BLASTX 2.2.10 [Oct-19-2004] 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= 20060611C-005425 (1263 letters) Database: RefSeqSP 1040 sequences; 434,620 total letters Searching...done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] 73 1e-14 Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 60 8e-11 Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 52 3e-08 Alignment gi|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] 45 5e-06 >ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] Length = 260 Score = 73.2 bits (178), Expect = 1e-14 Identities = 51/176 (28%), Positives = 80/176 (45%), Gaps = 6/176 (3%) Frame = +2 Query: 236 FDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKR-----SXXX 400 +DGD++F + + V RL EF +A + + A I DK +I++ Sbjct: 63 YDGDQLFSFNFSQNIRVPRLPEFADWAH-QIEDTPA-IFFDKGFCREMIEKVGPLFEGKI 120 Query: 401 XXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPR 580 + KP+E G+PN L+CF+ PP + VTW + +PV G+ T Sbjct: 121 PVSRGLPIAEVFTLKPLEFGKPNTLVCFVSNLFPPALTVTWEHHSAPV-EGIGPTFVSAT 179 Query: 581 EDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLP-ETTENTVC 745 +D F+ F YL F P+ D++ C V H + +W Q LP + EN +C Sbjct: 180 DDLSFQAFSYLNFTPTPSDLFSCVVTHELDGYVAISYW--VPQNALPSDLLENVLC 233 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 60.5 bits (145), Expect = 8e-11 Identities = 30/87 (34%), Positives = 45/87 (51%) Frame = +2 Query: 437 SDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLP 616 S P E G+PN L C++ F PP + + L+NG + S+ F +D F + Sbjct: 31 SRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFYLLVHTE 88 Query: 617 FMPSTEDVYDCQVEHWGLDKPLLKHWE 697 F P+ D Y C+V+H LDKP + W+ Sbjct: 89 FTPNAVDQYSCRVKHVTLDKPKIVKWD 115 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 52.0 bits (123), Expect = 3e-08 Identities = 28/83 (33%), Positives = 40/83 (48%) Frame = +2 Query: 473 LICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQ 652 L C+ F P +++TW + G ++ V P D FRK+ L P E Y C Sbjct: 222 LRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCH 281 Query: 653 VEHWGLDKPLLKHWEFEAQTPLP 721 V+H GL +PL W+ Q P+P Sbjct: 282 VQHEGLQEPLTLRWD-PPQPPVP 303 >ref|NP_999362.2| neonatal Fc receptor FcRn [Sus scrofa] Length = 356 Score = 44.7 bits (104), Expect = 5e-06 Identities = 27/85 (31%), Positives = 40/85 (47%) Frame = +2 Query: 467 NILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYD 646 ++L C F PP + + +LRNG + G E+ P D F + L E Y Sbjct: 218 SVLTCIAFSFYPPELQLRFLRNG--LAAGSGESDIGPNGDGSFHAWSSLTVKSGDEHHYC 275 Query: 647 CQVEHWGLDKPLLKHWEFEAQTPLP 721 C V+H GL +PL E A++ +P Sbjct: 276 CVVQHAGLAQPLTVELESPAKSSMP 300 Database: RefSeqSP Posted date: Aug 1, 2006 7:14 PM Number of letters in database: 434,620 Number of sequences in database: 1040 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 Hits to DB: 1,207,194 Number of Sequences: 1040 Number of extensions: 31855 Number of successful extensions: 118 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 96 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 0 Number of HSP's gapped (non-prelim): 115 length of database: 434,620 effective HSP length: 79 effective length of database: 352,460 effective search space used: 120188860 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)
Search to RefSeqBP
BLASTX 2.2.10 [Oct-19-2004] 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= 20060611C-005425 (1263 letters) Database: RefSeqBP 33,508 sequences; 16,112,626 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 355 5e-98 Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 235 6e-62 Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 231 7e-61 Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 223 3e-58 Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 209 5e-54 Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 207 2e-53 Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 201 8e-52 Alignment gi|NP_001012692.2| major histocompatibility complex, class II, ... 68 1e-11 Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 60 4e-09 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 59 6e-09 >ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus] Length = 253 Score = 355 bits (910), Expect = 5e-98 Identities = 174/253 (68%), Positives = 193/253 (76%), Gaps = 1/253 (0%) Frame = +2 Query: 92 MTILGVPVLGFVITIL-NLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDM 268 M I VP+LG IT+L LQ+SWAI ENHVIIQAEFYL P++S EFMFDFDGDEIFHVDM Sbjct: 1 MAITRVPILGLFITVLIGLQESWAIKENHVIIQAEFYLKPEESAEFMFDFDGDEIFHVDM 60 Query: 269 EKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKP 448 K+ETVWRL EFGHFASFEAQGALAN+AV KANL+I+IKRS L +KP Sbjct: 61 GKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSNNTPNTNVPPEVTLLPNKP 120 Query: 449 VELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPS 628 VELGEPN LICFIDKFSPPV++VTWLRNG PVT GVS+TVFLPR DHLFRKFHYLPF+P+ Sbjct: 121 VELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFLPRNDHLFRKFHYLPFLPT 180 Query: 629 TEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXX 808 TEDVYDC+VEH GL++PLLKHWE+EA PLPETTEN VCA Sbjct: 181 TEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTENAVCALGLIVALVGIIAGTIFIIKG 240 Query: 809 XRKGNATERRGPL 847 RK N ERRGPL Sbjct: 241 VRKANTVERRGPL 253 >ref|XP_604082.