +3
Query: 72 WVPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFV 251
WVPWVV L T +RLD+S+TQGRD PEDFV QAKADCYFTNGT++V+FVVRFIFNLE++
Sbjct: 5 WVPWVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYA 64
Query: 252 RFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPE 431
RFDSDLG FVALTELG+PDAE WN+RPDIL SRASVD+LCRRNY+LGAP TV R+VQPE
Sbjct: 65 RFDSDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPE 124
Query: 432 VTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTV 611
VTV+PE+TP+LQ RNLLLC VTGFYPG I++ WFRNGQEQREG+++TGL+RNGDWTFQ
Sbjct: 125 VTVYPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMT 184
Query: 612 VMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGII 791
VML MTPELG+VYTCLVDHPSLLSPVSVEWRAQS+ SW K+L G AAFL GL F LV I+
Sbjct: 185 VMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIV 244
Query: 792 IHVRARKGCVETQLSGDE 845
+H+RA KG VET L G+E
Sbjct: 245 VHIRAWKGRVETPLPGNE 262
>ref|NP_001074392.1| MHC cell surface glycoprotein [Bos taurus].
Length = 261
Score = 303 bits (775), Expect = 2e-82
Identities = 139/251 (55%), Positives = 191/251 (76%), Gaps = 3/251 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W+P W+ A++V ++ L + +GRD P+DF++Q CYFTNGT+RV+ V R+I+N E
Sbjct: 8 WIPRGLWIAAVMVILVVLSTPGAEGRDSPQDFLVQFLGQCYFTNGTERVRSVTRYIYNRE 67
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
E+VRFDSD+ ++ A+T LG+P AE WNS+ DILE RA VD +CR NY L +++R+V
Sbjct: 68 EYVRFDSDVNEYRAVTPLGRPSAEYWNSQEDILERVRAEVDTVCRHNYQLELITSLQRRV 127
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
+P VT+ P RT +L NLL+CSVT FYPG I++RWFRN QE+ GV++T L+RNGDWTF
Sbjct: 128 EPTVTISPSRTEALNHHNLLVCSVTDFYPGQIKVRWFRNDQEETAGVVSTPLIRNGDWTF 187
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
Q +VMLEMTP+ GDVYTC V+HPSL SP++VEWRAQS+ + +K+L GV F+ GL FL +
Sbjct: 188 QILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFVLGLIFLGL 247
Query: 783 GIIIHVRARKG 815
G+I+H R++KG
Sbjct: 248 GLIVHHRSQKG 258
>ref|NP_001029840.2| boLa class II histocompatibility antigen, DQB*0101 beta chain
precursor [Bos taurus].
Length = 261
Score = 300 bits (768), Expect = 1e-81
Identities = 139/251 (55%), Positives = 187/251 (74%), Gaps = 3/251 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W+P W ++VT++ L + +GRD P+DFV+Q K CYFTNGT+RV++V R+I+N E
Sbjct: 8 WIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTRYIYNQE 67
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
E+VRFDSD + ALT LG+PDAE WNS+ D LE +RA D +CR NY +++R+V
Sbjct: 68 EYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELITSLQRRV 127
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
+P VT+ P RT +L NLL+CSVT FYP I++RWFRN +E+ GV++T L+RNGDWTF
Sbjct: 128 EPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIRNGDWTF 187
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
Q +VMLEMTP+ GDVYTC V+HPSL SP+ VEWRAQS+ + +K+L GV F+ GL FL +
Sbjct: 188 QILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLGLIFLGL 247
Query: 783 GIIIHVRARKG 815
G+IIH R++KG
Sbjct: 248 GLIIHHRSQKG 258
>ref|NP_001012694.2| major histocompatibility complex, class II, DQ beta [Bos taurus].
Length = 261
Score = 286 bits (732), Expect = 2e-77
Identities = 132/251 (52%), Positives = 187/251 (74%), Gaps = 3/251 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W+P W A++VT+ L + +GRD P+D V+ CYFTNGT+RV++V R+I+N E
Sbjct: 8 WIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMCQCYFTNGTERVRYVTRYIYNQE 67
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
E +DSD+G++ A+T+LG+ AE WNS+ DILE +RA +D +CR NY L +++R+V
Sbjct: 68 ETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVITSLQRQV 127
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
+P VT+ RT +L NLL+CSVT FYPG I++RWF+NG+E+ G+++T L+RNGDWTF
Sbjct: 128 EPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWTF 187
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
Q +VMLEMTP+ GDVYTC V+HPSL SP+SVEWRAQS+ + +K+L GV F+ GL FL +
Sbjct: 188 QILVMLEMTPKRGDVYTCRVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLGLIFLGL 247
Query: 783 GIIIHVRARKG 815
G+I+ R++KG
Sbjct: 248 GLIVRRRSQKG 258
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus].
Length = 266
Score = 280 bits (717), Expect = 1e-75
Identities = 135/253 (53%), Positives = 180/253 (71%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W+ AL+V ++ L + R+ F+ K +C+F NGT+RV+F+ R +N EEFVRFD
Sbjct: 11 WMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHFYNGEEFVRFD 70
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD G+F A+TELG+P AE WNS+ D LE RA VD +CR NY TV+R+V+P VTV
Sbjct: 71 SDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTV 130
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
+P +T LQ NLL+CSV GFYPG IE+RWFRNG E+ GV++TGL++NGDWTFQT+VML
Sbjct: 131 YPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNGDWTFQTMVML 190
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
E P+ G+VYTC VDHP SP++VEWRA+SD + +K++ GV F+ GL FL VG+ I+
Sbjct: 191 ETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLLFLAVGLFIYF 250
Query: 801 RARKGCVETQLSG 839
R +KG Q +G
Sbjct: 251 RNQKGRPTLQPTG 263
>ref|XP_001253929.2| PREDICTED: major histocompatibility complex, class II, DR beta
3-like [Bos taurus].
Length = 266
Score = 278 bits (712), Expect = 4e-75
Identities = 134/254 (52%), Positives = 182/254 (71%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W+ AL+V ++ L + R+ F+ K +C+F NGT+RV+F+ R+ N EE+VRFD
Sbjct: 11 WMAALIVMLMVLCPPLAWAREIQPHFLEYYKRECHFFNGTERVRFLDRYFHNGEEYVRFD 70
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD G++ A+TELGQ AE NS+ D LE +RA+VD CR NY +G TV+R+V+P VTV
Sbjct: 71 SDWGEYRAVTELGQRVAEYCNSQKDFLERARAAVDTYCRHNYGVGESFTVQRRVEPIVTV 130
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
+P +T LQ NLL+CSV GFYPG IE+RWFRNG E+ GV++TGL++NGDWTFQT+VML
Sbjct: 131 YPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNGDWTFQTMVML 190
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
E P+ G+VYTC V+HPS SP++VEWRAQSD + +K++ GV F GL FL+VG+ H
Sbjct: 191 ETVPQSGEVYTCQVEHPSRTSPITVEWRAQSDSAQSKMMSGVRVFALGLLFLVVGLFTHF 250
Query: 801 RARKGCVETQLSGD 842
R +KG Q +G+
Sbjct: 251 RNQKGHPALQPTGN 264
>ref|XP_002697362.1| PREDICTED: histocompatibility complex, class II, DR beta 2 [Bos
taurus].
Length = 365
Score = 265 bits (677), Expect = 4e-71
Identities = 127/252 (50%), Positives = 172/252 (68%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL V ++ L + R+ F+ Q K +C F+NG +R++F R+I+N +E V FDS
Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G+F ALTELG+ DAE WN + D +E RA VD LCR NY +R+V+P VTV+
Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV GFYPG IE+RWF N E+ GV++TGL++NGDWTFQT+VMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P+ G+VYTC V+HPS SP++VEWRAQSD + +K++ G F GL FL+VG+ H R
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 241 NQKGHSGLQPTG 252
>ref|XP_582099.3| PREDICTED: histocompatibility complex, class II, DR beta 2 [Bos
taurus].
Length = 365
Score = 265 bits (677), Expect = 4e-71
Identities = 127/252 (50%), Positives = 172/252 (68%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL V ++ L + R+ F+ Q K +C F+NG +R++F R+I+N +E V FDS
Sbjct: 1 MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G+F ALTELG+ DAE WN + D +E RA VD LCR NY +R+V+P VTV+
Sbjct: 61 DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV GFYPG IE+RWF N E+ GV++TGL++NGDWTFQT+VMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P+ G+VYTC V+HPS SP++VEWRAQSD + +K++ G F GL FL+VG+ H R
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 241 NQKGHSGLQPTG 252
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus].
