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-024606 (744 letters) Database: RefSeqSP 1040 sequences; 434,620 total letters Searching...done ***** No hits found ****** 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: 817,033 Number of Sequences: 1040 Number of extensions: 23568 Number of successful extensions: 75 Number of sequences better than 1.0e-05: 0 Number of HSP's better than 0.0 without gapping: 70 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): 75 length of database: 434,620 effective HSP length: 74 effective length of database: 357,660 effective search space used: 61875180 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-024606 (744 letters) Database: RefSeqBP 33,508 sequences; 16,112,626 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_001035571.1| major histocompatibility complex, class II, ... 117 7e-27 >ref|NP_001035571.1| major histocompatibility complex, class II, DM beta-chain, expressed [Bos taurus] Length = 262 Score = 117 bits (294), Expect = 7e-27 Identities = 63/122 (51%), Positives = 77/122 (63%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ESTC+LDD+G P++F Y +SFNKDLLTCWD + M+P FG L+ LA + S +L+ Sbjct: 26 ESTCVLDDDGDPKDFSYCISFNKDLLTCWDPLQASMIPREFGVLNGLARYLSQFLNNNSY 85 Query: 497 LLQRLSNGLQNCATHTQTFRQIIDPQETARVPCQWAIPLPFNLKESVELGILYVGASNPA 676 L+QRLSNGLQNCA HTQ F + T Q A PFN +ESV L YV PA Sbjct: 86 LIQRLSNGLQNCAAHTQPFWSSL-THRTRPPTVQVAKTTPFNTRESVMLA-CYVWGFYPA 143 Query: 677 DV 682 DV Sbjct: 144 DV 145 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: 30,672,282 Number of Sequences: 33508 Number of extensions: 900182 Number of successful extensions: 2888 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 2601 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): 2885 length of database: 16,112,626 effective HSP length: 99 effective length of database: 12,795,334 effective search space used: 1893709432 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-024606 (744 letters) Database: RefSeqHP 39,411 sequences; 17,774,539 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_002109.1| major histocompatibility complex, class II, DM ... 123 1e-28 >ref|NP_002109.1| major histocompatibility complex, class II, DM beta precursor [Homo sapiens] Length = 263 Score = 123 bits (309), Expect = 1e-28 Identities = 65/122 (53%), Positives = 79/122 (64%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ESTCLLDD GTP++F Y +SFNKDLLTCWD +E +M PC FG L++LA S +L+ + Sbjct: 26 ESTCLLDDAGTPKDFTYCISFNKDLLTCWDPEENKMAPCEFGVLNSLANVLSQHLNQKDT 85 Query: 497 LLQRLSNGLQNCATHTQTFRQIIDPQETARVPCQWAIPLPFNLKESVELGILYVGASNPA 676 L+QRL NGLQNCATHTQ F + T Q A PFN +E V L YV PA Sbjct: 86 LMQRLRNGLQNCATHTQPFWGSL-TNRTRPPSVQVAKTTPFNTREPVMLA-CYVWGFYPA 143 Query: 677 DV 682 +V Sbjct: 144 EV 145 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: 34,932,348 Number of Sequences: 39411 Number of extensions: 1063537 Number of successful extensions: 3980 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 3351 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): 3973 length of database: 17,774,539 effective HSP length: 99 effective length of database: 13,872,850 effective search space used: 2053181800 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-024606 (744 letters) Database: RefSeqCP 33,732 sequences; 19,266,565 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 127 1e-29 >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 = 127 bits (318), Expect = 1e-29 