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-029585 (1010 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: 867,712 Number of Sequences: 1040 Number of extensions: 21770 Number of successful extensions: 62 Number of sequences better than 1.0e-05: 0 Number of HSP's better than 0.0 without gapping: 52 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): 62 length of database: 434,620 effective HSP length: 77 effective length of database: 354,540 effective search space used: 91825860 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-029585 (1010 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, ... 160 1e-39 Alignment gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati... 95 1e-19 Alignment gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati... 95 1e-19 Alignment gi|NP_001013619.2| histocompatibility complex, class II, DQ alp... 84 2e-16 Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 84 2e-16 Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 81 1e-15 Alignment gi|NP_001012693.1| major histocompatibility complex, class II, ... 70 3e-12 >ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus] Length = 253 Score = 160 bits (405), Expect = 1e-39 Identities = 80/105 (76%), Positives = 89/105 (84%), Gaps = 1/105 (0%) Frame = +2 Query: 77 MTILGVPVLGFVITIL-NLQKSWAIVENHVIIQAEFYPSPDKSGEFMFDFDGDEIFHVDM 253 M I VP+LG IT+L LQ+SWAI ENHVIIQAEFY P++S EFMFDFDGDEIFHVDM Sbjct: 1 MAITRVPILGLFITVLIGLQESWAIKENHVIIQAEFYLKPEESAEFMFDFDGDEIFHVDM 60 Query: 254 EKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSNPPP 388 K+ETVWRL EFGHFASFEAQGALAN+AV KANL+I+IKRSN P Sbjct: 61 GKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSNNTP 105 >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 = 94.7 bits (234), Expect = 1e-19 Identities = 51/104 (49%), Positives = 73/104 (70%), Gaps = 3/104 (2%) Frame = +2 Query: 77 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHV 247 M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 248 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSN 379 D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRSN Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSN 104 >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 = 94.7 bits (234), Expect = 1e-19 Identities = 51/104 (49%), Positives = 73/104 (70%), Gaps = 3/104 (2%) Frame = +2 Query: 77 MTILGVPVLGF--VITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHV 247 M + G VLG ++T+L+LQ+ AI +H+ FY S D +G+F +DFDG+++F V Sbjct: 1 MVLRGRLVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSV 60 Query: 248 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSN 379 D++KRE VWRL EFG+FA F+ Q L +IA+ KA+LE L+KRSN Sbjct: 61 DLKKREAVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSN 104 >ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus] Length = 255 Score = 84.0 bits (206), Expect = 2e-16 Identities = 45/89 (50%), Positives = 59/89 (66%), Gaps = 1/89 (1%) Frame = +2 Query: 116 TILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFG 292 T+++ S IV +H+ Y + SG + +FDGDE F+VD+EKRETVWRL F Sbjct: 16 TMMSPSGSEDIVADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYVDLEKRETVWRLPVFS 75 Query: 293 HFASFEAQGALANIAVDKANLEILIKRSN 379 FA+F+ QGAL NIA K NLEI+I+RSN Sbjct: 76 KFATFDPQGALRNIATTKHNLEIVIQRSN 104 >ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus] Length = 253 Score = 83.6 bits (205), Expect = 2e-16 Identities = 42/82 (51%), Positives = 54/82 (65%), Gaps = 1/82 (1%) Frame = +2 Query: 146 IVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y + SG+F F+FDGDE+F+VD+ K+ETVWRL EF + FE Q A Sbjct: 24 IVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGKKETVWRLPEFSNITKFEVQSA 83 Query: 323 LANIAVDKANLEILIKRSNPPP 388 L NI + K NL+ILIK S+ P Sbjct: 84 LRNIVMSKRNLDILIKNSSFTP 105 >ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 1 [Bos taurus] Length = 268 Score = 81.3 bits (199), Expect = 1e-15 Identities = 42/82 (51%), Positives = 54/82 (65%), Gaps = 1/82 (1%) Frame = +2 Query: 146 IVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV E Y S SG++ +FDGDE+F+VD+ K+ETVWRL F FA F+ Q A Sbjct: 26 IVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYVDLGKKETVWRLPMFSQFAGFDPQAA 85 Query: 323 LANIAVDKANLEILIKRSNPPP 388 L+ IA K NL++L KRSN P Sbjct: 86 LSEIATAKHNLDVLTKRSNFTP 107 >ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha [Bos taurus] Length = 255 Score = 69.7 bits (169), Expect = 3e-12 Identities = 37/79 (46%), Positives = 50/79 (63%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV I Y S SG++ +FDGDE F+VD+EK+ET W+L F SF+ Q A Sbjct: 26 IVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYVDLEKKETAWQLPLFSRMLSFDPQLA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIA+ K +++ L K SN Sbjct: 86 LRNIAIMKLHVDFLTKFSN 104 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: 32,088,987 Number of Sequences: 33508 Number of extensions: 818930 Number of successful extensions: 2406 Number of sequences better than 1.0e-05: 7 Number of HSP's better than 0.0 without gapping: 2216 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): 2403 length of database: 16,112,626 effective HSP length: 102 effective length of database: 12,694,810 effective search space used: 2970585540 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-029585 (1010 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 ... 