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO alpha chain precursor (MHC class II antigen DOA) (MHC DZ alpha) (MHC DN-alpha) isoform 1 [Bos taurus] Length = 250 Score = 235 bits (599), Expect = 6e-62 Identities = 114/222 (51%), Positives = 153/222 (68%), Gaps = 3/222 (1%) Frame = +2 Query: 92 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 262 M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 263 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 442 D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRS L Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPK 120 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 V+LGEPN+LIC +DK PPV+N+TWLRNG PVT+GV+++ F + DHLFRKFHYL F+ Sbjct: 121 SHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFV 180 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCA 748 P +D YDC+VEHWGLD+PL +HWE + T LP+TT VCA Sbjct: 181 PLVDDFYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 222 >ref|XP_883292.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO alpha chain precursor (MHC class II antigen DOA) (MHC DZ alpha) (MHC DN-alpha) isoform 2 [Bos taurus] Length = 251 Score = 231 bits (590), Expect = 7e-61 Identities = 114/223 (51%), Positives = 154/223 (69%), Gaps = 4/223 (1%) Frame = +2 Query: 92 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 262 M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 263 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 442 D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRS + Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNGSTPQVAVLP 120 Query: 443 KP-VELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPF 619 K V+LGEPN+LIC +DK PPV+N+TWLRNG PVT+GV+++ F + DHLFRKFHYL F Sbjct: 121 KSHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTF 180 Query: 620 MPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCA 748 +P +D YDC+VEHWGLD+PL +HWE + T LP+TT VCA Sbjct: 181 VPLVDDFYDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 223 >ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus] Length = 255 Score = 223 bits (567), Expect = 3e-58 Identities = 113/240 (47%), Positives = 142/240 (59%), Gaps = 1/240 (0%) Frame = +2 Query: 131 TILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFG 307 T+++ S IV +H+ Y + SG + +FDGDE F+VD+EKRETVWRL F Sbjct: 16 TMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYVDLEKRETVWRLPVFS 75 Query: 308 HFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFI 487 FA+F+ QGAL NIA K NLEI+I+RS S PV LG+PN LIC + Sbjct: 76 KFATFDPQGALRNIATTKHNLEIVIQRSNSTAATNKVPEVTVFSKSPVMLGQPNTLICHV 135 Query: 488 DKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWG 667 D PPV+N+TWLRNG VT GVSET FL + D+ F K +YL F+PS +DVYDC+VEHWG Sbjct: 136 DNIFPPVINITWLRNGHSVTEGVSETSFLIKSDYSFLKINYLTFLPSDDDVYDCKVEHWG 195 Query: 668 LDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 LD+PLLKHWE + P+ E TE VCA R G + +GPL Sbjct: 196 LDEPLLKHWEPDIPAPMSELTETVVCALGLTVGLVGIMVGTILIIQGLRSGGPSRHQGPL 255 >ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus] Length = 255 Score = 209 bits (531), Expect = 5e-54 Identities = 105/230 (45%), Positives = 132/230 (57%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV I Y S SG++ +FDGDE F+VD+EK+ET W+L F SF+ Q A Sbjct: 26 IVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYVDLEKKETAWQLPLFSRMLSFDPQLA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIA+ K +++ L K S S PV LG+PN LIC +D PPV+N+ Sbjct: 86 LRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSKSPVMLGQPNTLICHVDNIFPPVINI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWLRNG VT GVSET FL R D+ F K YL F+PS +D+YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFLPSDDDIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VC R G+ + +GPL Sbjct: 206 PEIPAPMSELTETVVCTLGLTMGLVGITVGTIFIIQGLRSGDPSRHQGPL 255 >ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus] Length = 253 Score = 207 bits (526), Expect = 2e-53 Identities = 99/197 (50%), Positives = 122/197 (61%), Gaps = 1/197 (0%) Frame = +2 Query: 161 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y + SG+F F+FDGDE+F+VD+ K+ETVWRL EF + FE Q A Sbjct: 24 IVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGKKETVWRLPEFSNITKFEVQSA 83 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NI + K NL+ILIK S V LG PN LIC +D PPV+N+ Sbjct: 84 LRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVVLGIPNTLICQVDNIFPPVINI 143 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TW NG V G++ET F P+ DH F KF YL F+P+ ED YDC+VEHWGL++PL+KHWE Sbjct: 144 TWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNEDFYDCRVEHWGLEEPLVKHWE 203 Query: 698 FEAQTPLPETTENTVCA 748 E TP E TE VCA Sbjct: 204 PEIPTPTSELTETVVCA 220 >ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus] Length = 268 Score = 201 bits (512), Expect = 8e-52 Identities = 96/179 (53%), Positives = 119/179 (66%), Gaps = 1/179 (0%) Frame = +2 Query: 161 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV E Y S SG++ +FDGDE+F+VD+ K+ETVWRL F FA F+ Q A Sbjct: 26 IVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYVDLGKKETVWRLPMFSQFAGFDPQAA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L+ IA K NL++L KRS S PV LG+PN LIC +D PPV+N+ Sbjct: 86 LSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSKSPVMLGQPNTLICHVDNIFPPVINI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHW 694 TWL+NG VT GVSET FLP++DH F K YL F+PS D+YDC+VEHWGLD+PLLKHW Sbjct: 146 TWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFLPSDNDIYDCKVEHWGLDEPLLKHW 204 >ref|NP_001012692.2| major histocompatibility complex, class II, DM alpha-chain, expressed [Bos taurus] Length = 260 Score = 68.2 bits (165), Expect = 1e-11 Identities = 51/200 (25%), Positives = 79/200 (39%), Gaps = 6/200 (3%) Frame = +2 Query: 164 VENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALA 343 ++NH + + + +D D++F D + V RL EF +A G + Sbjct: 39 LQNHTFLHTMYCQDWSPNVALSESYDEDQLFSFDFSQSIRVPRLPEFADWA--HQHGDTS 96 Query: 344 NIAVDKANLEILIKR-----SXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPV 508 +I DK +I+ + KP+E G+PN L+CFI PP Sbjct: 97 DIMFDKGFCRAMIEEIGPELEGQIPVSRGFPIVQVFTLKPLEFGKPNTLVCFISNLFPPT 156 Query: 509 VNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLK 688 + V W +PV G T + F+ F YL P+ D++ C V H + Sbjct: 157 LTVNWQHQSAPV-EGAGPTFVSAVDGLTFQAFSYLNVTPAPSDLFSCIVTHEIDGYTAIA 215 Query: 689 HWEFEAQTPLP-ETTENTVC 745 W Q LP + EN +C Sbjct: 216 FW--VPQNALPSDLLENVLC 233 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 60.1 bits (144), Expect = 4e-09 Identities = 28/86 (32%), Positives = 40/86 (46%) Frame = +2 Query: 455 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTE 634 L N+L+C + F P + V W RN T GV T + D F+ L P Sbjct: 141 LNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIRNGDWTFQILVMLEMTPQRG 200 Query: 635 DVYDCQVEHWGLDKPLLKHWEFEAQT 712 DVY C VEH L P++ W ++++ Sbjct: 201 DVYTCHVEHPSLQSPIMVEWRAQSES 226 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 59.3 bits (142), Expect = 6e-09 Identities = 27/86 (31%), Positives = 40/86 (46%) Frame = +2 Query: 455 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTE 634 L N+L+C + F P + V W +NG T G+ T + D F+ L P Sbjct: 141 LNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWTFQILVMLEMTPKRG 200 Query: 635 DVYDCQVEHWGLDKPLLKHWEFEAQT 712 DVY C VEH L P+ W ++++ Sbjct: 201 DVYTCHVEHPSLQSPISVEWRAQSES 226 Database: RefSeqBP Posted date: Aug 1, 2006 7:14 PM Number of letters in database: 16,112,626 Number of sequences in database: 33,508 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 Hits to DB: 44,857,245 Number of Sequences: 33508 Number of extensions: 1208680 Number of successful extensions: 4111 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 3548 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 0 Number of HSP's gapped (non-prelim): 4091 length of database: 16,112,626 effective HSP length: 104 effective length of database: 12,627,794 effective search space used: 3990382904 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)
Search to RefSeqCP
BLASTX 2.2.10 [Oct-19-2004] 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= 20060611C-005425 (1263 letters) Database: RefSeqCP 33,732 sequences; 19,266,565 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 372 e-103 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 224 1e-58 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 209 6e-54 Alignment gi|XP_538853.2| PREDICTED: similar to major histocompatibility ... 81 2e-15 Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 78 2e-14 Alignment gi|XP_861572.1| PREDICTED: similar to major histocompatibility ... 