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-040701
(546 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_064440.1| major histocompatibility complex, class II, DQ ... 110 9e-32
Alignment gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati... 106 1e-29
Alignment gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati... 106 1e-29
Alignment gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati... 106 1e-29
Alignment gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati... 106 1e-29
Alignment gi|XP_949969.1| PREDICTED: similar to HLA class II histocompati... 106 1e-29
Alignment gi|NP_002113.2| major histocompatibility complex, class II, DQ ... 106 3e-29
Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 97 1e-26
Alignment gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati... 97 1e-26
Alignment gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati... 97 1e-26
>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
sapiens]
Length = 255
Score = 110 bits (275), Expect(3) = 9e-32
Identities = 52/94 (55%), Positives = 68/94 (72%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N Y S+GPS Y HEFDGD+EFY+ L K+TVWQ+P+FSKFISF+PQ ALR
Sbjct: 28 ADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSALR 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQF 417
++ HTL ++++ AA + VPE TVF +F
Sbjct: 88 NMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSKF 121
Score = 33.1 bits (74), Expect(3) = 9e-32
Identities = 15/24 (62%), Positives = 18/24 (75%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ L+ GALALTA+MS CGGE
Sbjct: 1 MILNKALLLGALALTAVMSPCGGE 24
Score = 31.2 bits (69), Expect(3) = 9e-32
Identities = 15/37 (40%), Positives = 17/37 (45%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F FP G P +C V+ FPPV N NG V
Sbjct: 118 FSKFPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>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 = 106 bits (265), Expect(3) = 1e-29
Identities = 53/91 (58%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD+EFY+ L K+TVWQ+PLF +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LNI+IKR AA + VPE TVF
Sbjct: 88 NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118
Score = 32.7 bits (73), Expect(3) = 1e-29
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 28.1 bits (61), Expect(3) = 1e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>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 = 106 bits (265), Expect(3) = 1e-29
Identities = 53/91 (58%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD+EFY+ L K+TVWQ+PLF +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LNI+IKR AA + VPE TVF
Sbjct: 88 NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118
Score = 32.7 bits (73), Expect(3) = 1e-29
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 28.1 bits (61), Expect(3) = 1e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>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 = 106 bits (265), Expect(3) = 1e-29
Identities = 53/91 (58%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD+EFY+ L K+TVWQ+PLF +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LNI+IKR AA + VPE TVF
Sbjct: 88 NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118
Score = 32.7 bits (73), Expect(3) = 1e-29
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 28.1 bits (61), Expect(3) = 1e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>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 = 106 bits (265), Expect(3) = 1e-29
Identities = 53/91 (58%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD+EFY+ L K+TVWQ+PLF +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LNI+IKR AA + VPE TVF
Sbjct: 88 NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118
Score = 32.7 bits (73), Expect(3) = 1e-29
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 28.1 bits (61), Expect(3) = 1e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>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 = 106 bits (265), Expect(3) = 1e-29
Identities = 53/91 (58%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD+EFY+ L K+TVWQ+PLF +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LNI+IKR AA + VPE TVF
Sbjct: 88 NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118
Score = 32.7 bits (73), Expect(3) = 1e-29
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 28.1 bits (61), Expect(3) = 1e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154
>ref|NP_002113.2| major histocompatibility complex, class II, DQ alpha 1 precursor
[Homo sapiens]
Length = 255
Score = 106 bits (264), Expect(3) = 3e-29