Length = 259
Score = 258 bits (658), Expect = 7e-69
Identities = 129/242 (53%), Positives = 168/242 (69%), Gaps = 2/242 (0%)
Frame = +3
Query: 78 PWVVALLVTVIRLDSSMTQG--RDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFV 251
P VA +V + L + + RD P++FV Q K CYFTNGT+ V+ V R I+N EE +
Sbjct: 9 PGTVAGMVMAVFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEIL 68
Query: 252 RFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPE 431
FDSDLG+FVA+TELG+ AE+WN++ D+L RA VD LCR NY A TV+R+V+P
Sbjct: 69 HFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPT 128
Query: 432 VTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTV 611
VTV P T +L NLL+CSVT FYP ++++WFRN QEQ GV T L +NGDWT+Q
Sbjct: 129 VTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIH 188
Query: 612 VMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGII 791
VMLE P+LGDVY C VDHPSL SP++VEWRAQS+ + +K+ G+ F+ GL FL VG+
Sbjct: 189 VMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGIGGFVLGLIFLGVGLF 248
Query: 792 IH 797
+H
Sbjct: 249 VH 250
>ref|NP_001077254.1| MHC class II antigen DS beta [Bos taurus].
Length = 260
Score = 254 bits (650), Expect = 6e-68
Identities = 124/247 (50%), Positives = 173/247 (70%), Gaps = 3/247 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W P W V L V ++ L + + F++Q K++C+F+NGTQ+V+F+ R+I+N E
Sbjct: 5 WFPPGSWTVILPVILMVLSPLLAWAGNTRTFFMVQGKSECHFSNGTQQVRFLDRYIYNRE 64
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
E V+FDS +G++ A TE+G+P AE WN P L+ +RA+V C NY A TV+R+V
Sbjct: 65 EQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAFCASNYEFFASRTVQRRV 124
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
QP VTV+P ++ L NLL+CSV GFYPG IE+RWFRNGQE+ GV++TGL+ NGDWTF
Sbjct: 125 QPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEKEAGVVSTGLIPNGDWTF 184
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
Q +VMLE+ P+ G+VY C V+HPS +SPVSVEWRAQ S K+L G+ A + GL FL +
Sbjct: 185 QIMVMLEIVPQGGEVYACHVEHPSRMSPVSVEWRAQDKSSQEKMLSGIGACVLGLLFLGM 244
Query: 783 GIIIHVR 803
G++ ++R
Sbjct: 245 GLLFYIR 251
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
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: 33088
Number of Hits to DB: 40,052,060
Number of extensions: 1150035
Number of successful extensions: 4099
Number of sequences better than 1.0e-05: 63
Number of HSP's gapped: 4074
Number of HSP's successfully gapped: 66
Length of query: 321
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 219
Effective length of database: 14,306,398
Effective search space: 3133101162
Effective search space used: 3133101162
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: 34 (17.7 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001041592.1| major histocompatibility complex, class II, ... 426 e-119
Alignment gi|NP_001014768.1| DLA class II histocompatibility antigen, DR-... 302 3e-82
Alignment gi|NP_001014403.1| major histocompatibility complex, class II, ... 294 1e-79
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 71 2e-12
Alignment gi|NP_001011726.1| major histocompatibility complex, class II, ... 69 9e-12
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam... 68 1e-11
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 67 2e-11
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 61 1e-09
Alignment gi|NP_001018646.1| MHC class Ib [Canis lupus familiaris]. 60 3e-09
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 60 4e-09
>ref|NP_001041592.1| major histocompatibility complex, class II, DO beta [Canis lupus
familiaris].
Length = 270
Score = 426 bits (1094), Expect = e-119
Identities = 206/258 (79%), Positives = 230/258 (89%)
Frame = +3
Query: 72 WVPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFV 251
WVPW++ALLV V LDSSMTQGRD PEDFVIQAKADCYF NGT++VQFVVRFIFNLEE+
Sbjct: 5 WVPWMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYA 64
Query: 252 RFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPE 431
RFDS +G FVALTELG+PDAELWNS+P ILE SRASVD+LCR NY LGAP TV RKVQPE
Sbjct: 65 RFDSHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPE 124
Query: 432 VTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTV 611
VTV+PERTPS+Q NLLLCSVTGFYPG I+I+WFRNGQE+R GV++TGL+RNGDWTFQT+
Sbjct: 125 VTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTM 184
Query: 612 VMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGII 791
VMLEMTPELGDVYTCLV+HPSLLSPVSVEWRAQS SW K+L G+AAFL GL FLLVG +
Sbjct: 185 VMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTV 244
Query: 792 IHVRARKGCVETQLSGDE 845
I +RA+KG VETQ SGDE
Sbjct: 245 ICLRAQKGYVETQFSGDE 262
>ref|NP_001014768.1| DLA class II histocompatibility antigen, DR-1 beta chain precursor
[Canis lupus familiaris].
Length = 266
Score = 302 bits (774), Expect = 3e-82
Identities = 143/253 (56%), Positives = 190/253 (75%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W+ AL++ ++ L+ RD P F+ AK++CYFTNGT+RV+FV R+I N EEFVRFD
Sbjct: 11 WMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYIHNREEFVRFD 70
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD+G+F A+TELG+P AE WN + +ILE RA+VD CR NY + TV+R+V+P VTV
Sbjct: 71 SDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTVQRRVEPTVTV 130
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
+P +T +LQ NLL+CSV GFYPG IE+RW RNGQE+ GV++TGL+RNGDWTFQ +VML
Sbjct: 131 YPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQILVML 190
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
E+ P+ G+VYTC V+HPSL SPV+VEWRAQSD + +K+L G+ F+ GL FL VG+ I+
Sbjct: 191 EIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLLFLAVGLFIYF 250
Query: 801 RARKGCVETQLSG 839
R +KG Q +G
Sbjct: 251 RNQKGHSGLQPTG 263
>ref|NP_001014403.1| major histocompatibility complex, class II, DQ beta 1 [Canis lupus
familiaris].
Length = 269
Score = 294 bits (752), Expect = 1e-79
Identities = 134/245 (54%), Positives = 186/245 (75%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W A+++ ++ L + +GRD P+DFV Q KA+CYFTNGT+RV+ + ++I+N EEFVRFD
Sbjct: 14 WTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTKYIYNREEFVRFD 73
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD+G+F A+TELG+PDAE WN + D ++ RA +D +CR NY T++R+V+P VT+
Sbjct: 74 SDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELTTLQRRVEPTVTI 133
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
P +T L NLL+CSVT FYPG I++RWFRN QEQ GV++T L+RNGDWTFQ +VML
Sbjct: 134 FPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQILVML 193
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
EMTP+ GDVYTC V+H SL SP++V+WRAQS+ + +K+L G+ F+ GL FL +G+II
Sbjct: 194 EMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLGLIFLGLGLIIRH 253
Query: 801 RARKG 815
R++KG
Sbjct: 254 RSQKG 258
>ref|XP_849737.1| PREDICTED: similar to HLA class II histocompatibility antigen, DM
beta chain precursor (MHC class II antigen DMB) [Canis
familiaris].
Length = 263
Score = 70.9 bits (172), Expect = 2e-12
Identities = 62/236 (26%), Positives = 93/236 (39%), Gaps = 8/236 (3%)
Frame = +3
Query: 96 LVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGK 275
+ T++ L ++ G F+ ++ C + F FN + +D D K
Sbjct: 1 MTTLLPLLLGLSLGSTGEGGFIAHVESSCLLDDDGTPKDFTYCVSFNKDLLTCWDPDEAK 60
Query: 276 FV-----ALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
V L L ++ N + + + + LT R P V V
Sbjct: 61 MVPYEFGTLNVLANYLSDYLNQQEYLHQRLSNGLQDCATHTQSFWGSLT-HRTRPPTVQV 119
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVR-NGDWTFQTVVM 617
+ + +L C V GFYP + I W +NGQ A + + NGDWT+QTV
Sbjct: 120 AKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSH 179
Query: 618 LEMTPELGDVYTCLVDHPSLLSPVSVEWR-AQSDCSWTKLLI-GVAAFLGGLTFLL 779
L TP D YTC+V+H PV +W S K+ + GV LG + F L
Sbjct: 180 LATTPSYEDTYTCVVEHIGAPEPVCEDWTPGLSPMQTVKVSVSGVTLGLGFIIFSL 235
>ref|NP_001011726.1| major histocompatibility complex, class II, DQ alpha [Canis lupus
familiaris].
Length = 255
Score = 68.6 bits (166), Expect = 9e-12
Identities = 40/123 (32%), Positives = 55/123 (44%)
Frame = +3
Query: 426 PEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQ 605
PEVTV + L N L+C V +P I + W +N EGV T GD +F
Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172
Query: 606 TVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVG 785
+ L P D+Y C V+H L P+ W + ++L V L GL LVG
Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCAL-GLAVGLVG 231
Query: 786 III 794
I++
Sbjct: 232 IVM 234
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis lupus familiaris].
Length = 254
Score = 67.8 bits (164), Expect = 1e-11
Identities = 65/247 (26%), Positives = 96/247 (38%), Gaps = 3/247 (1%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W V +I+ + +T DP +F+ D F ++ + V R LEEF RF
Sbjct: 24 WAVKEEHVIIQAEFYLTP--DPSGEFMFDFDGDEIFHVDMEKKETVWR----LEEFGRFA 77
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
S F A L + +A++D + +R+ T V PEVTV
Sbjct: 78 S----FEAQGALAN------------IAVDKANLDTMIKRSNH-----TPNTNVPPEVTV 116
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
L N+L+C + F P I + W RNG GV T + D F+ L
Sbjct: 117 LSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPREDHLFRKFHYL 176
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLG---GLTFLLVGII 791
P DVY C V+H L P+ W + + V LG GL ++ G I
Sbjct: 177 PFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTENVVCALGLIVGLVGIITGTI 236
Query: 792 IHVRARK 812
++ +
Sbjct: 237 FIIKGMR 243
>ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 11 [Canis familiaris].
