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= 20060611S-062998 (1156 letters) Database: RefSeqSP 1040 sequences; 434,620 total letters Searching...done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_999143.1| beta 2-microglobulin [Sus scrofa] 209 8e-56 Alignment gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] 49 3e-07 Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] 47 7e-07 >ref|NP_999143.1| beta 2-microglobulin [Sus scrofa] Length = 118 Score = 209 bits (533), Expect = 8e-56 Identities = 96/96 (100%), Positives = 96/96 (100%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFY 274 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFY Sbjct: 23 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFY 82 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRDH 382 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRDH Sbjct: 83 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRDH 118 >ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa] Length = 401 Score = 48.5 bits (114), Expect = 3e-07 Identities = 28/94 (29%), Positives = 45/94 (47%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGE--KMNAEQSDLSFSKDWSF 271 PPK V +RHP+ + K L C+ GF+P +I + + G+ + E + S D +F Sbjct: 205 PPKTHV-TRHPSSDNKVT-LRCWALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTF 262 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 P Y+C V+H L +P ++WD Sbjct: 263 RKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRWD 296 >ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa] Length = 260 Score = 47.4 bits (111), Expect = 7e-07 Identities = 26/80 (32%), Positives = 39/80 (48%), Gaps = 1/80 (1%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNA-EQSDLSFSKDWSFYL 277 P +V++ P E GKPN L C+VS PP + + + + + +S + D SF Sbjct: 127 PIAEVFTLKPLEFGKPNTLVCFVSNLFPPALTVTWEHHSAPVEGIGPTFVSATDDLSFQA 186 Query: 278 LVHTEFTPNAVDQYSCRVKH 337 + FTP D +SC V H Sbjct: 187 FSYLNFTPTPSDLFSCVVTH 206 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: 962,196 Number of Sequences: 1040 Number of extensions: 22096 Number of successful extensions: 66 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 56 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): 63 length of database: 434,620 effective HSP length: 78 effective length of database: 353,500 effective search space used: 108171000 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= 20060611S-062998 (1156 letters) Database: RefSeqBP 33,508 sequences; 16,112,626 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_776318.1| beta-2-microglobulin [Bos taurus] 183 3e-46 Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 72 8e-13 Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 70 3e-12 Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 68 1e-11 Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 63 4e-10 Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 57 2e-08 Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 56 5e-08 Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 56 6e-08 Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 54 2e-07 Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 54 2e-07 >ref|NP_776318.1| beta-2-microglobulin [Bos taurus] Length = 118 Score = 183 bits (464), Expect = 3e-46 Identities = 81/95 (85%), Positives = 89/95 (93%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFY 274 RPPK+QVYSRHP E+GKPNYLNCYV GFHPPQIEIDLLKNGEK+ +EQSDLSFSKDWSFY Sbjct: 23 RPPKIQVYSRHPPEDGKPNYLNCYVYGFHPPQIEIDLLKNGEKIKSEQSDLSFSKDWSFY 82 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRD 379 LL H EFTPN+ DQYSCRVKHVTL++P+IVKWDRD Sbjct: 83 LLSHAEFTPNSKDQYSCRVKHVTLEQPRIVKWDRD 117 >ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus] Length = 255 Score = 72.0 bits (175), Expect = 8e-13 Identities = 36/95 (37%), Positives = 53/95 (55%), Gaps = 2/95 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C+V PP I I L+NG + S+ SF D+SF Sbjct: 113 PEVTVFSKSPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIKSDYSFL 172 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRD 379 + + F P+ D Y C+V+H LD+P + W+ D Sbjct: 173 KINYLTFLPSDDDVYDCKVEHWGLDEPLLKHWEPD 207 >ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus] Length = 255 Score = 70.1 bits (170), Expect = 3e-12 Identities = 35/93 (37%), Positives = 52/93 (55%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C+V PP I I L+NG + S+ SF D+SF Sbjct: 113 PEVTVFSKSPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFL 172 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + F P+ D Y C+V+H LD+P + W+ Sbjct: 173 KIKYLAFLPSDDDIYDCKVEHWGLDEPLLKHWE 205 >ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus] Length = 268 Score = 68.2 bits (165), Expect = 1e-11 Identities = 36/92 (39%), Positives = 50/92 (54%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C+V PP I I LKNG + S+ SF D SF Sbjct: 113 PEVTVFSKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFL 172 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 + + F P+ D Y C+V+H LD+P + W Sbjct: 173 KIGYLTFLPSDNDIYDCKVEHWGLDEPLLKHW 204 >ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus] Length = 253 Score = 63.2 bits (152), Expect = 4e-10 Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSF 271 PP+V + P E G+PN L C++ F PP I + L+NG+ + S F D F Sbjct: 110 PPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFLPRNDHLF 169 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P D Y C+V+H+ L++P + W+ Sbjct: 170 RKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWE 203 >ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus] Length = 261 Score = 57.4 bits (137), Expect = 2e-08 Identities = 29/76 (38%), Positives = 44/76 (57%), Gaps = 2/76 (2%) Frame = +2 Query: 149 NYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFYLLVHTEFTPNAVDQYS 322 N L C V+ F+P QI++ +NG++ A + L + DW+F +LV E TP D Y+ Sbjct: 145 NLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIRNGDWTFQILVMLEMTPKRGDVYT 204 Query: 323 CRVKHVTLDKPKIVKW 370 C V+H +L P V+W Sbjct: 205 CHVEHPSLQSPISVEW 220 >ref|NP_001029840.2| MHC class II antigen [Bos taurus] Length = 261 Score = 56.2 bits (134), Expect = 5e-08 Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 2/76 (2%) Frame = +2 Query: 149 NYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFYLLVHTEFTPNAVDQYS 322 N L C V+ F+P QI++ +N + A + L + DW+F +LV E TP D Y+ Sbjct: 145 NLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIRNGDWTFQILVMLEMTPQRGDVYT 204 Query: 323 CRVKHVTLDKPKIVKW 370 C V+H +L P +V+W Sbjct: 205 CHVEHPSLQSPIMVEW 220 >ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E beta chain precursor [Bos taurus] Length = 269 Score = 55.8 bits (133), Expect = 6e-08 Identities = 30/92 (32%), Positives = 46/92 (50%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 274 P V VY N L C V+GF+P IE+ +NG++ A + L + DW+F Sbjct: 90 PTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEEEAGVVSTGLIPNGDWTFQ 149 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 ++V E P + Y+C V+H + P V+W Sbjct: 150 IMVMLEIVPQGGEVYACHVEHPSRTSPVTVEW 181 >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 = 54.3 bits (129), Expect = 2e-07 Identities = 31/93 (33%), Positives = 42/93 (45%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKM--NAEQSDLSFSKDWSFY 274 P+V V + + G+PN L C V PP I I L+NG + QS D F Sbjct: 113 PRVAVLPKSHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFR 172 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P D Y C+V+H LD+P W+ Sbjct: 173 KFHYLTFVPLVDDFYDCKVEHWGLDQPLFQHWE 205 >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 = 53.9 bits (128), Expect = 2e-07 Identities = 31/93 (33%), Positives = 42/93 (45%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKM--NAEQSDLSFSKDWSFY 274 P+V V + + G+PN L C V PP I I L+NG + QS D F Sbjct: 114 PQVAVLPKSHVQLGEPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFR 173 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P D Y C+V+H LD+P W+ Sbjct: 174 KFHYLTFVPLVDDFYDCKVEHWGLDQPLFQHWE 206 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: 35,270,173 Number of Sequences: 33508 Number of extensions: 818560 Number of successful extensions: 2204 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 2033 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): 2160 length of database: 16,112,626 effective HSP length: 103 effective length of database: 12,661,302 effective search space used: 3557825862 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= 20060611S-062998 (1156 letters) Database: RefSeqHP 39,411 sequences; 17,774,539 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_004039.1| beta-2-microglobulin precursor [Homo sapiens] 161 1e-39 Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 73 4e-13 Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941255.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941303.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941302.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941300.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 Alignment gi|XP_941299.1| PREDICTED: similar to HLA class II histocompati... 70 3e-12 >ref|NP_004039.1| beta-2-microglobulin precursor [Homo sapiens] Length = 119 Score = 161 bits (407), Expect = 1e-39 Identities = 73/96 (76%), Positives = 82/96 (85%), Gaps = 1/96 (1%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMN-AEQSDLSFSKDWSF 271 R PK+QVYSRHPAENGK N+LNCYVSGFHP IE+DLLKNGE++ E SDLSFSKDWSF Sbjct: 23 RTPKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSF 82 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRD 379 YLL +TEFTP D+Y+CRV HVTL +PKIVKWDRD Sbjct: 83 YLLYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRD 118 >ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor [Homo sapiens] Length = 260 Score = 73.2 bits (178), Expect = 4e-13 Identities = 35/94 (37%), Positives = 54/94 (57%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSF 271 PP+V V+ + P E G+PN L C++ F PP + + L NGE + ++ F D+SF Sbjct: 117 PPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGELVTEGVAESLFLPRTDYSF 176 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + F P+A D Y CRV+H LD+P + W+ Sbjct: 177 HKFHYLTFVPSAEDFYDCRVEHWGLDQPLLKHWE 210 >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 = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 112 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 171 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 172 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204 >ref|XP_941305.