166 4e-41 Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 96 5e-20 Alignment gi|NP_002110.1| major histocompatibility complex, class II, DO ... 85 1e-16 Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 77 3e-14 Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 Alignment gi|XP_949969.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 Alignment gi|XP_949965.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 76 4e-14 >ref|NP_061984.2| major histocompatibility complex, class II, DR alpha precursor [Homo sapiens] Length = 254 Score = 166 bits (419), Expect = 4e-41 Identities = 83/106 (78%), Positives = 91/106 (85%), Gaps = 2/106 (1%) Frame = +2 Query: 77 MTILGVPVLGFVI--TILNLQKSWAIVENHVIIQAEFYPSPDKSGEFMFDFDGDEIFHVD 250 M I GVPVLGF I +++ Q+SWAI E HVIIQAEFY +PD+SGEFMFDFDGDEIFHVD Sbjct: 1 MAISGVPVLGFFIIAVLMSAQESWAIKEEHVIIQAEFYLNPDQSGEFMFDFDGDEIFHVD 60 Query: 251 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSNPPP 388 M K+ETVWRLEEFG FASFEAQGALANIAVDKANLEI+ KRSN P Sbjct: 61 MAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNYTP 106 >ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor [Homo sapiens] Length = 260 Score = 95.9 bits (237), Expect = 5e-20 Identities = 48/87 (55%), Positives = 63/87 (72%) Frame = +2 Query: 119 ILNLQKSWAIVENHVIIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHF 298 +L+L+ + AI +HV A F + +GEFMF+FD DE+F+VD++K+ETVW LEEFG Sbjct: 23 LLSLRGAGAIKADHVSTYAAFVQTHRPTGEFMFEFDEDEMFYVDLDKKETVWHLEEFGQA 82 Query: 299 ASFEAQGALANIAVDKANLEILIKRSN 379 SFEAQG LANIA+ NL LI+RSN Sbjct: 83 FSFEAQGGLANIAILNNNLNTLIQRSN 109 >ref|NP_002110.1| major histocompatibility complex, class II, DO alpha precursor [Homo sapiens] Length = 250 Score = 84.7 bits (208), Expect = 1e-16 Identities = 46/97 (47%), Positives = 66/97 (68%), Gaps = 3/97 (3%) Frame = +2 Query: 98 VLGF--VITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRET 268 VLGF ++T+L+ Q++ A +H+ FY S SG+F +FD +++F VD++K E Sbjct: 8 VLGFHTLMTLLSPQEAGATKADHMGSYGPAFYQSYGASGQFTHEFDEEQLFSVDLKKSEA 67 Query: 269 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSN 379 VWRL EFG FA F+ QG LA IA KA+L+IL++RSN Sbjct: 68 VWRLPEFGDFARFDPQGGLAGIAAIKAHLDILVERSN 104 >ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor [Homo sapiens] Length = 255 Score = 76.6 bits (187), Expect = 3e-14 Identities = 39/79 (49%), Positives = 50/79 (63%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVI-IQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y SG++ +FDGDE F+VD+E++ET WR EF F F+ QGA Sbjct: 26 IVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L N+AV K NL I+IKR N Sbjct: 86 LRNMAVAKHNLNIMIKRYN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 >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 = 76.3 bits (186), Expect = 4e-14 Identities = 41/79 (51%), Positives = 52/79 (65%), Gaps = 1/79 (1%) Frame = +2 Query: 146 IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGA 322 IV +HV Y S SG++ +FDGDE F+VD+E++ETVW+L F F F+ Q A Sbjct: 26 IVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFA 85 Query: 323 LANIAVDKANLEILIKRSN 379 L NIAV K NL I+IKRSN Sbjct: 86 LTNIAVLKHNLNIVIKRSN 104 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: 36,139,592 Number of Sequences: 39411 Number of extensions: 939048 Number of successful extensions: 2825 Number of sequences better than 1.0e-05: 10 Number of HSP's better than 0.0 without gapping: 2557 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): 2807 length of database: 17,774,539 effective HSP length: 103 effective length of database: 13,715,206 effective search space used: 3195642998 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-029585 (1010 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 ... 