Length = 227
Score = 67.4 bits (163), Expect = 2e-11
Identities = 49/156 (31%), Positives = 65/156 (41%), Gaps = 5/156 (3%)
Frame = +3
Query: 351 RASVDVLCRRNYWLGA--PLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEI 524
+A +DVL R+ A + + P V V P+ L N+L+C V +P I I
Sbjct: 63 KAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINI 122
Query: 525 RWFRNGQEQREGVLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWR 704
W RNGQ EGV T D F+ L P D+Y C V+H L P+ W
Sbjct: 123 TWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWE 182
Query: 705 AQSDCSWTKLLIGVAAFLG---GLTFLLVGIIIHVR 803
Q + + LG GL LVG I +R
Sbjct: 183 PQVPIPVPDTIETLICALGLALGLVGFLVGTIFIIR 218
>ref|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein precursor
(Zn-alpha-2-glycoprotein) (Zn-alpha-2-GP) [Canis
familiaris].
Length = 315
Score = 61.2 bits (147), Expect = 1e-09
Identities = 46/206 (22%), Positives = 90/206 (43%), Gaps = 5/206 (2%)
Frame = +3
Query: 99 VTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGKF 278
+ ++ L M +D Q C N F R+ ++ F+ F+ ++ +
Sbjct: 96 IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154
Query: 279 VALTELGQPDAELWNSRPDILESSRASVDVLCR---RNYWLGAPLTVERKVQPEVTVHPE 449
V + W + ++ ++A ++ C + Y ++R+ P V++
Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYLDRQEPPSVSITSH 214
Query: 450 RTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLEMT 629
TP + L C V+GFYP I++ W + + +E L+ +G+ T+Q V++ +
Sbjct: 215 GTP--EGIQTLKCWVSGFYPQEIDLHWIQ-ADDTQETKSGGALLPSGNNTYQAWVVMSAS 271
Query: 630 PE--LGDVYTCLVDHPSLLSPVSVEW 701
P+ Y+CLV H SL P++V W
Sbjct: 272 PQDLASFSYSCLVKHSSLSQPLTVLW 297
>ref|NP_001018646.1| MHC class Ib [Canis lupus familiaris].
Length = 381
Score = 60.1 bits (144), Expect = 3e-09
Identities = 48/202 (23%), Positives = 84/202 (41%), Gaps = 11/202 (5%)
Frame = +3
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPL-----T 407
+++ DL ++ + Q W++ + E+ + ++ C WL L T
Sbjct: 152 DYITLSEDLRSWIVEDPVAQITRRKWDAAT-VAENRKNFLEGRCLE--WLRRHLENGRET 208
Query: 408 VERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRN 587
++R P+ +V R P + L C GFYP I + W R+G++Q +
Sbjct: 209 LQRADPPKTSV--TRRPISEHEVTLKCWALGFYPAEITLTWQRDGEDQTQDTELVETRPG 266
Query: 588 GDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGL 767
GD TFQ + + YTC + H SL P+++ W + I + + + GL
Sbjct: 267 GDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQST-----IPIVSIIAGL 321
Query: 768 TFL------LVGIIIHVRARKG 815
L LVG++I + G
Sbjct: 322 VLLVITGAMLVGVVIWRKKHSG 343
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris].
Length = 125
Score = 59.7 bits (143), Expect = 4e-09
Identities = 33/92 (35%), Positives = 47/92 (51%)
Frame = +3
Query: 426 PEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQ 605
P++ V+ N L C V+GF+P IEI +NG+E + T L + DWTF
Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAE--QTDLSFSKDWTFY 89
Query: 606 TVVMLEMTPELGDVYTCLVDHPSLLSPVSVEW 701
+V E TP D ++C V H +L P V+W
Sbjct: 90 LLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
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: 33336
Number of Hits to DB: 41,722,003
Number of extensions: 1182904
Number of successful extensions: 4258
Number of sequences better than 1.0e-05: 17
Number of HSP's gapped: 4241
Number of HSP's successfully gapped: 17
Length of query: 321
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 218
Effective length of database: 15,440,896
Effective search space: 3366115328
Effective search space used: 3366115328
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: 34 (17.7 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_003128376.1| PREDICTED: HLA class II histocompatibility a... 531 e-151
Alignment gi|NP_001107536.2| MHC class II, DO beta [Sus scrofa]. 528 e-150
Alignment gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ... 281 3e-76
Alignment gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a... 280 1e-75
Alignment gi|NP_001107167.1| MHC class II histocompatibility antigen SLA-... 278 4e-75
Alignment gi|XP_003128372.1| PREDICTED: DLA class II histocompatibility a... 277 5e-75
Alignment gi|XP_001929631.2| PREDICTED: hypothetical protein LOC100155975... 128 4e-30
Alignment gi|NP_001172072.1| src-like-adapter [Sus scrofa]. 78 6e-15
Alignment gi|NP_998933.1| MHC class I antigen 7 [Sus scrofa]. 75 7e-14
Alignment gi|NP_001107179.1| MHC class II, DM beta [Sus scrofa]. 74 1e-13
>ref|XP_003128376.1| PREDICTED: HLA class II histocompatibility antigen, DO beta
chain-like [Sus scrofa].
Length = 277
Score = 531 bits (1369), Expect = e-151
Identities = 263/277 (94%), Positives = 263/277 (94%)
Frame = +3
Query: 21 MIYTTXXXXXXXXXXXXWVPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGT 200
MIYTT WVPWVVALLV VIRLDSSMTQGRDPPEDFVIQAKADCYFTNGT
Sbjct: 1 MIYTTSFSFSPSRMGSSWVPWVVALLVMVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGT 60
Query: 201 QRVQFVVRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR 380
QRVQFVVRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR
Sbjct: 61 QRVQFVVRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR 120
Query: 381 NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG 560
NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG
Sbjct: 121 NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG 180
Query: 561 VLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI 740
VLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI
Sbjct: 181 VLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI 240
Query: 741 GVAAFLGGLTFLLVGIIIHVRARKGCVETQLSGDEPH 851
GVAAFLGGLTFLLVGIIIHVRARKG VETQLSGDEPH
Sbjct: 241 GVAAFLGGLTFLLVGIIIHVRARKGRVETQLSGDEPH 277
>ref|NP_001107536.2| MHC class II, DO beta [Sus scrofa].
Length = 277
Score = 528 bits (1360), Expect = e-150
Identities = 261/277 (94%), Positives = 262/277 (94%)
Frame = +3
Query: 21 MIYTTXXXXXXXXXXXXWVPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGT 200
MIYTT WVPWVVALLVTVIRLDSSMTQGRD PEDFVIQAKADCYFTNGT
Sbjct: 1 MIYTTSFSFSPSRMGSSWVPWVVALLVTVIRLDSSMTQGRDSPEDFVIQAKADCYFTNGT 60
Query: 201 QRVQFVVRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR 380
QRVQFVVRFIFNLEE VRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR
Sbjct: 61 QRVQFVVRFIFNLEELVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRR 120
Query: 381 NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG 560
NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG
Sbjct: 121 NYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG 180
Query: 561 VLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI 740
VLATGL+RNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI
Sbjct: 181 VLATGLIRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLI 240
Query: 741 GVAAFLGGLTFLLVGIIIHVRARKGCVETQLSGDEPH 851
GVAAFLGGLTFLLVGIIIHVRARKG VETQLSGDEPH
Sbjct: 241 GVAAFLGGLTFLLVGIIIHVRARKGRVETQLSGDEPH 277
>ref|NP_001107166.1| SLA class II histocompatibility antigen, DQ haplotype C beta chain
precursor [Sus scrofa].
Length = 261
Score = 281 bits (720), Expect = 3e-76
Identities = 129/247 (52%), Positives = 182/247 (73%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W AL V ++ L + + +GRD P+DFV Q K +CYF NGTQRV+ V R+I+N EE +RFD
Sbjct: 14 WTAALTVMLVVLGAPVAEGRDSPQDFVFQFKGECYFYNGTQRVRGVARYIYNQEEHLRFD 73
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD+G+F A+T LG+P+A+ WNS+ D+LE RA VD +C+ NY + T++R+VQP VT+
Sbjct: 74 SDVGEFRAVTPLGRPEADSWNSQKDVLEQMRAEVDRVCKHNYQIEEGTTLQRRVQPTVTI 133
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
P + +L NLL+C+VT FYP ++++WFRNGQE+ GV++T L+RNGDWT+Q +VML
Sbjct: 134 SPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQVLVML 193
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
EM + GDVYTC V+H SL +P+ VEWRAQS+ + +K+L GV F+ GL FL +G+ I
Sbjct: 194 EMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSGVGGFVLGLIFLGLGLFIRH 253
Query: 801 RARKGCV 821
R++KG V
Sbjct: 254 RSQKGLV 260
>ref|XP_003128397.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
chain-like [Sus scrofa].
