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-062545 (559 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: 560,622 Number of Sequences: 1040 Number of extensions: 14124 Number of successful extensions: 44 Number of sequences better than 1.0e-05: 0 Number of HSP's better than 0.0 without gapping: 43 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): 44 length of database: 434,620 effective HSP length: 71 effective length of database: 360,780 effective search space used: 41128920 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-062545 (559 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, ... 129 2e-30 Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 70 1e-12 Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 70 1e-12 Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 55 4e-08 Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 52 2e-07 Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 50 8e-07 Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 48 4e-06 >ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus] Length = 253 Score = 129 bits (323), Expect = 2e-30 Identities = 80/157 (50%), Positives = 91/157 (57%), Gaps = 2/157 (1%) Frame = +3 Query: 93 MTILGVPVLGLVITIL-NLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDM 269 M I VP+LGL IT+L LQ+SWAI ENHVIIQAEFYL P++S EFMFDFDGDEIFHVDM Sbjct: 1 MAITRVPILGLFITVLIGLQESWAIKENHVIIQAEFYLKPEESAEFMFDFDGDEIFHVDM 60 Query: 270 EKRETVWRLEEFGHFGQXLRAQGCTFGAPQKTPNLKGPLGWTKAKP-LEIP*IKRLQPTP 446 K+ETVWRL EFGHF AQG NL + + P +P L P Sbjct: 61 GKKETVWRLPEFGHFA-SFEAQGALANMAVMKANLDIMIKRSNNTPNTNVPPEVTLLPNK 119 Query: 447 PERPXVTSRK*LCSQTSXVELGEPKHPHLFFIDKFLP 557 P VELGEP + + FIDKF P Sbjct: 120 P-----------------VELGEP-NTLICFIDKFSP 138 >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 = 69.7 bits (169), Expect = 1e-12 Identities = 37/77 (48%), Positives = 54/77 (70%), Gaps = 3/77 (3%) Frame = +3 Query: 93 MTILGVPVLGL--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 263 M + G VLGL ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 264 DMEKRETVWRLEEFGHF 314 D++KRE VWRL EFG+F Sbjct: 61 DLKKREAVWRLPEFGNF 77 >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 = 69.7 bits (169), Expect = 1e-12 Identities = 37/77 (48%), Positives = 54/77 (70%), Gaps = 3/77 (3%) Frame = +3 Query: 93 MTILGVPVLGL--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHV 263 M + G VLGL ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 264 DMEKRETVWRLEEFGHF 314 D++KRE VWRL EFG+F Sbjct: 61 DLKKREAVWRLPEFGNF 77 >ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus] Length = 253 Score = 54.7 bits (130), Expect = 4e-08 Identities = 26/51 (50%), Positives = 35/51 (68%), Gaps = 1/51 (1%) Frame = +3 Query: 162 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGH 311 IV +HV Y + SG+F F+FDGDE+F+VD+ K+ETVWRL EF + Sbjct: 24 IVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGKKETVWRLPEFSN 74 >ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus] Length = 268 Score = 52.4 bits (124), Expect = 2e-07 Identities = 26/52 (50%), Positives = 34/52 (65%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV E Y S SG++ +FDGDE+F+VD+ K+ETVWRL F F Sbjct: 26 IVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYVDLGKKETVWRLPMFSQF 77 >ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus] Length = 255 Score = 50.4 bits (119), Expect = 8e-07 Identities = 27/62 (43%), Positives = 37/62 (59%), Gaps = 1/62 (1%) Frame = +3 Query: 132 TILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFG 308 T+++ S IV +H+ Y + SG + +FDGDE F+VD+EKRETVWRL F Sbjct: 16 TMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYVDLEKRETVWRLPVFS 75 Query: 309 HF 314 F Sbjct: 76 KF 77 >ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus] Length = 255 Score = 48.1 bits (113), Expect = 4e-06 Identities = 24/49 (48%), Positives = 32/49 (65%), Gaps = 1/49 (2%) Frame = +3 Query: 162 IVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 305 IV +HV I Y S SG++ +FDGDE F+VD+EK+ET W+L F Sbjct: 26 IVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYVDLEKKETAWQLPLF 74 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: 20,867,582 Number of Sequences: 33508 Number of extensions: 539550 Number of successful extensions: 1348 Number of sequences better than 1.0e-05: 7 Number of HSP's better than 0.0 without gapping: 1279 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): 1347 length of database: 16,112,626 effective HSP length: 95 effective length of database: 12,929,366 effective search space used: 1163642940 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-062545 (559 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 ... 