64 2e-10 Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 60 3e-09 Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 59 8e-09 Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 55 1e-07 Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 55 1e-07 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 372 bits (955), Expect = e-103 Identities = 183/254 (72%), Positives = 198/254 (77%), Gaps = 2/254 (0%) Frame = +2 Query: 92 MTILGVPVLGFVIT--ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 265 MTI GVPVLGF I ++ Q+SWA+ E HVIIQAEFYL+PD SGEFMFDFDGDEIFHVD Sbjct: 1 MTISGVPVLGFFIMAFLMGPQESWAVKEEHVIIQAEFYLTPDPSGEFMFDFDGDEIFHVD 60 Query: 266 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDK 445 MEK+ETVWRLEEFG FASFEAQGALANIAVDKANL+ +IKRS LS+ Sbjct: 61 MEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNTNVPPEVTVLSNT 120 Query: 446 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMP 625 PVELGEPNILICFIDKFSPPV+NVTWLRNG+PVT GVSET+FLPREDHLFRKFHYLPF+P Sbjct: 121 PVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPREDHLFRKFHYLPFLP 180 Query: 626 STEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXX 805 S EDVYDC+VEHWGLD+PLLKHWEFE TPLPETTEN VCA Sbjct: 181 SAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTENVVCALGLIVGLVGIITGTIFIIK 240 Query: 806 XXRKGNATERRGPL 847 RK A ERRGPL Sbjct: 241 GMRKVKAGERRGPL 254 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 224 bits (571), Expect = 1e-58 Identities = 117/255 (45%), Positives = 145/255 (56%), Gaps = 3/255 (1%) Frame = +2 Query: 92 MTILGVPVLGFVITILNLQKSWA--IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHV 262 M + V +LG +I + + S IV +HV Y S SG++ +FDGDE F+V Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60 Query: 263 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSD 442 D+EK+ETVWRL F F SF+ QGAL N+A+ K NL I+ KRS S Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 PV LG+PN LIC +D PPV+NVTWL+N VT GVSET F + DH F K YL F+ Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXX 802 PS ED+YDC+VEHWGLD+PLLKHWE E TP+ E TE VCA Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240 Query: 803 XXXRKGNATERRGPL 847 R G + +GPL Sbjct: 241 QGLRSGGTSRHQGPL 255 >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 = 209 bits (531), Expect = 6e-54 Identities = 94/192 (48%), Positives = 132/192 (68%), Gaps = 7/192 (3%) Frame = +2 Query: 194 FYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLE 373 FY S SG+F +FDG+++F V+++KR+ VWRL EFG+ A F+ Q LA+IAV KA+L+ Sbjct: 8 FYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIAVIKAHLD 67 Query: 374 ILIKRSXXXXXXXXXXXXXXLSDKP-------VELGEPNILICFIDKFSPPVVNVTWLRN 532 +L++RS L + VELG+PN+LIC +D PPV+N+TWLRN Sbjct: 68 VLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRN 127 Query: 533 GSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQT 712 G ++ GV++T F + DHLFRKF YL F+PS ED+YDC+VEHWGL++PLL+HWE + Sbjct: 128 GQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWEPQVPI 187 Query: 713 PLPETTENTVCA 748 P+P+T E +CA Sbjct: 188 PVPDTIETLICA 199 >ref|XP_538853.2| PREDICTED: similar to major histocompatibility complex, class II, DM alpha precursor isoform 1 [Canis familiaris] Length = 265 Score = 80.9 bits (198), Expect = 2e-15 Identities = 53/199 (26%), Positives = 88/199 (44%), Gaps = 5/199 (2%) Frame = +2 Query: 164 VENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALA 343 ++NH + + + S + +DGD++F + + V RL EF +A + G + Sbjct: 45 LQNHTFLHTMYCQNWSPSIGLLEAYDGDQLFSFNFSQNTRVPRLPEFADWA--QKSGDMP 102 Query: 344 NIAVDKANLEILI-----KRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPV 508 I+ DKA + +I K + KP+E G+PN+L+CFI PP Sbjct: 103 TISFDKAFCQAMIEEIGPKLEGQIPVSRGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPT 162 Query: 509 VNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLK 688 + V W + PV G+ T + F+ F YL F P+ D++ C V H + + Sbjct: 163 LTVNWWHHLDPV-EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIA 221 Query: 689 HWEFEAQTPLPETTENTVC 745 +W P + EN +C Sbjct: 222 YWVPHDALP-SDLLENVLC 239 >ref|XP_532104.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO alpha chain precursor (MHC class II antigen DOA) (MHC DZ alpha) (MHC DN-alpha) isoform 10 [Canis familiaris] Length = 142 Score = 78.2 bits (191), Expect = 2e-14 Identities = 38/89 (42%), Positives = 63/89 (70%), Gaps = 1/89 (1%) Frame = +2 Query: 128 ITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 304 +++L+ ++ AI +H+ FY S SG+F +FDG+++F V+++KR+ VWRL EF Sbjct: 1 MSLLSPHETGAIEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEF 60 Query: 305 GHFASFEAQGALANIAVDKANLEILIKRS 391 G+ A F+ Q LA+IAV KA+L++L++RS Sbjct: 61 GNLAHFDPQNGLASIAVIKAHLDVLVERS 89 >ref|XP_861572.1| PREDICTED: similar to major histocompatibility complex, class II, DM alpha precursor isoform 2 [Canis familiaris] Length = 170 Score = 64.3 bits (155), Expect = 2e-10 Identities = 33/101 (32%), Positives = 50/101 (49%) Frame = +2 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 KP+E G+PN+L+CFI PP + V W + PV G+ T + F+ F YL F Sbjct: 46 KPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV-EGIGPTFVSAVDGFSFQAFSYLNFT 104 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVC 745 P+ D++ C V H + + +W P + EN +C Sbjct: 105 PAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDLLENVLC 144 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 60.5 bits (145), Expect = 3e-09 Identities = 30/90 (33%), Positives = 44/90 (48%) Frame = +2 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 K L N+L+C ++ F P + V WLRNG GV T + D F+ L + Sbjct: 134 KTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQILVMLEIV 193 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHWEFEAQT 712 P + +VY CQVEH L P+ W ++ + Sbjct: 194 PQSGEVYTCQVEHPSLTSPVTVEWRAQSDS 223 >ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris] Length = 269 Score = 59.3 bits (142), Expect = 8e-09 Identities = 28/86 (32%), Positives = 39/86 (45%) Frame = +2 Query: 455 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTE 634 L N+L+C + F P + V W RN T GV T + D F+ L P Sbjct: 141 LNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQILVMLEMTPQRG 200 Query: 635 DVYDCQVEHWGLDKPLLKHWEFEAQT 712 DVY C VEH L P+ W ++++ Sbjct: 201 DVYTCHVEHASLQSPITVQWRAQSES 226 >ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2 [Canis familiaris] Length = 125 Score = 55.5 bits (132), Expect = 1e-07 Identities = 26/87 (29%), Positives = 45/87 (51%) Frame = +2 Query: 437 SDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLP 616 S P E G+PN L C++ F PP + + L+NG + ++ F +D F + Sbjct: 38 SRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SKDWTFYLLVHTE 95 Query: 617 FMPSTEDVYDCQVEHWGLDKPLLKHWE 697 F P+ +D + C+V+H L +P + W+ Sbjct: 96 FTPNEQDEFSCRVKHVTLSEPQIVKWD 122 >ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3 [Canis familiaris] Length = 125 Score = 55.5 bits (132), Expect = 1e-07 Identities = 26/87 (29%), Positives = 45/87 (51%) Frame = +2 Query: 437 SDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLP 616 S P E G+PN L C++ F PP + + L+NG + ++ F +D F + Sbjct: 38 SRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SKDWTFYLLVHTE 95 Query: 617 FMPSTEDVYDCQVEHWGLDKPLLKHWE 697 F P+ +D + C+V+H L +P + W+ Sbjct: 96 FTPNEQDEFSCRVKHVTLSEPQIVKWD 122 Database: RefSeqCP Posted date: Aug 1, 2006 9:25 PM Number of letters in database: 19,266,565 Number of sequences in database: 33,732 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 Hits to DB: 52,668,588 Number of Sequences: 33732 Number of extensions: 1417105 Number of successful extensions: 4756 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4024 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 0 Number of HSP's gapped (non-prelim): 4739 length of database: 19,266,565 effective HSP length: 106 effective length of database: 15,690,973 effective search space used: 4926965522 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)
Search to RefSeqHP
BLASTX 2.2.10 [Oct-19-2004] 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= 20060611C-005425 (1263 letters) Database: RefSeqHP 39,411 sequences; 17,774,539 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_061984.2| major histocompatibility complex, class II, DR ... 372 e-103 Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 241 1e-63 Alignment gi|NP_002110.1| major histocompatibility complex, class II, DO ... 231 1e-60 Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 214 1e-55 Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 213 2e-55 Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 213 2e-55 Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 213 2e-55 Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 213 2e-55 Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 209 3e-54 Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 202 4e-52 >ref|NP_061984.2| major histocompatibility complex, class II, DR alpha precursor [Homo sapiens] Length = 254 Score = 372 bits (955), Expect = e-103 Identities = 182/254 (71%), Positives = 199/254 (78%), Gaps = 2/254 (0%) Frame = +2 Query: 92 MTILGVPVLGFVI--TILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 265 M I GVPVLGF I +++ Q+SWAI E HVIIQAEFYL+PD+SGEFMFDFDGDEIFHVD Sbjct: 1 MAISGVPVLGFFIIAVLMSAQESWAIKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVD 60 Query: 266 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDK 445 M K+ETVWRLEEFG FASFEAQGALANIAVDKANLEI+ KRS L++ Sbjct: 61 MAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTPITNVPPEVTVLTNS 120 Query: 446 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMP 625 PVEL EPN+LICFIDKF+PPVVNVTWLRNG PVT GVSETVFLPREDHLFRKFHYLPF+P Sbjct: 121 PVELREPNVLICFIDKFTPPVVNVTWLRNGKPVTTGVSETVFLPREDHLFRKFHYLPFLP 180 Query: 626 STEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXX 805 STEDVYDC+VEHWGLD+PLLKHWEF+A +PLPETTEN VCA Sbjct: 181 STEDVYDCRVEHWGLDEPLLKHWEFDAPSPLPETTENVVCALGLTVGLVGIIIGTIFIIK 240 Query: 806 XXRKGNATERRGPL 847 RK NA ERRGPL Sbjct: 241 GLRKSNAAERRGPL 254 >ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor [Homo sapiens] Length = 260 Score = 241 bits (615), Expect = 1e-63 Identities = 116/205 (56%), Positives = 144/205 (70%) Frame = +2 Query: 134 ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 313 +L+L+ + AI +HV A F + +GEFMF+FD DE+F+VD++K+ETVW LEEFG Sbjct: 23 LLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFEFDEDEMFYVDLDKKETVWHLEEFGQA 82 Query: 314 ASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDK 493 SFEAQG LANIA+ NL LI+RS +PVELG+PN LIC IDK Sbjct: 83 FSFEAQGGLANIAILNNNLNTLIQRSNHTQATNDPPEVTVFPKEPVELGQPNTLICHIDK 142 Query: 494 FSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLD 673 F PPV+NVTWL NG VT GV+E++FLPR D+ F KFHYL F+PS ED YDC+VEHWGLD Sbjct: 143 FFPPVLNVTWLCNGELVTEGVAESLFLPRTDYSFHKFHYLTFVPSAEDFYDCRVEHWGLD 202 Query: 674 KPLLKHWEFEAQTPLPETTENTVCA 748 +PLLKHWE + +PETTE +CA Sbjct: 203 QPLLKHWEAQEPIQMPETTETVLCA 227 >ref|NP_002110.1| major histocompatibility complex, class II, DO alpha precursor [Homo sapiens] Length = 250 Score = 231 bits (588), Expect = 1e-60 Identities = 113/215 (52%), Positives = 144/215 (66%), Gaps = 3/215 (1%) Frame = +2 Query: 113 VLGF--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 283 VLGF ++T+L+ Q++ A +H+ FY S SG+F +FD +++F VD++K E Sbjct: 8 VLGFHTLMTLLSPQEAGATKADHMGSYGPAFYQSYGASGQFTHEFDEEQLFSVDLKKSEA 67 Query: 284 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGE 463 VWRL EFG FA F+ QG LA IA KA+L+IL++RS L VELG+ Sbjct: 68 VWRLPEFGDFARFDPQGGLAGIAAIKAHLDILVERSNRSRAINVPPRVTVLPKSRVELGQ 127 Query: 464 PNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVY 643 PNILIC +D PPV+N+TWLRNG VT GV++T F + DHLFRKFHYLPF+PS EDVY Sbjct: 128 PNILICIVDNIFPPVINITWLRNGQTVTEGVAQTSFYSQPDHLFRKFHYLPFVPSAEDVY 187 Query: 644 DCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCA 748 DCQVEHWGLD PLL+HWE + P P+ E VCA Sbjct: 188 DCQVEHWGLDAPLLRHWELQVPIPPPDAMETLVCA 222 >ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor [Homo sapiens] Length = 255 Score = 214 bits (546), Expect = 1e-55 Identities = 107/230 (46%), Positives = 131/230 (56%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVI-IQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y SG++ +FDGDE F+VD+E++ET WR EF F F+ QGA Sbjct: 26 IVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L N+AV K NL I+IKR S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDQPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLMGIVVGTVFIIQGLRSVGASRHQGPL 255 >ref|XP_949974.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 10 [Homo sapiens] Length = 255 Score = 213 bits (543), Expect = 2e-55 Identities = 109/230 (47%), Positives = 133/230 (57%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255 >ref|XP_949973.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 9 [Homo sapiens] Length = 255 Score = 213 bits (543), Expect = 2e-55 Identities = 109/230 (47%), Positives = 133/230 (57%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255 >ref|XP_949971.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 8 [Homo sapiens] Length = 255 Score = 213 bits (543), Expect = 2e-55 Identities = 109/230 (47%), Positives = 133/230 (57%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255 >ref|XP_945969.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 1 [Homo sapiens] Length = 255 Score = 213 bits (543), Expect = 2e-55 Identities = 109/230 (47%), Positives = 133/230 (57%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIAV K NL I+IKRS S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSKSPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSDDEIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 206 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVLIIRGLRSVGASRHQGPL 255 >ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo sapiens] Length = 255 Score = 209 bits (533), Expect = 3e-54 Identities = 101/197 (51%), Positives = 126/197 (63%), Gaps = 1/197 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV FY S SG++ +FDGDE F+VD+E +ETVW+L F F SF+ Q A Sbjct: 26 IVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSA 85 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L N+AV K LE ++++S S PV LG+PN LIC +D PPVVN+ Sbjct: 86 LRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSKFPVTLGQPNTLICLVDNIFPPVVNI 145 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL F+PS +++YDC+VEHWGLD+PLLKHWE Sbjct: 146 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFLPSADEIYDCKVEHWGLDEPLLKHWE 205 Query: 698 FEAQTPLPETTENTVCA 748 E P+ E TE VCA Sbjct: 206 PEIPAPMSELTETLVCA 222 >ref|XP_941306.