Length = 321
Score = 280 bits (715), Expect = 1e-75
Identities = 133/255 (52%), Positives = 185/255 (72%), Gaps = 3/255 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W P W V L V ++ L + D F+IQ K++C+F+NGTQ+V+F+ R+I+N +
Sbjct: 5 WSPGSSWTVFLTVILMVLSPPLAWAGDTRPVFMIQGKSECHFSNGTQQVRFLDRYIYNRD 64
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
E VRFDSD+G++ A+T +GQP A+ WNS+ DIL+ RA+VD CR NY TV+R+V
Sbjct: 65 ELVRFDSDVGEYRAVTPMGQPAAKYWNSQKDILKRVRAAVDTFCRSNYEFFESCTVQRRV 124
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
+P VTV+P +T LQ NLL+CSVTGFYPG +E+RWFRNGQE+ GV++TGL+ NGDWTF
Sbjct: 125 KPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTF 184
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
QT+VMLE P+ G+VY+C V+HPSL SPV+VEWRAQ D S K+L G+ A + GL FL +
Sbjct: 185 QTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRAQHDSSQGKMLCGIGASVLGLLFLGM 244
Query: 783 GIIIHVRARKGCVET 827
G+ I +R+ + +++
Sbjct: 245 GLFISIRSSRQHIDS 259
>ref|NP_001107167.1| MHC class II histocompatibility antigen SLA-DRB1 [Sus scrofa].
Length = 266
Score = 278 bits (710), Expect = 4e-75
Identities = 130/253 (51%), Positives = 181/253 (71%)
Frame = +3
Query: 81 WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 260
W+ AL V ++ L + RD P F+ K +C+F NGT+RV+ + + +N EE VRFD
Sbjct: 11 WMAALTVMLVVLSPPLALARDTPPHFLFLVKDECHFFNGTERVRLLQKQYYNGEEHVRFD 70
Query: 261 SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 440
SD+G++ A+TELG+PDA+ WNS+ D+LE RA+VD CR NY + V R+ +P VTV
Sbjct: 71 SDVGEYRAVTELGRPDAKYWNSQKDLLEQMRAAVDTYCRHNYRILDTFLVPRRAEPTVTV 130
Query: 441 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 620
+P +T LQ NLL+CSVTGFYPG +E+RWFRNGQE+ GV++TGL+ NGDWTFQT+VML
Sbjct: 131 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 190
Query: 621 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 800
E P+ G+VY+C V+HPSL SPV+VEWRA+S+ + K++ GV F+ GL F+ VG+ I+
Sbjct: 191 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGVGGFVLGLLFVAVGLFIYF 250
Query: 801 RARKGCVETQLSG 839
+ +KG Q +G
Sbjct: 251 KNQKGRPALQPTG 263
>ref|XP_003128372.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
chain-like [Sus scrofa].
Length = 261
Score = 277 bits (709), Expect = 5e-75
Identities = 133/246 (54%), Positives = 175/246 (71%)
Frame = +3
Query: 75 VPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVR 254
V W+ AL VT++ + RD P F+ Q K +C F+NGT+RV+F+ R+I+N EE V
Sbjct: 4 VHWMAALTVTLMLWSPPLACARDIPPVFMHQFKCECQFSNGTERVRFLARYIYNTEEDVH 63
Query: 255 FDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEV 434
FDSDLG+F ALTELG+PDAE WN + LE R VD +CR NY L ++R+V+P V
Sbjct: 64 FDSDLGEFRALTELGRPDAEYWNQQKGFLEQMRTKVDTMCRSNYLGIGSLMMQRRVKPRV 123
Query: 435 TVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVV 614
TV+P +T LQ NLL+CSVTGFYPG +E+RWFRNGQE+ GV++TGL+ NGDWTFQT+V
Sbjct: 124 TVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMV 183
Query: 615 MLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIII 794
MLE P+ G+VY+C V+HPSL SPV+VEWRA S+ + K+L G+ + GL L VG+ I
Sbjct: 184 MLETVPQSGEVYSCRVEHPSLTSPVTVEWRAWSESAQGKMLSGIGGCVLGLLVLAVGLFI 243
Query: 795 HVRARK 812
R +K
Sbjct: 244 SCRRQK 249
>ref|XP_001929631.2| PREDICTED: hypothetical protein LOC100155975 [Sus scrofa].
Length = 207
Score = 128 bits (322), Expect = 4e-30
Identities = 67/105 (63%), Positives = 71/105 (67%), Gaps = 13/105 (12%)
Frame = +2
Query: 356 ICGCALQT*LLAGCAPHRG-------------EKSATGGDSASGEDXXXXXXXXXXLLCD 496
+ C LQ +LAG +P G +ATGGDSAS ED LLCD
Sbjct: 104 LLSCGLQQ-VLAGTSPRAGCCPFCSTGRTWAPTSNATGGDSASREDPVPAAPQPAALLCD 162
Query: 497 RVLPRGHRDQVVPERAGAERGGPGHWPRQEWRLDLSDSGDAGNDS 631
RVLPRGHRDQVVPERAGAERGGPGHWPRQEWRLDLSDSGDAGNDS
Sbjct: 163 RVLPRGHRDQVVPERAGAERGGPGHWPRQEWRLDLSDSGDAGNDS 207
>ref|NP_001172072.1| src-like-adapter [Sus scrofa].
Length = 250
Score = 78.2 bits (191), Expect = 6e-15
Identities = 52/155 (33%), Positives = 69/155 (44%), Gaps = 10/155 (6%)
Frame = +3
Query: 351 RASVDVLCRRNYWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRW 530
RA +DVL R+ A V P VTV P+ +L N+L+C V +P I I W
Sbjct: 93 RAHLDVLVERSNHTRAT-----NVPPRVTVLPKSPVALGQPNVLICIVDNIFPPVINITW 147
Query: 531 FRNGQEQREGVLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQ 710
NGQ EGV T D +F+ L P GD Y C V+H L P+ W Q
Sbjct: 148 LHNGQTVTEGVTQTSFYAQPDHSFRKFHYLTFVPSAGDFYDCKVEHWGLDEPLFTHWEPQ 207
Query: 711 -----SDCSWT-----KLLIGVAAFLGGLTFLLVG 785
D + T L +G+ FL G+T ++ G
Sbjct: 208 VTMPLPDTTETLVCALGLALGLVGFLVGVTLIITG 242
>ref|NP_998933.1| MHC class I antigen 7 [Sus scrofa].
Length = 401
Score = 74.7 bits (182), Expect = 7e-14
Identities = 48/177 (27%), Positives = 79/177 (44%), Gaps = 3/177 (1%)
Frame = +3
Query: 180 CYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRAS 359
CY + ++ +F ++ +++ + DL + A+ Q W + E SRA
Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWEEET-VAEQSRAY 180
Query: 360 VDVLCRRN---YWLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRW 530
++V C ++ Y T++R P+ H R PS + L C GFYP I + W
Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKT--HVTRHPSSDNKVTLRCWALGFYPKEISLTW 238
Query: 531 FRNGQEQREGVLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEW 701
+ GQ+Q + V +GD TF+ L + P YTC V H L P+++ W
Sbjct: 239 QQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295
>ref|NP_001107179.1| MHC class II, DM beta [Sus scrofa].
Length = 272
Score = 73.9 bits (180), Expect = 1e-13
Identities = 44/129 (34%), Positives = 64/129 (49%), Gaps = 12/129 (9%)
Frame = +3
Query: 441 HPERTPSLQLRN----------LLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVR-N 587
H + PS+Q+ +L C V GFYP + I W +NGQ A + + N
Sbjct: 119 HRTQPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPN 178
Query: 588 GDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRA-QSDCSWTKLLIGVAAFLGG 764
GDWT+QTV L TP GD YTC+V+H + P+ +W + S K+ + VA G
Sbjct: 179 GDWTYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDWTSGLSPVQTVKISVSVATLGLG 238
Query: 765 LTFLLVGII 791
L +G++
Sbjct: 239 LIIFSLGLL 247
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
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: 24897
Number of Hits to DB: 25,822,656
Number of extensions: 740808
Number of successful extensions: 2643
Number of sequences better than 1.0e-05: 36
Number of HSP's gapped: 2626
Number of HSP's successfully gapped: 36
Length of query: 321
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 222
Effective length of database: 8,879,129
Effective search space: 1971166638
Effective search space used: 1971166638
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)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 380 e-105
Alignment gi|NP_034512.2| H-2 class II histocompatibility antigen, I-E be... 280 1e-75
Alignment gi|NP_996988.2| histocompatibility 2, class II antigen A, beta ... 272 2e-73
Alignment gi|NP_001029150.1| histocompatibility 2, class II antigen E bet... 253 2e-67
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 80 2e-15
Alignment gi|NP_034517.2| class II histocompatibility antigen, M beta 1 c... 78 1e-14
Alignment gi|XP_003086107.1| PREDICTED: class II histocompatibility antig... 78 1e-14
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 75 8e-14
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 72 5e-13
Alignment gi|NP_032235.1| major histocompatibility complex class I-relate... 67 2e-11
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus].