Identities = 70/122 (57%), Positives = 81/122 (66%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ES+CLLDD+GTP++F Y VSFNKDLLTCWD E +MVP FG L+ LA + S YL+ E Sbjct: 26 ESSCLLDDDGTPKDFTYCVSFNKDLLTCWDPDEAKMVPYEFGTLNVLANYLSDYLNQQEY 85 Query: 497 LLQRLSNGLQNCATHTQTFRQIIDPQETARVPCQWAIPLPFNLKESVELGILYVGASNPA 676 L QRLSNGLQ+CATHTQ+F + T Q A PFN KESV L YV PA Sbjct: 86 LHQRLSNGLQDCATHTQSFWGSL-THRTRPPTVQVAKSTPFNTKESVMLA-CYVWGFYPA 143 Query: 677 DV 682 DV Sbjct: 144 DV 145 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: 35,958,191 Number of Sequences: 33732 Number of extensions: 1050642 Number of successful extensions: 3490 Number of sequences better than 1.0e-05: 1 Number of HSP's better than 0.0 without gapping: 3105 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): 3487 length of database: 19,266,565 effective HSP length: 100 effective length of database: 15,893,365 effective search space used: 2336324655 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-024606 (744 letters) Database: RefSeqMP 45,328 sequences; 21,768,885 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 114 8e-26 Alignment gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ... 111 9e-25 Alignment gi|XP_920798.1| PREDICTED: similar to Class II histocompatibili... 103 2e-22 >ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus] Length = 261 Score = 114 bits (286), Expect = 8e-26 Identities = 62/122 (50%), Positives = 74/122 (60%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ESTC+L+D GTPQ+F Y VSFNKDLL CWD ++VPC FG L LA S L+ E Sbjct: 26 ESTCVLNDAGTPQDFTYCVSFNKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQES 85 Query: 497 LLQRLSNGLQNCATHTQTFRQIIDPQETARVPCQWAIPLPFNLKESVELGILYVGASNPA 676 L+ RL NGLQ+CATHTQ F ++ T + A PFN +E V L YV PA Sbjct: 86 LIHRLQNGLQDCATHTQPFWDVL-THRTRAPSVRVAQTTPFNTREPVMLA-CYVWGFYPA 143 Query: 677 DV 682 DV Sbjct: 144 DV 145 >ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus] Length = 261 Score = 111 bits (277), Expect = 9e-25 Identities = 63/122 (51%), Positives = 73/122 (59%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ESTC+LDD GTPQ+F Y VSFNKDLL CWD ++VPC FG L A FS L+ E Sbjct: 26 ESTCVLDDAGTPQDFTYCVSFNKDLLACWDPDVGKIVPCEFGVLYPWAENFSRILNKEES 85 Query: 497 LLQRLSNGLQNCATHTQTFRQIIDPQETARVPCQWAIPLPFNLKESVELGILYVGASNPA 676 LLQRL NGL +CA+HTQ F + T + A PFN +E V L YV PA Sbjct: 86 LLQRLQNGLLDCASHTQPFWNAL-THRTRAPSVRVAQTTPFNTREPVMLA-CYVWGFYPA 143 Query: 677 DV 682 DV Sbjct: 144 DV 145 >ref|XP_920798.1| PREDICTED: similar to Class II histocompatibility antigen, M beta 1 chain precursor (H2-M beta 1 chain) [Mus musculus] Length = 167 Score = 103 bits (257), Expect = 2e-22 Identities = 50/79 (63%), Positives = 57/79 (72%) Frame = +2 Query: 317 ESTCLLDDEGTPQEFQYWVSFNKDLLTCWDAQETRMVPCVFGALDALATFFSVYLDPPEK 496 ESTC+LDD GTPQ+F Y VSFNKDLL CWD ++VPC FG L LA FS L+ E Sbjct: 26 ESTCVLDDAGTPQDFTYCVSFNKDLLACWDPIVGKIVPCEFGVLYPLAENFSRILNKEES 85 Query: 497 LLQRLSNGLQNCATHTQTF 553 LLQRL NGL +CA+HTQ F Sbjct: 86 LLQRLQNGLPDCASHTQPF 104 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: 41,009,691 Number of Sequences: 45328 Number of extensions: 1189706 Number of successful extensions: 4098 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 3554 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): 4085 length of database: 21,768,885 effective HSP length: 101 effective length of database: 17,190,757 effective search space used: 2509850522 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)