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 10 [Homo sapiens] Length = 254 Score = 202 bits (515), Expect = 4e-52 Identities = 109/230 (47%), Positives = 128/230 (55%), Gaps = 1/230 (0%) Frame = +2 Query: 161 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 337 IV +HV Y S SG++ +FDGDE F+VD+ ++ETVW L F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQFR-FDPQFA 84 Query: 338 LANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILICFIDKFSPPVVNV 517 L NIAV K NL LIKRS S PV LG+PNILIC +D PPVVN+ Sbjct: 85 LTNIAVLKHNLNSLIKRSNSTAATNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNI 144 Query: 518 TWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWE 697 TWL NG VT GVSET FL + DH F K YL +PS E+ YDC+VEHWGLDKPLLKHWE Sbjct: 145 TWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204 Query: 698 FEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERRGPL 847 E P+ E TE VCA R A+ +GPL Sbjct: 205 PEIPAPMSELTETVVCALGLSVGLVGIVVGTVFIIRGLRSVGASRHQGPL 254 Database: RefSeqHP Posted date: Aug 2, 2006 12:57 AM Number of letters in database: 17,774,539 Number of sequences in database: 39,411 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 Hits to DB: 50,703,795 Number of Sequences: 39411 Number of extensions: 1404342 Number of successful extensions: 4741 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4054 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 0 Number of HSP's gapped (non-prelim): 4713 length of database: 17,774,539 effective HSP length: 105 effective length of database: 13,636,384 effective search space used: 4295460960 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)
Search to RefSeqMP
BLASTX 2.2.10 [Oct-19-2004] 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= 20060611C-005425 (1263 letters) Database: RefSeqMP 45,328 sequences; 21,768,885 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 330 3e-90 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 220 2e-57 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 216 5e-56 Alignment gi|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus ... 81 3e-15 Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 60 4e-09 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 58 2e-08 Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 58 2e-08 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 58 2e-08 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 57 4e-08 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 57 5e-08 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 330 bits (845), Expect = 3e-90 Identities = 158/239 (66%), Positives = 177/239 (74%) Frame = +2 Query: 122 FVITILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEE 301 F+ +++ QKSWAI E H IIQAEFYL PDK GEFMFDFDGDEIFHVD+EK ET+WRLEE Sbjct: 13 FIAVLMSSQKSWAIKEEHTIIQAEFYLLPDKRGEFMFDFDGDEIFHVDIEKSETIWRLEE 72 Query: 302 FGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGEPNILIC 481 F FASFEAQGALANIAVDKANL+++ +RS LS PV LGEPNILIC Sbjct: 73 FAKFASFEAQGALANIAVDKANLDVMKERSNNTPDANVAPEVTVLSRSPVNLGEPNILIC 132 Query: 482 FIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEH 661 FIDKFSPPVVNVTW RNG PVT GVSETVFLPR+DHLFRKFHYL F+PST+D YDC+V+H Sbjct: 133 FIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPRDDHLFRKFHYLTFLPSTDDFYDCEVDH 192 Query: 662 WGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXXXXXXRKGNATERR 838 WGL++PL KHWEFE +T LPETTEN VCA +K N ERR Sbjct: 193 WGLEEPLRKHWEFEEKTLLPETTENVVCALGLFVGLVGIVVGIILIMKGIKKRNVVERR 251 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 220 bits (561), Expect = 2e-57 Identities = 107/214 (50%), Positives = 143/214 (66%), Gaps = 1/214 (0%) Frame = +2 Query: 107 VPVLGFVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 283 VPVL V++ L+ + AI +H+ FY S D SG+F +FDG++IF VD++ E Sbjct: 8 VPVLLTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEV 67 Query: 284 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLSDKPVELGE 463 VWRL EFG FA + Q L +I++ KA+L+IL++RS L VELG+ Sbjct: 68 VWRLPEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGK 127 Query: 464 PNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTEDVY 643 PN+LIC +D PPV+NVTWLRN P+T+GV++T F + +H FRKFHYL F+PS EDVY Sbjct: 128 PNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVY 187 Query: 644 DCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVC 745 DC+VEHWGLD PLL+HWE + TP P+TTE +C Sbjct: 188 DCKVEHWGLDTPLLQHWEPQVLTPPPDTTETLIC 221 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 216 bits (549), Expect = 5e-56 Identities = 110/256 (42%), Positives = 142/256 (55%), Gaps = 1/256 (0%) Frame = +2 Query: 83 KEKMTILGVPVLGFVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFH 259 + + ILGV L ++++ + I +HV Y SP G++ F+FDGDE+F+ Sbjct: 3 RSRALILGVLALTTMLSLCGGEDD--IEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60 Query: 260 VDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSXXXXXXXXXXXXXXLS 439 VD++K+ETVW L EFG ASF+ QG L NIAV K NL +L KRS Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120 Query: 440 DKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPF 619 PV LG+PN LICF+D PPV+N+TWLRN V GV ET F D+ F K YL F Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180 Query: 620 MPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTENTVCAXXXXXXXXXXXXXXXXX 