Length = 271
Score = 380 bits (975), Expect = e-105
Identities = 178/251 (70%), Positives = 212/251 (84%)
Frame = +3
Query: 78 PWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRF 257
PWVVALLV ++RLDS M +GRD PE+FVIQAKADCYFTNGT++V +VRFIFNLEE++ F
Sbjct: 7 PWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYLHF 66
Query: 258 DSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVT 437
DSDLG FVALTELG+PDA+ WN R D+LE+SRA+V+++CR+ Y LGAP TVER V PEVT
Sbjct: 67 DSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPEVT 126
Query: 438 VHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVM 617
V+PERTP LQ NLLLCSVTGFYPG I ++WFRNGQE+R GV++TGLVRNGDWTFQT VM
Sbjct: 127 VYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTTVM 186
Query: 618 LEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIH 797
LEM PELGD+Y+CLV+HP LL PVSV W AQS+ SW K+L G A FL GL LVG++IH
Sbjct: 187 LEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVVIH 246
Query: 798 VRARKGCVETQ 830
++A+K VETQ
Sbjct: 247 LKAQKASVETQ 257
>ref|NP_034512.2| H-2 class II histocompatibility antigen, I-E beta chain precursor
[Mus musculus].
Length = 264
Score = 280 bits (716), Expect = 1e-75
Identities = 134/255 (52%), Positives = 183/255 (71%)
Frame = +3
Query: 75 VPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVR 254
VP V A+++ + L + RD F+ K++C+F NGTQRV+ + R+ +NLEE +R
Sbjct: 7 VPCVAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRLLERYFYNLEENLR 66
Query: 255 FDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEV 434
FDSD+G+F A+TELG+PDAE WNS+P+ LE RA VD +CR NY + V R+V+P V
Sbjct: 67 FDSDVGEFRAVTELGRPDAENWNSQPEFLEQKRAEVDTVCRHNYEISDKFLVRRRVEPTV 126
Query: 435 TVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVV 614
TV+P +T L+ NLL+CSV+ FYPG IE+RWFRNG+E++ G+++TGLVRNGDWTFQT+V
Sbjct: 127 TVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLV 186
Query: 615 MLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIII 794
MLE P+ G+VYTC V+HPSL PV+VEW+AQS + K+L GV F+ GL FL G+ I
Sbjct: 187 MLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLGAGLFI 246
Query: 795 HVRARKGCVETQLSG 839
+ R +KG Q +G
Sbjct: 247 YFRNQKGQSGLQPTG 261
>ref|NP_996988.2| histocompatibility 2, class II antigen A, beta 1 precursor [Mus
musculus].
Length = 265
Score = 272 bits (696), Expect = 2e-73
Identities = 130/243 (53%), Positives = 177/243 (72%), Gaps = 1/243 (0%)
Frame = +3
Query: 90 ALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDL 269
A +V ++ L S T+G D FV Q +CYFTNGTQR+++V R+I+N EE+VR+DSD+
Sbjct: 12 AAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDSDV 71
Query: 270 GKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV-QPEVTVHP 446
G+ A+TELG+PDAE WNS+P+ILE +RA +D +CR NY T R++ QP V +
Sbjct: 72 GEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVISL 131
Query: 447 ERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLEM 626
RT +L N L+CSVT FYP I++RWFRNGQE+ GV +T L+RNGDWTFQ +VMLEM
Sbjct: 132 SRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEM 191
Query: 627 TPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVRA 806
TP G+VYTC V+HPSL SP++VEWRAQS+ +W+K+L G+ + G+ FL +G+ I R+
Sbjct: 192 TPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRHRS 251
Query: 807 RKG 815
+KG
Sbjct: 252 QKG 254
>ref|NP_001029150.1| histocompatibility 2, class II antigen E beta2 [Mus musculus].
Length = 287
Score = 253 bits (645), Expect = 2e-67
Identities = 126/247 (51%), Positives = 175/247 (70%), Gaps = 3/247 (1%)
Frame = +3
Query: 72 WVP---WVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLE 242
W+P V A++++++ L + RDP F+ Q KA+C++ NG +RV V RFI+N E
Sbjct: 5 WLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFIYNQE 64
Query: 243 EFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKV 422
EF RF+SD GKF+A+TELG+P E N++ D+L++ RASVD CR NY L + K
Sbjct: 65 EFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVD-RCRNNYDLVDIFMLNLKA 123
Query: 423 QPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTF 602
+P+VTV+P +T L+ NLL+CSV FYPG+IE+RWFRNG+E++ GV++TGL++N DWT+
Sbjct: 124 EPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTY 183
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLV 782
QT+VMLEM P G+VYTC V+HPSL SPV+VEWRA+S + KLL GV GL L V
Sbjct: 184 QTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLFILAV 243
Query: 783 GIIIHVR 803
G+ ++R
Sbjct: 244 GLFFYLR 250
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus].
Length = 261
Score = 80.1 bits (196), Expect = 2e-15
Identities = 60/230 (26%), Positives = 94/230 (40%), Gaps = 22/230 (9%)
Frame = +3
Query: 156 FVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGKFV-----ALTELGQPDAELW 320
FV ++ C + F FN + +D D+GK V L+ L + + +
Sbjct: 21 FVAHVESTCVLNDAGTPQDFTYCVSFNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNIL 80
Query: 321 NSRPDILESSRASVDVLCRRN--YWLGAPLTVERKVQPEVTVHPERTPSLQLRN------ 476
N + ++ + + +W +V H R PS+++
Sbjct: 81 NEQESLIHRLQNGLQDCATHTQPFW-------------DVLTHRTRAPSVRVAQTTPFNT 127
Query: 477 ----LLLCSVTGFYPGAIEIRWFRNGQ-----EQREGVLATGLVRNGDWTFQTVVMLEMT 629
+L C V GFYP + I W +NGQ +E NGDWT+QTV L +T
Sbjct: 128 REPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQP----NGDWTYQTVSYLALT 183
Query: 630 PELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLL 779
P GDVYTC+V H P+ +W T + + V+A GL F++
Sbjct: 184 PSYGDVYTCVVQHSGTSEPIRGDWTPGLSPIQT-VKVSVSAATLGLGFII 232
>ref|NP_034517.2| class II histocompatibility antigen, M beta 1 chain precursor [Mus
musculus].
Length = 261
Score = 77.8 bits (190), Expect = 1e-14
Identities = 66/239 (27%), Positives = 97/239 (40%), Gaps = 10/239 (4%)
Frame = +3
Query: 93 LLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLG 272
LL+ V+ LD G FV ++ C + F FN + +D D+G
Sbjct: 6 LLLLVLSLDCMGAGG------FVAHVESTCVLDDAGTPQDFTYCVSFNKDLLACWDPDVG 59
Query: 273 KFV-----ALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVT 437
K V L + + + N +L+ + + LT R P V
Sbjct: 60 KIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFWNALT-HRTRAPSVR 118
Query: 438 VHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQ-----EQREGVLATGLVRNGDWTF 602
V + + +L C V GFYP + I W +NGQ +E NGDWT+
Sbjct: 119 VAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQP----NGDWTY 174
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLL 779
QTV L +TP GDVYTC+V H P+ +W T + + V+A GL F++
Sbjct: 175 QTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLSPIQT-VKVSVSAATLGLGFII 232
>ref|XP_003086107.1| PREDICTED: class II histocompatibility antigen, M beta 1 chain-like
[Mus musculus].
Length = 261
Score = 77.8 bits (190), Expect = 1e-14
Identities = 66/239 (27%), Positives = 97/239 (40%), Gaps = 10/239 (4%)
Frame = +3
Query: 93 LLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLG 272
LL+ V+ LD G FV ++ C + F FN + +D D+G
Sbjct: 6 LLLLVLSLDCMGAGG------FVAHVESTCVLDDAGTPQDFTYCVSFNKDLLACWDPDVG 59
Query: 273 KFV-----ALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVT 437
K V L + + + N +L+ + + LT R P V
Sbjct: 60 KIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFWNALT-HRTRPPSVR 118
Query: 438 VHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQ-----EQREGVLATGLVRNGDWTF 602
V + + +L C V GFYP + I W +NGQ +E NGDWT+
Sbjct: 119 VAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQP----NGDWTY 174
Query: 603 QTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLL 779
QTV L +TP GDVYTC+V H P+ +W T + + V+A GL F++
Sbjct: 175 QTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGLSPIQT-VKVSVSAATLGLGFII 232
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha precursor [Mus
musculus].
Length = 255
Score = 75.1 bits (183), Expect = 8e-14
Identities = 59/198 (29%), Positives = 85/198 (42%), Gaps = 3/198 (1%)
Frame = +3
Query: 228 IFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLT 407
I+ LEEF +F S F A L + +A++DV+ R+ T
Sbjct: 67 IWRLEEFAKFAS----FEAQGALAN------------IAVDKANLDVMKERSN-----NT 105
Query: 408 VERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRN 587
+ V PEVTV +L N+L+C + F P + + WFRNG+ EGV T +
Sbjct: 106 PDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPR 165
Query: 588 GDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLG-- 761
D F+ L P D Y C VDH L P+ W + + V LG
Sbjct: 166 DDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTENVVCALGLF 225
Query: 762 -GLTFLLVGIIIHVRARK 812
GL ++VGII+ ++ K
Sbjct: 226 VGLVGIVVGIILIMKGIK 243
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha precursor [Mus
musculus].