Identities = 52/91 (57%), Positives = 64/91 (70%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y YGPS Y HEFDGD++FY+ L K+T W+ P FSKF F+PQGALR
Sbjct: 28 ADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGALR 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
++ A H LNI+IKR AA + VPE TVF
Sbjct: 88 NMAVAKHNLNIMIKRYNSTAATNEVPEVTVF 118
Score = 31.6 bits (70), Expect(3) = 3e-29
Identities = 14/24 (58%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ L+ GALALT +MS CGGE
Sbjct: 1 MILNKALLLGALALTTVMSPCGGE 24
Score = 28.5 bits (62), Expect(3) = 3e-29
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSV 154
>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 = 97.1 bits (240), Expect(3) = 1e-26
Identities = 50/91 (54%), Positives = 62/91 (68%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD++FY+ LG K+TVW +P+ +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LN LIKR AA + VPE TVF
Sbjct: 87 NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117
Score = 32.7 bits (73), Expect(3) = 1e-26
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 27.3 bits (59), Expect(3) = 1e-26
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153
>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 = 97.1 bits (240), Expect(3) = 1e-26
Identities = 50/91 (54%), Positives = 62/91 (68%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD++FY+ LG K+TVW +P+ +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LN LIKR AA + VPE TVF
Sbjct: 87 NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117
Score = 32.7 bits (73), Expect(3) = 1e-26
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 27.3 bits (59), Expect(3) = 1e-26
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153
>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 = 97.1 bits (240), Expect(3) = 1e-26
Identities = 50/91 (54%), Positives = 62/91 (68%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VAS G+N+Y SYGPS Y HEFDGD++FY+ LG K+TVW +P+ +F F+PQ AL
Sbjct: 28 ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
+I H LN LIKR AA + VPE TVF
Sbjct: 87 NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117
Score = 32.7 bits (73), Expect(3) = 1e-26
Identities = 15/24 (62%), Positives = 17/24 (70%)
Frame = +2
Query: 53 MVPRPVLMWGALALTALMSDCGGE 124
M+ LM GALALT +MS CGGE
Sbjct: 1 MILNKALMLGALALTTVMSPCGGE 24
Score = 27.3 bits (59), Expect(3) = 1e-26
Identities = 14/37 (37%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N NG V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153
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: 24,056,799
Number of Sequences: 39411
Number of extensions: 686476
Number of successful extensions: 2374
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2026
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): 2360
length of database: 17,774,539
effective HSP length: 95
effective length of database: 14,030,494
effective search space used: 1206622484
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-040701
(546 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili... 107 6e-26
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris] 59 2e-11
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 57 6e-11
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 59 3e-09
>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
Length = 255
Score = 107 bits (267), Expect(2) = 6e-26
Identities = 52/91 (57%), Positives = 65/91 (71%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A VA+ G+NVY SYGPS Y HEFDGD+EFY+ L K+TVW++P+FS F SF+PQGALR
Sbjct: 28 ADHVANYGINVYQSYGPSGQYTHEFDGDEEFYVDLEKKETVWRLPVFSTFRSFDPQGALR 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
++ LNI+ KR AA + VPE TVF
Sbjct: 88 NLAIIKQNLNIMTKRSNQTAATNEVPEVTVF 118
Score = 27.7 bits (60), Expect(2) = 6e-26
Identities = 13/33 (39%), Positives = 15/33 (45%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKN 505
F P G P +C V+ FPPV N KN
Sbjct: 118 FSKSPVMLGQPNTLICLVDNIFPPVINVTWLKN 150
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]
Length = 254
Score = 58.9 bits (141), Expect(2) = 2e-11
Identities = 31/79 (39%), Positives = 46/79 (58%)
Frame = +1
Query: 169 YHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHIDPANHTLNI 348
Y + PS + +FDGD+ F++ + K+TVW++ F +F SFE QGAL +I L+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 349 LIKRVAHPAAVHPVPEGTV 405
+IKR H + PE TV
Sbjct: 98 MIKRSNHTPNTNVPPEVTV 116
Score = 26.9 bits (58), Expect(2) = 2e-11
Identities = 11/29 (37%), Positives = 15/29 (51%)
Frame = +2
Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
G P +C ++ PPV N +NG PV
Sbjct: 125 GEPNILICFIDKFSPPVINVTWLRNGNPV 153