147 2e-35 Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 91 2e-18 Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 80 3e-15 >ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus] Length = 255 Score = 147 bits (370), Expect = 2e-35 Identities = 69/94 (73%), Positives = 79/94 (84%) Frame = +2 Query: 107 FVITILNLQKSWAIVENHVIIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEE 286 F+ +++ QKSWAI E H IIQAEFY PDK GEFMFDFDGDEIFHVD+EK ET+WRLEE Sbjct: 13 FIAVLMSSQKSWAIKEEHTIIQAEFYLLPDKRGEFMFDFDGDEIFHVDIEKSETIWRLEE 72 Query: 287 FGHFASFEAQGALANIAVDKANLEILIKRSNPPP 388 F FASFEAQGALANIAVDKANL+++ +RSN P Sbjct: 73 FAKFASFEAQGALANIAVDKANLDVMKERSNNTP 106 >ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus] Length = 256 Score = 90.5 bits (223), Expect = 2e-18 Identities = 49/108 (45%), Positives = 67/108 (62%), Gaps = 1/108 (0%) Frame = +2 Query: 68 KEKMTILGVPVLGFVITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFH 244 + + ILGV L ++++ + I +HV Y SP G++ F+FDGDE+F+ Sbjct: 3 RSRALILGVLALTTMLSLCGGEDD--IEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60 Query: 245 VDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSNPPP 388 VD++K+ETVW L EFG ASF+ QG L NIAV K NL +L KRSN P Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTP 108 >ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus] Length = 250 Score = 80.5 bits (197), Expect = 3e-15 Identities = 44/97 (45%), Positives = 64/97 (65%), Gaps = 1/97 (1%) Frame = +2 Query: 92 VPVLGFVITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRET 268 VPVL V++ L+ + AI +H+ FY S D SG+F +FDG++IF VD++ E Sbjct: 8 VPVLLTVMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEV 67 Query: 269 VWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSN 379 VWRL EFG FA + Q L +I++ KA+L+IL++RSN Sbjct: 68 VWRLPEFGDFAHSDFQSGLMSISMIKAHLDILVERSN 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: 43,294,546 Number of Sequences: 45328 Number of extensions: 1100772 Number of successful extensions: 3193 Number of sequences better than 1.0e-05: 3 Number of HSP's better than 0.0 without gapping: 2857 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): 3193 length of database: 21,768,885 effective HSP length: 104 effective length of database: 17,054,773 effective search space used: 3956707336 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-029585 (1010 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] 166 3e-41 Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 84 2e-16 Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 81 2e-15 Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 80 3e-15 >ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] Length = 254 Score = 166 bits (421), Expect = 3e-41 Identities = 83/106 (78%), Positives = 91/106 (85%), Gaps = 2/106 (1%) Frame = +2 Query: 77 MTILGVPVLGFVIT--ILNLQKSWAIVENHVIIQAEFYPSPDKSGEFMFDFDGDEIFHVD 250 MTI GVPVLGF I ++ Q+SWA+ E HVIIQAEFY +PD SGEFMFDFDGDEIFHVD Sbjct: 1 MTISGVPVLGFFIMAFLMGPQESWAVKEEHVIIQAEFYLTPDPSGEFMFDFDGDEIFHVD 60 Query: 251 MEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSNPPP 388 MEK+ETVWRLEEFG FASFEAQGALANIAVDKANL+ +IKRSN P Sbjct: 61 MEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTP 106 >ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris] Length = 255 Score = 84.0 bits (206), Expect = 2e-16 Identities = 48/104 (46%), Positives = 64/104 (61%), Gaps = 3/104 (2%) Frame = +2 Query: 77 MTILGVPVLGFVITILNLQKSWA--IVENHVIIQA-EFYPSPDKSGEFMFDFDGDEIFHV 247 M + V +LG +I + + S IV +HV Y S SG++ +FDGDE F+V Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60 Query: 248 DMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEILIKRSN 379 D+EK+ETVWRL F F SF+ QGAL N+A+ K NL I+ KRSN Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSN 104 >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 = 80.9 bits (198), Expect(2) = 2e-15 Identities = 39/90 (43%), Positives = 64/90 (71%), Gaps = 1/90 (1%) Frame = +2 Query: 113 ITILNLQKSWAIVENHV-IIQAEFYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEF 289 +++L+ ++ AI +H+ FY S SG+F +FDG+++F V+++KR+ VWRL EF Sbjct: 1 MSLLSPHETGAIEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEF 60 Query: 290 GHFASFEAQGALANIAVDKANLEILIKRSN 379 G+ A F+ Q LA+IAV KA+L++L++RSN Sbjct: 61 GNLAHFDPQNGLASIAVIKAHLDVLVERSN 90 Score = 20.4 bits (41), Expect(2) = 2e-15 Identities = 6/12 (50%), Positives = 9/12 (75%) Frame = +3 Query: 381 PLPETTENTVCA 416 P+P+T E +CA Sbjct: 103 PVPDTIETLICA 114 >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 = 80.1 bits (196), Expect = 3e-15 Identities = 35/67 (52%), Positives = 52/67 (77%) Frame = +2 Query: 179 FYPSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLE 358 FY S SG+F +FDG+++F V+++KR+ VWRL EFG+ A F+ Q LA+IAV KA+L+ Sbjct: 8 FYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIAVIKAHLD 67 Query: 359 ILIKRSN 379 +L++RSN Sbjct: 68 VLVERSN 74 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: 37,746,534 Number of Sequences: 33732 Number of extensions: 963618 Number of successful extensions: 2948 Number of sequences better than 1.0e-05: 4 Number of HSP's better than 0.0 without gapping: 2613 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): 2940 length of database: 19,266,565 effective HSP length: 103 effective length of database: 15,792,169 effective search space used: 3679575377 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)