Length = 256
Score = 72.4 bits (176), Expect = 5e-13
Identities = 60/196 (30%), Positives = 86/196 (43%), Gaps = 6/196 (3%)
Frame = +3
Query: 225 FIFNLEEFVRFDSDLGKFV-ALTELGQ-----PDAELWNSRPDILESSRASVDVLCRRNY 386
F F+ +E D D + V L E GQ P L N + + ++ VL +R+
Sbjct: 51 FEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQN-----IAVVKHNLGVLTKRSN 105
Query: 387 WLGAPLTVERKVQPEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVL 566
P T E P+ TV P+ L N L+C V +P I I W RN + +GV
Sbjct: 106 --STPATNEA---PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVY 160
Query: 567 ATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGV 746
T N D++F + L P D+Y C V+H L PV W + ++L V
Sbjct: 161 ETSFFVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETV 220
Query: 747 AAFLGGLTFLLVGIII 794
L GL+ LVGI++
Sbjct: 221 VCAL-GLSVGLVGIVV 235
>ref|NP_032235.1| major histocompatibility complex class I-related gene protein
precursor [Mus musculus].
Length = 341
Score = 67.0 bits (162), Expect = 2e-11
Identities = 42/156 (26%), Positives = 77/156 (49%), Gaps = 6/156 (3%)
Frame = +3
Query: 219 VRFIFNLEEFVRFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGA 398
+++ ++ ++F+ F+ D ++A+ + + W + L+ + ++ C WL
Sbjct: 128 LQYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIA--WLKR 185
Query: 399 PL-----TVERKVQPEV-TVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREG 560
L T+ER P V T E P + C GFYP I + W +NG+E +
Sbjct: 186 FLEYGRDTLERTEHPVVRTTRKETFPGI---TTFFCRAHGFYPPEISMTWMKNGEEIAQE 242
Query: 561 VLATGLVRNGDWTFQTVVMLEMTPELGDVYTCLVDH 668
V G++ +GD T+QT + + + P+ DVY+C V+H
Sbjct: 243 VDYGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
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: 30036
Number of Hits to DB: 34,590,944
Number of extensions: 969615
Number of successful extensions: 3543
Number of sequences better than 1.0e-05: 88
Number of HSP's gapped: 3433
Number of HSP's successfully gapped: 88
Length of query: 321
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 220
Effective length of database: 12,583,923
Effective search space: 2768463060
Effective search space used: 2768463060
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: 34 (17.7 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_002111.1| HLA class II histocompatibility antigen, DO bet... 413 e-115
Alignment gi|XP_003120321.1| PREDICTED: HLA class II histocompatibility a... 294 7e-80
Alignment gi|XP_003119340.1| PREDICTED: HLA class II histocompatibility a... 292 3e-79
Alignment gi|XP_003119339.1| PREDICTED: HLA class II histocompatibility a... 292 3e-79
Alignment gi|XP_003119308.1| PREDICTED: HLA class II histocompatibility a... 292 3e-79
Alignment gi|XP_003119307.1| PREDICTED: HLA class II histocompatibility a... 292 3e-79
Alignment gi|NP_001230891.1| HLA class II histocompatibility antigen, DQ ... 291 5e-79
Alignment gi|NP_001230890.1| HLA class II histocompatibility antigen, DQ ... 291 8e-79
Alignment gi|NP_002114.3| HLA class II histocompatibility antigen, DQ bet... 291 8e-79
Alignment gi|NP_002115.2| major histocompatibility complex, class II, DR ... 288 4e-78
>ref|NP_002111.1| HLA class II histocompatibility antigen, DO beta chain precursor
[Homo sapiens].
Length = 273
Score = 413 bits (1061), Expect = e-115
Identities = 201/258 (77%), Positives = 225/258 (87%)
Frame = +3
Query: 72 WVPWVVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFV 251
WVPWVVALLV + RLDSSMTQG D PEDFVIQAKADCYFTNGT++VQFVVRFIFNLEE+V
Sbjct: 5 WVPWVVALLVNLTRLDSSMTQGTDSPEDFVIQAKADCYFTNGTEKVQFVVRFIFNLEEYV 64
Query: 252 RFDSDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPE 431
RFDSD+G FVALT+LGQPDAE WNSR D+LE SR +VD +CR NY LGAP TV RKVQPE
Sbjct: 65 RFDSDVGMFVALTKLGQPDAEQWNSRLDLLERSRQAVDGVCRHNYRLGAPFTVGRKVQPE 124
Query: 432 VTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTV 611
VTV+PERTP L NLL CSVTGFYPG I+I+WF NGQE+R GV++TG +RNGDWTFQTV
Sbjct: 125 VTVYPERTPLLHQHNLLHCSVTGFYPGDIKIKWFLNGQEERAGVMSTGPIRNGDWTFQTV 184
Query: 612 VMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGII 791
VMLEMTPELG VYTCLVDH SLLSPVSVEWRAQS+ SW K+L G+AAFL GL FLLVGI+
Sbjct: 185 VMLEMTPELGHVYTCLVDHSSLLSPVSVEWRAQSEYSWRKMLSGIAAFLLGLIFLLVGIV 244
Query: 792 IHVRARKGCVETQLSGDE 845
I +RA+KG V TQ+SG+E
Sbjct: 245 IQLRAQKGYVRTQMSGNE 262
>ref|XP_003120321.1| PREDICTED: HLA class II histocompatibility antigen, DQ beta 1
chain-like isoform 2 [Homo sapiens].
Length = 261
Score = 294 bits (753), Expect = 7e-80
Identities = 140/234 (59%), Positives = 180/234 (76%)
Frame = +3
Query: 114 LDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGKFVALTE 293
L + + +GRD PEDFV Q K CYFTNGT+RV+ V R I+N EE VRFDSD+G+F A+T
Sbjct: 25 LSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVRFDSDVGEFRAVTL 84
Query: 294 LGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVHPERTPSLQLR 473
LG P AE WNS+ DILE RA+VD +CR NY L T++R+V+P VT+ P RT +L
Sbjct: 85 LGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTVTISPSRTEALNHH 144
Query: 474 NLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLEMTPELGDVYT 653
NLL+CSVT FYP I++RWFRNGQE+ GV++T L+RNGDWTFQ +VMLEMTP+ GDVYT
Sbjct: 145 NLLVCSVTDFYPAQIKVRWFRNGQEETAGVVSTPLIRNGDWTFQILVMLEMTPQRGDVYT 204
Query: 654 CLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVRARKG 815
C V+HPSL SP++VEWRAQS+ + +K+L G+ F+ GL FL +G+IIH R++KG
Sbjct: 205 CHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLIIHHRSQKG 258
>ref|XP_003119340.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
chain-like isoform 2 [Homo sapiens].
Length = 266
Score = 292 bits (748), Expect = 3e-79
Identities = 139/252 (55%), Positives = 187/252 (74%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL VT++ L S + D F+ Q K C+F NGT+RVQF+ R +N EEFVRFDS
Sbjct: 12 MAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDS 71
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G++ A+TELG+P AE WNS+ DILE R VD +CR NY +G TV+R+V PEVTV+
Sbjct: 72 DVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVY 131
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV+GFYPG+IE+RWFRNGQE++ GV++TGL++NGDWTFQT+VMLE
Sbjct: 132 PAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLE 191
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P G+VYTC V+HPS++SP++VEWRA+S+ + +K+L GV F+ GL FL G+ I+ R
Sbjct: 192 TVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFR 251
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 252 NQKGHSGLQPTG 263
>ref|XP_003119339.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
chain-like isoform 1 [Homo sapiens].
Length = 266
Score = 292 bits (748), Expect = 3e-79
Identities = 139/252 (55%), Positives = 187/252 (74%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL VT++ L S + D F+ Q K C+F NGT+RVQF+ R +N EEFVRFDS
Sbjct: 12 MAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDS 71
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G++ A+TELG+P AE WNS+ DILE R VD +CR NY +G TV+R+V PEVTV+
Sbjct: 72 DVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVY 131
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV+GFYPG+IE+RWFRNGQE++ GV++TGL++NGDWTFQT+VMLE
Sbjct: 132 PAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLE 191
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P G+VYTC V+HPS++SP++VEWRA+S+ + +K+L GV F+ GL FL G+ I+ R
Sbjct: 192 TVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFR 251
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 252 NQKGHSGLQPTG 263
>ref|XP_003119308.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
chain-like isoform 2 [Homo sapiens].
Length = 266
Score = 292 bits (748), Expect = 3e-79
Identities = 139/252 (55%), Positives = 187/252 (74%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL VT++ L S + D F+ Q K C+F NGT+RVQF+ R +N EEFVRFDS
Sbjct: 12 MAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDS 71
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G++ A+TELG+P AE WNS+ DILE R VD +CR NY +G TV+R+V PEVTV+
Sbjct: 72 DVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVY 131
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV+GFYPG+IE+RWFRNGQE++ GV++TGL++NGDWTFQT+VMLE
Sbjct: 132 PAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLE 191
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P G+VYTC V+HPS++SP++VEWRA+S+ + +K+L GV F+ GL FL G+ I+ R
Sbjct: 192 TVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFR 251
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 252 NQKGHSGLQPTG 263
>ref|XP_003119307.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
chain-like isoform 1 [Homo sapiens].