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 9 [Homo sapiens] Length = 254 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 112 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 171 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 172 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204 >ref|XP_941304.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 8 [Homo sapiens] Length = 254 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 112 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 171 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 172 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204 >ref|XP_941255.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 1 [Homo sapiens] Length = 254 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 112 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 171 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 172 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 204 >ref|XP_941303.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 7 [Homo sapiens] Length = 172 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 30 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 89 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 90 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 122 >ref|XP_941302.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 6 [Homo sapiens] Length = 172 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 30 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 89 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 90 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 122 >ref|XP_941300.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 4 [Homo sapiens] Length = 172 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 30 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 89 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 90 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 122 >ref|XP_941299.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA) (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 3 [Homo sapiens] Length = 172 Score = 70.5 bits (171), Expect = 3e-12 Identities = 34/93 (36%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP + I L NG + S+ SF D SF+ Sbjct: 30 PEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFF 89 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + P+A + Y C+V+H LDKP + W+ Sbjct: 90 KISYLTLLPSAEESYDCKVEHWGLDKPLLKHWE 122 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: 39,522,381 Number of Sequences: 39411 Number of extensions: 931181 Number of successful extensions: 2823 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 2412 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): 2699 length of database: 17,774,539 effective HSP length: 104 effective length of database: 13,675,795 effective search space used: 3829222600 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= 20060611S-062998 (1156 letters) Database: RefSeqCP 33,732 sequences; 19,266,565 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 182 7e-46 Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 182 7e-46 Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 70 4e-12 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 67 3e-11 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 64 3e-10 Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 64 3e-10 Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 62 8e-10 Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 62 1e-09 Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 61 2e-09 Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 60 4e-09 >ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2 [Canis familiaris] Length = 125 Score = 182 bits (461), Expect = 7e-46 Identities = 79/95 (83%), Positives = 91/95 (95%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFYL 277 PPK+QVYSRHPAENGKPN+LNCYVSGFHPP+IEIDLLKNG++M AEQ+DLSFSKDW+FYL Sbjct: 31 PPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSFSKDWTFYL 90 Query: 278 LVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRDH 382 LVHTEFTPN D++SCRVKHVTL +P+IVKWDRD+ Sbjct: 91 LVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWDRDN 125 >ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3 [Canis familiaris] Length = 125 Score = 182 bits (461), Expect = 7e-46 Identities = 79/95 (83%), Positives = 91/95 (95%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSKDWSFYL 277 PPK+QVYSRHPAENGKPN+LNCYVSGFHPP+IEIDLLKNG++M AEQ+DLSFSKDW+FYL Sbjct: 31 PPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSFSKDWTFYL 90 Query: 278 LVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRDH 382 LVHTEFTPN D++SCRVKHVTL +P+IVKWDRD+ Sbjct: 91 LVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWDRDN 125 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 70.1 bits (170), Expect = 4e-12 Identities = 35/94 (37%), Positives = 51/94 (54%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSF 271 PP+V V S P E G+PN L C++ F PP I + L+NG + S+ F +D F Sbjct: 111 PPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPREDHLF 170 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P+A D Y C+V+H LD+P + W+ Sbjct: 171 RKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWE 204 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 67.0 bits (162), Expect = 3e-11 Identities = 35/93 (37%), Positives = 50/93 (53%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V+S+ P G+PN L C V PP I + LKN + S+ SF D SF Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + + F P+A D Y C+V+H LD+P + W+ Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWE 205 >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 = 63.9 bits (154), Expect = 3e-10 Identities = 33/94 (35%), Positives = 49/94 (52%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSF 271 PP+V V + E G+PN L C V PP I I L+NG+ ++ + SF D F Sbjct: 89 PPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPDHLF 148 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P+A D Y C+V+H L++P + W+ Sbjct: 149 RKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWE 182 >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 = 63.9 bits (154), Expect = 3e-10 Identities = 32/95 (33%), Positives = 49/95 (51%), Gaps = 3/95 (3%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSK---DW 265 RPP VQV P + L CYV GF+P + I KNG+ + + S L+ ++ DW Sbjct: 113 RPPTVQVAKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDW 172 Query: 266 SFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 ++ + H TP+ D Y+C V+H+ +P W Sbjct: 173 TYQTVSHLATTPSYEDTYTCVVEHIGAPEPVCEDW 207 >ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris] Length = 266 Score = 62.4 bits (150), Expect = 8e-10 Identities = 33/92 (35%), Positives = 50/92 (54%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 274 P V VY N L C V+GF+P IE+ L+NG++ A + L + DW+F Sbjct: 126 PTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQ 185 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 +LV E P + + Y+C+V+H +L P V+W Sbjct: 186 ILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEW 217 >ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO beta chain precursor (MHC class II antigen DOB) isoform 2 [Canis familiaris] Length = 228 Score = 61.6 bits (148), Expect = 1e-09 Identities = 33/95 (34%), Positives = 48/95 (50%), Gaps = 2/95 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNG--EKMNAEQSDLSFSKDWSFY 274 P+V VY N L C V+GF+P I+I +NG E++ + L + DW+F Sbjct: 123 PEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQ 182 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRD 379 +V E TP D Y+C V H +L P V+W + Sbjct: 183 TMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWSEN 217 >ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO beta chain precursor (MHC class II antigen DOB) isoform 1 [Canis familiaris] Length = 270 Score = 61.2 bits (147), Expect = 2e-09 Identities = 33/92 (35%), Positives = 47/92 (51%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNG--EKMNAEQSDLSFSKDWSFY 274 P+V VY N L C V+GF+P I+I +NG E++ + L + DW+F Sbjct: 123 PEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQ 182 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 +V E TP D Y+C V H +L P V+W Sbjct: 183 TMVMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214 >ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris] Length = 269 Score = 60.1 bits (144), Expect = 4e-09 Identities = 32/93 (34%), Positives = 49/93 (52%), Gaps = 2/93 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSF 271 P K +V + H N L C V+ F+P QI++ +N ++ A + L + DW+F Sbjct: 135 PSKTEVLNHH-------NLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTF 187 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 +LV E TP D Y+C V+H +L P V+W Sbjct: 188 QILVMLEMTPQRGDVYTCHVEHASLQSPITVQW 220 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: 41,527,286 Number of Sequences: 33732 Number of extensions: 957704 Number of successful extensions: 2715 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 2496 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): 2687 length of database: 19,266,565 effective HSP length: 105 effective length of database: 15,724,705 effective search space used: 4387192695 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= 20060611S-062998 (1156 letters) Database: RefSeqMP 45,328 sequences; 21,768,885 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_033865.2| beta-2-microglobulin [Mus musculus] 147 2e-35 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 63 5e-10 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 60 3e-09 Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 60 6e-09 Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 58 2e-08 Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 58 2e-08 Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 57 3e-08 Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 57 3e-08 Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 54 4e-07 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 54 4e-07 >ref|NP_033865.2| beta-2-microglobulin [Mus musculus] Length = 119 Score = 147 bits (371), Expect = 2e-35 Identities = 64/96 (66%), Positives = 77/96 (80%), Gaps = 1/96 (1%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKM-NAEQSDLSFSKDWSF 271 + P++QVYSRHP ENGKPN LNCYV+ FHPP IEI +LKNG+K+ E SD+SFSKDWSF Sbjct: 23 KTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSF 82 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWDRD 379 Y+L HTEFTP D Y+CRVKH ++ +PK V WDRD Sbjct: 83 YILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRD 118 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 63.2 bits (152), Expect = 5e-10 Identities = 31/93 (33%), Positives = 52/93 (55%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+ V+ + P G+PN L C+V PP I I L+N + + + SF ++D+SF+ Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 L + F P+ D Y C+V+H L++P + W+ Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWE 206 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 60.5 bits (145), Expect = 3e-09 Identities = 32/94 (34%), Positives = 46/94 (48%), Gaps = 2/94 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSF 271 PP+V V + E GKPN L C V PP I + L+N + + + SF + F Sbjct: 112 PPRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRF 171 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P+A D Y C+V+H LD P + W+ Sbjct: 172 RKFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHWE 205 >ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus] Length = 287 Score = 59.7 bits (143), Expect = 6e-09 Identities = 32/92 (34%), Positives = 46/92 (50%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGE--KMNAEQSDLSFSKDWSFY 274 PKV VY N L C V F+P IE+ +NGE K + L ++DW++ Sbjct: 125 PKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQ 184 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 LV E P + Y+C+V+H +L P V+W Sbjct: 185 TLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEW 216 >ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus] Length = 264 Score = 58.2 bits (139), Expect = 2e-08 Identities = 33/92 (35%), Positives = 46/92 (50%), Gaps = 2/92 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNG--EKMNAEQSDLSFSKDWSFY 274 P V VY N L C VS F+P IE+ +NG EK + L + DW+F Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 LV E P + + Y+C+V+H +L P V+W Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEW 215 >ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus] Length = 271 Score = 58.2 bits (139), Expect = 2e-08 Identities = 33/93 (35%), Positives = 45/93 (48%), Gaps = 2/93 (2%) Frame = +2 Query: 98 PPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNG--EKMNAEQSDLSFSKDWSF 271 PP+V VY + N L C V+GF+P I + +NG E+ + L + DW+F Sbjct: 122 PPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTF 181 Query: 272 YLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 V E P D YSC V+H L +P V W Sbjct: 182 QTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214 >ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus] Length = 265 Score = 57.4 bits (137), Expect = 3e-08 Identities = 28/76 (36%), Positives = 43/76 (56%), Gaps = 2/76 (2%) Frame = +2 Query: 149 NYLNCYVSGFHPPQIEIDLLKNG--EKMNAEQSDLSFSKDWSFYLLVHTEFTPNAVDQYS 322 N L C V+ F+P QI++ +NG E + + L + DW+F +LV E TP + Y+ Sbjct: 141 NTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVMLEMTPRRGEVYT 200 Query: 323 CRVKHVTLDKPKIVKW 370 C V+H +L P V+W Sbjct: 201 CHVEHPSLKSPITVEW 216 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 57.4 bits (137), Expect = 3e-08 Identities = 30/93 (32%), Positives = 44/93 (47%), Gaps = 2/93 (2%) Frame = +2 Query: 101 PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SKDWSFY 274 P+V V SR P G+PN L C++ F PP + + +NG + S+ F D F Sbjct: 112 PEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLPRDDHLFR 171 Query: 275 LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 373 + F P+ D Y C V H L++P W+ Sbjct: 172 KFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWE 204 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 53.5 bits (127), Expect = 4e-07 Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 3/95 (3%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSK---DW 265 R P V+V P +P L CYV GF+P + I +KNG+ + + + ++ DW Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172 Query: 266 SFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 ++ + + TP+ D Y+C V+H +P W Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 53.5 bits (127), Expect = 4e-07 Identities = 28/95 (29%), Positives = 47/95 (49%), Gaps = 3/95 (3%) Frame = +2 Query: 95 RPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSFSK---DW 265 R P V+V P +P L CYV GF+P + I +KNG+ + + + ++ DW Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172 Query: 266 SFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 370 ++ + + TP+ D Y+C V+H +P W Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207 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: 47,546,797 Number of Sequences: 45328 Number of extensions: 1095923 Number of successful extensions: 3101 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 2813 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): 3008 length of database: 21,768,885 effective HSP length: 105 effective length of database: 17,009,445 effective search space used: 4745635155 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)