799 +PS +D+YDC+VEHWGL++P+LKHWE E P+ E TE VCA Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240 Query: 800 XXXXRKGNATERRGPL 847 R G + GPL Sbjct: 241 IQGLRSGGTSRHPGPL 256 >ref|NP_034516.2| histocompatibility 2, class II, locus DMa [Mus musculus] Length = 261 Score = 80.9 bits (198), Expect = 3e-15 Identities = 65/231 (28%), Positives = 96/231 (41%), Gaps = 17/231 (7%) Frame = +2 Query: 104 GVPVLGFVITILNLQKSWAIVE-----------NHVIIQAEFYLSPDKSGEFMFDFDGDE 250 G +L + + L SWA++E NH F + +D DE Sbjct: 8 GAVLLRLLRLLWLLPHSWAVLEASTPVLWDDPQNHTFRHTLFCQDGIPNIGLSETYDEDE 67 Query: 251 IFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILI-----KRSXXXXXXXX 415 +F D + V +L +F +A + QG + IA DK+ E+L+ K Sbjct: 68 LFSFDFSQNTRVPQLPDFAEWA--QGQGDASAIAFDKSFCEMLMREVSPKLEGQIPVSRG 125 Query: 416 XXXXXXLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLF 595 + KP+E G+PN L+CFI PP + V W + +PV G S T + F Sbjct: 126 LPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAVDGLTF 184 Query: 596 RKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLP-ETTENTVC 745 + F YL F P D+Y C V H + +W Q LP + EN +C Sbjct: 185 QAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYW--VPQNALPSDLLENALC 233 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 60.5 bits (145), Expect = 4e-09 Identities = 29/86 (33%), Positives = 40/86 (46%) Frame = +2 Query: 455 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTE 634 L N L+C + F P + V W RNG T GVS T + D F+ L P Sbjct: 137 LNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEMTPRRG 196 Query: 635 DVYDCQVEHWGLDKPLLKHWEFEAQT 712 +VY C VEH L P+ W ++++ Sbjct: 197 EVYTCHVEHPSLKSPITVEWRAQSES 222 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 57.8 bits (138), Expect = 2e-08 Identities = 29/84 (34%), Positives = 41/84 (48%), Gaps = 1/84 (1%) Frame = +2 Query: 446 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPV-TRGVSETVFLPREDHLFRKFHYLPFM 622 P EP +L C++ F P V +TW++NG V + E P D ++ YL Sbjct: 124 PFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALT 183 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHW 694 PS DVY C V+H G +P+ W Sbjct: 184 PSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 57.8 bits (138), Expect = 2e-08 Identities = 28/88 (31%), Positives = 42/88 (47%) Frame = +2 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 K L N+L+C + F P + V W RNG G+ T + D F+ L + Sbjct: 132 KTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLETV 191 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHWEFEA 706 P + +VY CQVEH L P+ W+ ++ Sbjct: 192 PQSGEVYTCQVEHPSLTDPVTVEWKAQS 219 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 57.8 bits (138), Expect = 2e-08 Identities = 29/84 (34%), Positives = 41/84 (48%), Gaps = 1/84 (1%) Frame = +2 Query: 446 PVELGEPNILICFIDKFSPPVVNVTWLRNGSPV-TRGVSETVFLPREDHLFRKFHYLPFM 622 P EP +L C++ F P V +TW++NG V + E P D ++ YL Sbjct: 124 PFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTYQTVSYLALT 183 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHW 694 PS DVY C V+H G +P+ W Sbjct: 184 PSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 57.0 bits (136), Expect = 4e-08 Identities = 28/85 (32%), Positives = 43/85 (50%) Frame = +2 Query: 455 LGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFMPSTE 634 L + N+L+C + F P ++V W RNG GV T + D F+ L +P Sbjct: 135 LQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTTVMLEMIPELG 194 Query: 635 DVYDCQVEHWGLDKPLLKHWEFEAQ 709 D+Y C VEH GL +P+ W +++ Sbjct: 195 DIYSCLVEHPGLLRPVSVAWMAQSE 219 >ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus] Length = 287 Score = 56.6 bits (135), Expect = 5e-08 Identities = 28/84 (33%), Positives = 38/84 (45%) Frame = +2 Query: 443 KPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGVSETVFLPREDHLFRKFHYLPFM 622 K L N+L+C + F P + V W RNG GV T + D ++ L + Sbjct: 133 KTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQTLVMLEMV 192 Query: 623 PSTEDVYDCQVEHWGLDKPLLKHW 694 P +VY CQVEH L P+ W Sbjct: 193 PRGGEVYTCQVEHPSLTSPVTVEW 216 Database: RefSeqMP Posted date: Aug 2, 2006 12:58 AM Number of letters in database: 21,768,885 Number of sequences in database: 45,328 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 Hits to DB: 60,315,915 Number of Sequences: 45328 Number of extensions: 1622428 Number of successful extensions: 5368 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 4496 Number of HSP's successfully gapped in prelim test: 0 Number of HSP's that attempted gapping in prelim test: 0 Number of HSP's gapped (non-prelim): 5356 length of database: 21,768,885 effective HSP length: 106 effective length of database: 16,964,117 effective search space used: 5326732738 frameshift window, decay const: 40, 0.1 T: 12 A: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.7 bits)