Length = 266
Score = 292 bits (748), Expect = 3e-79
Identities = 139/252 (55%), Positives = 187/252 (74%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL VT++ L S + D F+ Q K C+F NGT+RVQF+ R +N EEFVRFDS
Sbjct: 12 MAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDS 71
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G++ A+TELG+P AE WNS+ DILE R VD +CR NY +G TV+R+V PEVTV+
Sbjct: 72 DVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVY 131
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV+GFYPG+IE+RWFRNGQE++ GV++TGL++NGDWTFQT+VMLE
Sbjct: 132 PAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLE 191
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P G+VYTC V+HPS++SP++VEWRA+S+ + +K+L GV F+ GL FL G+ I+ R
Sbjct: 192 TVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFR 251
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 252 NQKGHSGLQPTG 263
>ref|NP_001230891.1| HLA class II histocompatibility antigen, DQ beta 1 chain isoform 1
precursor [Homo sapiens].
Length = 261
Score = 291 bits (746), Expect = 5e-79
Identities = 139/234 (59%), Positives = 179/234 (76%)
Frame = +3
Query: 114 LDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDSDLGKFVALTE 293
L + + +GRD PEDFV Q K CYFTNGT+RV+ V R I+N EE VRFDSD+G+F A+T
Sbjct: 25 LSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVSRSIYNREEIVRFDSDVGEFRAVTL 84
Query: 294 LGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVHPERTPSLQLR 473
LG P AE WNS+ DILE RA+VD +CR NY L T++R+V+P VT+ P RT +L
Sbjct: 85 LGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTVTISPSRTEALNHH 144
Query: 474 NLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLEMTPELGDVYT 653
NLL+CSVT FYP I++RWFRN QE+ GV++T L+RNGDWTFQ +VMLEMTP+ GDVYT
Sbjct: 145 NLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILVMLEMTPQRGDVYT 204
Query: 654 CLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVRARKG 815
C V+HPSL SP++VEWRAQS+ + +K+L G+ F+ GL FL +G+IIH R++KG
Sbjct: 205 CHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLIIHHRSQKG 258
>ref|NP_001230890.1| HLA class II histocompatibility antigen, DQ beta 1 chain isoform 2
precursor [Homo sapiens].
Length = 269
Score = 291 bits (744), Expect = 8e-79
Identities = 135/244 (55%), Positives = 183/244 (75%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
V + + + L S + +GRD PEDFV Q K CYFTNGT+RV+ V R+I+N EE+ RFDS
Sbjct: 15 VATVTLMLAMLSSLLAEGRDSPEDFVFQFKGMCYFTNGTERVRLVTRYIYNREEYARFDS 74
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G + A+T G+PDAE WNS+ ++LE +RA +D +CR NY + ++R+V+P VT+
Sbjct: 75 DVGVYRAVTPQGRPDAEYWNSQKEVLEGTRAELDTVCRHNYEVAFRGILQRRVEPTVTIS 134
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P RT +L NLL+CSVT FYPG I++RWFRN QE+ GV++T L+RNGDWTFQ +VMLE
Sbjct: 135 PSRTEALNHHNLLVCSVTDFYPGQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILVMLE 194
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
MTP+ GDVYTC V+HPSL SP++VEWRAQS+ + +K+L GV F+ GL FL +G+II R
Sbjct: 195 MTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFVLGLIFLGLGLIIRQR 254
Query: 804 ARKG 815
++KG
Sbjct: 255 SQKG 258
>ref|NP_002114.3| HLA class II histocompatibility antigen, DQ beta 1 chain isoform 1
precursor [Homo sapiens].
Length = 261
Score = 291 bits (744), Expect = 8e-79
Identities = 135/244 (55%), Positives = 183/244 (75%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
V + + + L S + +GRD PEDFV Q K CYFTNGT+RV+ V R+I+N EE+ RFDS
Sbjct: 15 VATVTLMLAMLSSLLAEGRDSPEDFVFQFKGMCYFTNGTERVRLVTRYIYNREEYARFDS 74
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G + A+T G+PDAE WNS+ ++LE +RA +D +CR NY + ++R+V+P VT+
Sbjct: 75 DVGVYRAVTPQGRPDAEYWNSQKEVLEGTRAELDTVCRHNYEVAFRGILQRRVEPTVTIS 134
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P RT +L NLL+CSVT FYPG I++RWFRN QE+ GV++T L+RNGDWTFQ +VMLE
Sbjct: 135 PSRTEALNHHNLLVCSVTDFYPGQIKVRWFRNDQEETAGVVSTPLIRNGDWTFQILVMLE 194
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
MTP+ GDVYTC V+HPSL SP++VEWRAQS+ + +K+L GV F+ GL FL +G+II R
Sbjct: 195 MTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFVLGLIFLGLGLIIRQR 254
Query: 804 ARKG 815
++KG
Sbjct: 255 SQKG 258
>ref|NP_002115.2| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens].
Length = 266
Score = 288 bits (738), Expect = 4e-78
Identities = 137/252 (54%), Positives = 189/252 (75%)
Frame = +3
Query: 84 VVALLVTVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFDS 263
+ AL VT++ L S + D F+ Q K +C+F NGT+RV+F+ R+ +N EE VRFDS
Sbjct: 12 MTALTVTLMVLSSPLALSGDTRPRFLWQPKRECHFFNGTERVRFLDRYFYNQEESVRFDS 71
Query: 264 DLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTVH 443
D+G+F A+TELG+PDAE WNS+ DILE +RA+VD CR NY + TV+R+VQP+VTV+
Sbjct: 72 DVGEFRAVTELGRPDAEYWNSQKDILEQARAAVDTYCRHNYGVVESFTVQRRVQPKVTVY 131
Query: 444 PERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVMLE 623
P +T LQ NLL+CSV+GFYPG+IE+RWF NGQE++ G+++TGL++NGDWTFQT+VMLE
Sbjct: 132 PSKTQPLQHHNLLVCSVSGFYPGSIEVRWFLNGQEEKAGMVSTGLIQNGDWTFQTLVMLE 191
Query: 624 MTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHVR 803
P G+VYTC V+HPS+ SP++VEWRA+S+ + +K+L GV F+ GL FL G+ I+ R
Sbjct: 192 TVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFR 251
Query: 804 ARKGCVETQLSG 839
+KG Q +G
Sbjct: 252 NQKGHSGLQPTG 263
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
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: 32964
Number of Hits to DB: 40,999,612
Number of extensions: 1168037
Number of successful extensions: 3974
Number of sequences better than 1.0e-05: 64
Number of HSP's gapped: 3931
Number of HSP's successfully gapped: 64
Length of query: 321
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 218
Effective length of database: 14,901,872
Effective search space: 3248608096
Effective search space used: 3248608096
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: 34 (17.7 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
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= 20110601C-009155
(963 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr07 565 e-158
>Sscrofa_Chr07
|| Length = 134764511
Score = 565 bits (285), Expect = e-158
Identities = 285/285 (100%)
Strand = Plus / Minus
Query: 419 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 478
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399268 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 29399209
Query: 479 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 538
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399208 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 29399149
Query: 539 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 598
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399148 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 29399089
Query: 599 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 658
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399088 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 29399029
Query: 659 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 703
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399028 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 29398984
Score = 549 bits (277), Expect = e-154
Identities = 283/285 (99%)
Strand = Plus / Minus
Query: 419 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 478
|||||||| |||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 29199853 agtgcaactggaggtgacagtgcatccagagaggaccccgtccctgcagctccgcaacct 29199794
Query: 479 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 538
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29199793 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 29199734
Query: 539 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 598
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29199733 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 29199674
Query: 599 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 658
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29199673 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 29199614
Query: 659 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 703
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29199613 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 29199569
Score = 549 bits (277), Expect = e-154
Identities = 283/285 (99%)
Strand = Plus / Minus
Query: 419 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 478
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29244570 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 29244511
Query: 479 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 538
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29244510 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 29244451
Query: 539 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 598
|||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 29244450 cgggcaggagcagagagagggggtcctggccactggcctcatcaggaatggagactggac 29244391
Query: 599 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 658
||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||
Sbjct: 29244390 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctatacctgcct 29244331
Query: 659 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 703
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29244330 tgttgatcatcccagcctgctgagccccgtttctgtggagtggag 29244286