127 4e-30 Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 65 3e-11 Alignment gi|NP_002110.1| major histocompatibility complex, class II, DO ... 53 2e-07 Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 51 7e-07 Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 50 2e-06 Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 49 3e-06 Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 49 3e-06 Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 49 3e-06 Alignment gi|XP_949969.1| PREDICTED: similar to HLA class II histocompati... 49 3e-06 Alignment gi|XP_949965.1| PREDICTED: similar to HLA class II histocompati... 49 3e-06 >ref|NP_061984.2| major histocompatibility complex, class II, DR alpha precursor [Homo sapiens] Length = 254 Score = 127 bits (320), Expect = 4e-30 Identities = 78/157 (49%), Positives = 94/157 (59%), Gaps = 2/157 (1%) Frame = +3 Query: 93 MTILGVPVLG--LVITILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 266 M I GVPVLG ++ +++ Q+SWAI E HVIIQAEFYL+PD+SGEFMFDFDGDEIFHVD Sbjct: 1 MAISGVPVLGFFIIAVLMSAQESWAIKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVD 60 Query: 267 MEKRETVWRLEEFGHFGQXLRAQGCTFGAPQKTPNLKGPLGWTKAKPLEIP*IKRLQPTP 446 M K+ETVWRLEEFG F AQG NL+ + P + P Sbjct: 61 MAKKETVWRLEEFGRFA-SFEAQGALANIAVDKANLEIMTKRSNYTP--------ITNVP 111 Query: 447 PERPXVTSRK*LCSQTSXVELGEPKHPHLFFIDKFLP 557 PE +T+ S VEL EP + + FIDKF P Sbjct: 112 PEVTVLTN--------SPVELREP-NVLICFIDKFTP 139 >ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor [Homo sapiens] Length = 260 Score = 65.5 bits (158), Expect = 3e-11 Identities = 30/58 (51%), Positives = 43/58 (74%) Frame = +3 Query: 135 ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFG 308 +L+L+ + AI +HV A F + +GEFMF+FD DE+F+VD++K+ETVW LEEFG Sbjct: 23 LLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFEFDEDEMFYVDLDKKETVWHLEEFG 80 >ref|NP_002110.1| major histocompatibility complex, class II, DO alpha precursor [Homo sapiens] Length = 250 Score = 52.8 bits (125), Expect = 2e-07 Identities = 29/72 (40%), Positives = 45/72 (62%), Gaps = 3/72 (4%) Frame = +3 Query: 114 VLGL--VITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 284 VLG ++T+L+ Q++ A +H+ FY S SG+F +FD +++F VD++K E Sbjct: 8 VLGFHTLMTLLSPQEAGATKADHMGSYGPAFYQSYGASGQFTHEFDEEQLFSVDLKKSEA 67 Query: 285 VWRLEEFGHFGQ 320 VWRL EFG F + Sbjct: 68 VWRLPEFGDFAR 79 >ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo sapiens] Length = 255 Score = 50.8 bits (120), Expect = 7e-07 Identities = 25/52 (48%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV FY S SG++ +FDGDE F+VD+E +ETVW+L F F Sbjct: 26 IVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKF 77 >ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor [Homo sapiens] Length = 255 Score = 49.7 bits (117), Expect = 2e-06 Identities = 24/53 (45%), Positives = 32/53 (60%), Gaps = 1/53 (1%) Frame = +3 Query: 162 IVENHVI-IQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFG 317 IV +HV Y SG++ +FDGDE F+VD+E++ET WR EF FG Sbjct: 26 IVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFG 78 >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 = 48.5 bits (114), Expect = 3e-06 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRF 77 >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 = 48.5 bits (114), Expect = 3e-06 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRF 77 >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 = 48.5 bits (114), Expect = 3e-06 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRF 77 >ref|XP_949969.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 7 [Homo sapiens] Length = 208 Score = 48.5 bits (114), Expect = 3e-06 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRF 77 >ref|XP_949965.1| PREDICTED: similar to HLA class II histocompatibility antigen, DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 6 [Homo sapiens] Length = 161 Score = 48.5 bits (114), Expect = 3e-06 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 1/52 (1%) Frame = +3 Query: 162 IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 314 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRF 77 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: 23,572,141 Number of Sequences: 39411 Number of extensions: 628739 Number of successful extensions: 1862 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 1554 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): 1860 length of database: 17,774,539 effective HSP length: 96 effective length of database: 13,991,083 effective search space used: 1245206387 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-062545 (559 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] 129 2e-30 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 54 1e-07 Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 52 5e-07 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 51 8e-07 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 129 bits (324), Expect = 2e-30 Identities = 85/159 (53%), Positives = 94/159 (59%), Gaps = 4/159 (2%) Frame = +3 Query: 93 MTILGVPVLGLVIT--ILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVD 266 MTI GVPVLG I ++ Q+SWA+ E HVIIQAEFYL+PD SGEFMFDFDGDEIFHVD Sbjct: 1 MTISGVPVLGFFIMAFLMGPQESWAVKEEHVIIQAEFYLTPDPSGEFMFDFDGDEIFHVD 60 Query: 267 MEKRETVWRLEEFGHFGQXLRAQGCTFGAPQKTPNLKGPLGWTKAKPLEIP*IKRLQPTP 446 MEK+ETVWRLEEFG F AQG NL IKR TP Sbjct: 61 MEKKETVWRLEEFGRFA-SFEAQGALANIAVDKANLDTM-------------IKRSNHTP 106 Query: 447 PER--PXVTSRK*LCSQTSXVELGEPKHPHLFFIDKFLP 557 P VT + S T VELGEP + + FIDKF P Sbjct: 107 NTNVPPEVT----VLSNTP-VELGEP-NILICFIDKFSP 139 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 53.5 bits (127), Expect = 1e-07 Identities = 32/77 (41%), Positives = 44/77 (57%), Gaps = 3/77 (3%) Frame = +3 Query: 93 MTILGVPVLGLVITILNLQKSWA--IVENHVIIQA-EFYLSPDKSGEFMFDFDGDEIFHV 263 M + V +LG +I + + S IV +HV Y S SG++ +FDGDE F+V Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60 Query: 264 DMEKRETVWRLEEFGHF 314 D+EK+ETVWRL F F Sbjct: 61 DLEKKETVWRLPVFSTF 77 >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 = 51.6 bits (122), Expect = 5e-07 Identities = 24/62 (38%), Positives = 42/62 (67%), Gaps = 1/62 (1%) Frame = +3 Query: 129 ITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 305 +++L+ ++ AI +H+ FY S SG+F +FDG+++F V+++KR+ VWRL EF Sbjct: 1 MSLLSPHETGAIEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEF 60 Query: 306 GH 311 G+ Sbjct: 61 GN 62 >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 = 50.8 bits (120), Expect = 8e-07 Identities = 20/39 (51%), Positives = 30/39 (76%) Frame = +3 Query: 195 FYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGH 311 FY S SG+F +FDG+++F V+++KR+ VWRL EFG+ Sbjct: 8 FYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGN 46 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: 24,551,494 Number of Sequences: 33732 Number of extensions: 637685 Number of successful extensions: 1492 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 1393 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): 1491 length of database: 19,266,565 effective HSP length: 97 effective length of database: 15,994,561 effective search space used: 1407521368 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-062545 (559 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 ... 107 1e-23 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 59 3e-09 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 57 9e-09 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 107 bits (266), Expect = 1e-23 Identities = 69/146 (47%), Positives = 78/146 (53%), Gaps = 2/146 (1%) Frame = +3 Query: 126 VITILNLQKSWAIVENHVIIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 305 + +++ QKSWAI E H IIQAEFYL PDK GEFMFDFDGDEIFHVD+EK ET+WRLEEF Sbjct: 14 IAVLMSSQKSWAIKEEHTIIQAEFYLLPDKRGEFMFDFDGDEIFHVDIEKSETIWRLEEF 73 Query: 306 GHFGQXLRAQGCTFGAPQKTPNLKGPLGWTKAKPLEIP*IKRLQPTPPER--PXVTSRK* 479 F AQG NL +R TP P VT Sbjct: 74 AKFA-SFEAQGALANIAVDKANLDVMK-------------ERSNNTPDANVAPEVT---- 115 Query: 480 LCSQTSXVELGEPKHPHLFFIDKFLP 557 S V LGEP + + FIDKF P Sbjct: 116 -VLSRSPVNLGEP-NILICFIDKFSP 139 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 58.9 bits (141), Expect = 3e-09 Identities = 32/70 (45%), Positives = 44/70 (62%), Gaps = 1/70 (1%) Frame = +3 Query: 108 VPVLGLVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFHVDMEKRET 284 VPVL V++ L+ + AI +H+ FY S D SG+F +FDG++IF VD++ E Sbjct: 8 VPVLLTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEV 67 Query: 285 VWRLEEFGHF 314 VWRL EFG F Sbjct: 68 VWRLPEFGDF 77 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 57.4 bits (137), Expect = 9e-09 Identities = 30/76 (39%), Positives = 46/76 (60%), Gaps = 1/76 (1%) Frame = +3 Query: 84 KEKMTILGVPVLGLVITILNLQKSWAIVENHV-IIQAEFYLSPDKSGEFMFDFDGDEIFH 260 + + ILGV L ++++ + I +HV Y SP G++ F+FDGDE+F+ Sbjct: 3 RSRALILGVLALTTMLSLCGGEDD--IEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60 Query: 261 VDMEKRETVWRLEEFG 308 VD++K+ETVW L EFG Sbjct: 61 VDLDKKETVWMLPEFG 76 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: 27,868,970 Number of Sequences: 45328 Number of extensions: 715059 Number of successful extensions: 1793 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 1695 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): 1791 length of database: 21,768,885 effective HSP length: 97 effective length of database: 17,372,069 effective search space used: 1528742072 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)