>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 = 57.0 bits (136), Expect(2) = 6e-11
Identities = 32/98 (32%), Positives = 47/98 (47%), Gaps = 7/98 (7%)
Frame = +1
Query: 145 VAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHID 324
+ S G Y SYG S + HEFDG+Q F + L + VW++P F F+PQ L I
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 325 PANHTLNILIKRVAHPAAVHPV-------PEGTVFPQF 417
L++L++R A++ P V P+F
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKF 98
Score = 27.3 bits (59), Expect(2) = 6e-11
Identities = 11/26 (42%), Positives = 14/26 (53%)
Frame = +2
Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNG 508
G P +C V+ FPPV N +NG
Sbjct: 103 GQPNVLICIVDNIFPPVINITWLRNG 128
>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 = 58.9 bits (141), Expect = 3e-09
Identities = 32/93 (34%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A + S G Y SYG S + HEFDG+Q F + L + VW++P F F+PQ L
Sbjct: 14 ADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLA 73
Query: 316 HIDPANHTLNILIKR------VAHPAAVHPVPE 396
I L++L++R + P PVP+
Sbjct: 74 SIAVIKAHLDVLVERSNRTRAINEPQVPIPVPD 106
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: 24,901,878
Number of Sequences: 33732
Number of extensions: 685791
Number of successful extensions: 2097
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 1911
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): 2097
length of database: 19,266,565
effective HSP length: 96
effective length of database: 16,028,293
effective search space used: 1362404905
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-040701
(546 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha... 83 2e-20
Alignment gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus... 59 7e-12
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 50 2e-09
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha [Mus musculus]
Length = 256
Score = 83.2 bits (204), Expect(3) = 2e-20
Identities = 40/93 (43%), Positives = 55/93 (59%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A V + G++VY S G Y EFDGD+ FY+ L K+TVW +P F + SF+PQG L+
Sbjct: 29 ADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQ 88
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
+I H L +L KR A + P+ TVFP+
Sbjct: 89 NIAVVKHNLGVLTKRSNSTPATNEAPQATVFPK 121
Score = 27.3 bits (59), Expect(3) = 2e-20
Identities = 13/37 (35%), Positives = 16/37 (43%)
Frame = +2
Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
F P G P +C V+ FPPV N +N V
Sbjct: 119 FPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSV 155
Score = 26.2 bits (56), Expect(3) = 2e-20
Identities = 11/18 (61%), Positives = 14/18 (77%)
Frame = +2
Query: 71 LMWGALALTALMSDCGGE 124
L+ G LALT ++S CGGE
Sbjct: 7 LILGVLALTTMLSLCGGE 24
>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
Length = 250
Score = 59.3 bits (142), Expect(2) = 7e-12
Identities = 34/93 (36%), Positives = 47/93 (50%)
Frame = +1
Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
A + S G Y SY S + HEFDG+Q F + L N++ VW++P F F + Q L
Sbjct: 28 ADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRLPEFGDFAHSDFQSGLM 87
Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
I L+IL++R AV P TV P+
Sbjct: 88 SISMIKAHLDILVERSNRTRAVSVPPRVTVLPK 120
Score = 28.5 bits (62), Expect(2) = 7e-12
Identities = 11/29 (37%), Positives = 15/29 (51%)
Frame = +2
Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
G P +C V+ FPPV N +N P+
Sbjct: 126 GKPNVLICIVDDIFPPVINVTWLRNSQPI 154
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha [Mus musculus]
Length = 255
Score = 50.4 bits (119), Expect(2) = 2e-09
Identities = 24/67 (35%), Positives = 41/67 (61%)
Frame = +1
Query: 205 EFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHIDPANHTLNILIKRVAHPAAVH 384
+FDGD+ F++ + +T+W++ F+KF SFE QGAL +I L+++ +R + +
Sbjct: 50 DFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNNTPDAN 109
Query: 385 PVPEGTV 405
PE TV
Sbjct: 110 VAPEVTV 116
Score = 29.3 bits (64), Expect(2) = 2e-09
Identities = 12/29 (41%), Positives = 16/29 (55%)
Frame = +2
Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
G P +C ++ PPV N F+NG PV
Sbjct: 125 GEPNILICFIDKFSPPVVNVTWFRNGRPV 153
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: 28,193,836
Number of Sequences: 45328
Number of extensions: 763644
Number of successful extensions: 2343
Number of sequences better than 1.0e-05: 3
Number of HSP's better than 0.0 without gapping: 2149
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): 2343
length of database: 21,768,885
effective HSP length: 97
effective length of database: 17,372,069
effective search space used: 1459253796
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)