Score = 543 bits (274), Expect = e-152
Identities = 274/274 (100%)
Strand = Plus / Minus
Query: 147 ccagaagattttgtgattcaggcaaaggctgactgttacttcaccaatgggacacaaagg 206
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29245287 ccagaagattttgtgattcaggcaaaggctgactgttacttcaccaatgggacacaaagg 29245228
Query: 207 gtgcagtttgtggtcagattcatctttaacttggaggagttcgtacgttttgacagcgac 266
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29245227 gtgcagtttgtggtcagattcatctttaacttggaggagttcgtacgttttgacagcgac 29245168
Query: 267 ctggggaagtttgtggccttgacagagttggggcagcctgatgctgagctgtggaacagt 326
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29245167 ctggggaagtttgtggccttgacagagttggggcagcctgatgctgagctgtggaacagt 29245108
Query: 327 cgaccagatatcctggagagcagcagagcatctgtggatgtgctctgcagacgtaactac 386
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29245107 cgaccagatatcctggagagcagcagagcatctgtggatgtgctctgcagacgtaactac 29245048
Query: 387 tggctgggtgcgcccctcaccgtggagagaaaag 420
||||||||||||||||||||||||||||||||||
Sbjct: 29245047 tggctgggtgcgcccctcaccgtggagagaaaag 29245014
Score = 543 bits (274), Expect = e-152
Identities = 274/274 (100%)
Strand = Plus / Minus
Query: 147 ccagaagattttgtgattcaggcaaaggctgactgttacttcaccaatgggacacaaagg 206
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399987 ccagaagattttgtgattcaggcaaaggctgactgttacttcaccaatgggacacaaagg 29399928
Query: 207 gtgcagtttgtggtcagattcatctttaacttggaggagttcgtacgttttgacagcgac 266
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399927 gtgcagtttgtggtcagattcatctttaacttggaggagttcgtacgttttgacagcgac 29399868
Query: 267 ctggggaagtttgtggccttgacagagttggggcagcctgatgctgagctgtggaacagt 326
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399867 ctggggaagtttgtggccttgacagagttggggcagcctgatgctgagctgtggaacagt 29399808
Query: 327 cgaccagatatcctggagagcagcagagcatctgtggatgtgctctgcagacgtaactac 386
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29399807 cgaccagatatcctggagagcagcagagcatctgtggatgtgctctgcagacgtaactac 29399748
Query: 387 tggctgggtgcgcccctcaccgtggagagaaaag 420
||||||||||||||||||||||||||||||||||
Sbjct: 29399747 tggctgggtgcgcccctcaccgtggagagaaaag 29399714
Score = 452 bits (228), Expect = e-124
Identities = 237/240 (98%)
Strand = Plus / Minus
Query: 419 agtgcaaccggaggtgacagtgcatccggagaggaccccgtccctgcagctccgcaacct 478
|||||||||||||||||||||||||||||||||||||| ||||||||||||| |||||||
Sbjct: 29353268 agtgcaaccggaggtgacagtgcatccggagaggaccctgtccctgcagctctgcaacct 29353209
Query: 479 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 538
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29353208 gctgctttgctctgtgacagggttctacccaggggccatcgagatcaggtggttccggaa 29353149
Query: 539 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 598
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29353148 cgggcaggagcagagagagggggtcctggccactggcctcgtcaggaatggagactggac 29353089
Query: 599 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacacctgcct 658
||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 29353088 ctttcagacagtggtgatgctggaaatgactcctgagcttggggacgtctacaccagcct 29353029
Score = 280 bits (141), Expect = 1e-72
Identities = 144/145 (99%)
Strand = Plus / Minus
Query: 6 attcggaagaggctgatgatttatacaacctcattttctttttccccctccagaatgggt 65
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29249408 attcggaagaggctgatgatttatacaacctcattttctttttccccctccagaatgggt 29249349
Query: 66 tctagctgggttccctgggtggtggctttgttagtgacggtaatcaggctggactcctcc 125
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29249348 tctagctgggttccctgggtggtggctttgttagtgacggtaatcaggctggactcctcc 29249289
Query: 126 atgactcaaggcagagatcctccag 150
|||||||||||||||||| ||||||
Sbjct: 29249288 atgactcaaggcagagattctccag 29249264
Score = 280 bits (141), Expect = 1e-72
Identities = 144/145 (99%)
Strand = Plus / Minus
Query: 6 attcggaagaggctgatgatttatacaacctcattttctttttccccctccagaatgggt 65
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29404452 attcggaagaggctgatgatttatacaacctcattttctttttccccctccagaatgggt 29404393
Query: 66 tctagctgggttccctgggtggtggctttgttagtgacggtaatcaggctggactcctcc 125
||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 29404392 tctagctgggttccctgggtggtggctttgttagtgatggtaatcaggctggactcctcc 29404333
Query: 126 atgactcaaggcagagatcctccag 150
|||||||||||||||||||||||||
Sbjct: 29404332 atgactcaaggcagagatcctccag 29404308
Score = 180 bits (91), Expect = 9e-43
Identities = 105/112 (93%)
Strand = Plus / Minus
Query: 703 gagctcagtctgactgttcttggacaaagctgctgattggagttgcagccttcctnnnnn 762
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29243579 gagctcagtctgactgttcttggacaaagctgctgattggagttgcagccttcctggggg 29243520
Query: 763 nnctaaccttcctcctggtggggatcatcatccacgtcagggcccgcaaagg 814
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29243519 ggctaaccttcctcctggtggggatcatcatccacgtcagggcccgcaaagg 29243468
Score = 180 bits (91), Expect = 9e-43
Identities = 105/112 (93%)
Strand = Plus / Minus
Query: 703 gagctcagtctgactgttcttggacaaagctgctgattggagttgcagccttcctnnnnn 762
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29397962 gagctcagtctgactgttcttggacaaagctgctgattggagttgcagccttcctggggg 29397903
Query: 763 nnctaaccttcctcctggtggggatcatcatccacgtcagggcccgcaaagg 814
||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29397902 ggctaaccttcctcctggtggggatcatcatccacgtcagggcccgcaaagg 29397851
Score = 147 bits (74), Expect = 1e-32
Identities = 108/120 (90%)
Strand = Plus / Minus
Query: 844 agccacactaaagtcctaggcgaagcgtctccccctggagcctgagttggaactgagtgg 903
||||||||||| |||||||| |||||||||||||||||||||||| |||||||||||||
Sbjct: 29242975 agccacactaaggtcctaggtgaagcgtctccccctggagcctgaagtggaactgagtgg 29242916
Query: 904 cctgggccctgnnacaagtccaggacgttcaggaagtccatgttctggaagattcctttc 963
||||||||||| ||||| ||||||||||||| ||| |||||||||| ||||||||||
Sbjct: 29242915 cctgggccctggacaaagtcaaggacgttcaggaggtcgatgttctggatgattcctttc 29242856
Score = 131 bits (66), Expect = 8e-28
Identities = 107/120 (89%), Gaps = 1/120 (0%)
Strand = Plus / Minus
Query: 844 agccacactaaagtcctaggcgaagcgtctccccctggagcctgagttggaactgagtgg 903
||||||||||| |||||||| ||||||||||||| |||||||||| |||||||||||||
Sbjct: 29397357 agccacactaaggtcctaggtgaagcgtctcccc-tggagcctgaagtggaactgagtgg 29397299
Query: 904 cctgggccctgnnacaagtccaggacgttcaggaagtccatgttctggaagattcctttc 963
||||||||||| ||||| ||||||||||||| ||| |||||||||| ||||||||||
Sbjct: 29397298 cctgggccctggacaaagtcaaggacgttcaggaggtcgatgttctggatgattcctttc 29397239
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Minus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29059984 ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 29059925
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29059924 aggtcaggtggttccggaatggccagga 29059897
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Minus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29080646 ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 29080587
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29080586 aggtcaggtggttccggaatggccagga 29080559
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Minus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29096236 ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 29096177
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29096176 aggtcaggtggttccggaatggccagga 29096149
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Minus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29115394 ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 29115335
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29115334 aggtcaggtggttccggaatggccagga 29115307
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Plus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29211798 ccctgcagcaccacaacctcctggtctgctctgtgactgggttctacccaggccacgtgg 29211857
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29211858 aggtcaggtggttccggaatggccagga 29211885
Score = 63.9 bits (32), Expect = 2e-07
Identities = 74/88 (84%)
Strand = Plus / Plus
Query: 460 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 519
||||||||| || |||||| ||| | ||||||||||| |||||||||||||| | | |
Sbjct: 29365252 ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 29365311
Query: 520 agatcaggtggttccggaacgggcagga 547
|| |||||||||||||||| || |||||
Sbjct: 29365312 aggtcaggtggttccggaatggccagga 29365339
Score = 60.0 bits (30), Expect = 2e-06
Identities = 33/34 (97%)
Strand = Plus / Minus
Query: 812 aggatgtgtggagactcagctgtccggtgatgag 845
|||| |||||||||||||||||||||||||||||
Sbjct: 29243202 aggacgtgtggagactcagctgtccggtgatgag 29243169
Score = 60.0 bits (30), Expect = 2e-06
Identities = 33/34 (97%)
Strand = Plus / Minus
Query: 812 aggatgtgtggagactcagctgtccggtgatgag 845
|||| |||||||||||||||||||||||||||||
Sbjct: 29397584 aggacgtgtggagactcagctgtccggtgatgag 29397551
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 28,547,800
Number of extensions: 204
Number of successful extensions: 204
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 201
Number of HSP's successfully gapped: 21
Length of query: 963
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 942
Effective length of database: 2,808,413,156
Effective search space: 2645525192952
Effective search space used: 2645525192952
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)