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-061774
(782 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] 107 8e-24
Alignment gi|NP_291032.2| major histocompatibility complex, class II, DP ... 49 4e-06
Alignment gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941255.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941301.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941221.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941220.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
Alignment gi|XP_941219.1| PREDICTED: similar to HLA class II histocompati... 48 8e-06
>ref|NP_004039.1| beta-2-microglobulin precursor [Homo sapiens]
Length = 119
Score = 107 bits (268), Expect = 8e-24
Identities = 55/94 (58%), Positives = 64/94 (68%), Gaps = 1/94 (1%)
Frame = +3
Query: 102 PKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMN-AEQSDLSFRPDWSFYL 278
PK+QVY HPAEN + N+LN VSGFHP I +D L E + E SDLSF DWSFYL
Sbjct: 25 PKIQVYSRHPAENGKSNFLNCYVSGFHPSDIEVDLLKNGERIEKVEHSDLSFSKDWSFYL 84
Query: 279 LDHTELTPTPVDQYRCRVPHVTLYEPHIVPRDRE 380
L +TE TPT D+Y CRV HVTL +P IV DR+
Sbjct: 85 LYYTEFTPTEKDEYACRVNHVTLSQPKIVKWDRD 118
>ref|NP_291032.2| major histocompatibility complex, class II, DP alpha 1 precursor
[Homo sapiens]
Length = 260
Score = 49.3 bits (116), Expect = 4e-06
Identities = 29/91 (31%), Positives = 43/91 (47%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSFRP--D 263
T P+V V+ P E +PN L + F PP + + WL E + ++ F P D
Sbjct: 114 TNDPPEVTVFPKEPVELGQPNTLICHIDKFFPPVLNVTWLCNGELVTEGVAESLFLPRTD 173
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
+SF+ + P+ D Y CRV H L +P
Sbjct: 174 YSFHKFHYLTFVPSAEDFYDCRVEHWGLDQP 204
>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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>ref|XP_941301.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
(HLA-DQA1*05011) (HLA-DQA1*0502) isoform 5 [Homo
sapiens]
Length = 212
Score = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>ref|XP_941221.1| 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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>ref|XP_941220.1| 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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
>ref|XP_941219.1| 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 = 48.1 bits (113), Expect = 8e-06
Identities = 28/91 (30%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Frame = +3
Query: 90 TRAAPKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSF--RPD 263
T P+V V+ P +PN L V PP + I WL+ ++ S+ SF + D
Sbjct: 108 TNEVPEVTVFSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSD 167
Query: 264 WSFYLLDHTELTPTPVDQYRCRVPHVTLYEP 356
SF+ + + L P+ + Y C+V H L +P
Sbjct: 168 HSFFKISYLTLLPSAEESYDCKVEHWGLDKP 198
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: 31,792,332
Number of Sequences: 39411
Number of extensions: 866943
Number of successful extensions: 2629
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 2165
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): 2576
length of database: 17,774,539
effective HSP length: 100
effective length of database: 13,833,439
effective search space used: 2213350240
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-061774
(782 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... 122 5e-28
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 122 5e-28
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris]
Length = 125
Score = 122 bits (305), Expect = 5e-28
Identities = 58/94 (61%), Positives = 69/94 (73%)
Frame = +3
Query: 102 PKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSFRPDWSFYLL 281
PK+QVY HPAEN +PN+LN VSGFHPP+I ID L + M AEQ+DLSF DW+FYLL
Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSFSKDWTFYLL 91
Query: 282 DHTELTPTPVDQYRCRVPHVTLYEPHIVPRDREH 383
HTE TP D++ CRV HVTL EP IV DR++
Sbjct: 92 VHTEFTPNEQDEFSCRVKHVTLSEPQIVKWDRDN 125
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris]
Length = 125
Score = 122 bits (305), Expect = 5e-28
Identities = 58/94 (61%), Positives = 69/94 (73%)
Frame = +3
Query: 102 PKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWLTPRETMNAEQSDLSFRPDWSFYLL 281
PK+QVY HPAEN +PN+LN VSGFHPP+I ID L + M AEQ+DLSF DW+FYLL
Sbjct: 32 PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSFSKDWTFYLL 91
Query: 282 DHTELTPTPVDQYRCRVPHVTLYEPHIVPRDREH 383
HTE TP D++ CRV HVTL EP IV DR++
Sbjct: 92 VHTEFTPNEQDEFSCRVKHVTLSEPQIVKWDRDN 125
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: 32,918,538
Number of Sequences: 33732
Number of extensions: 869088
Number of successful extensions: 2423
Number of sequences better than 1.0e-05: 2
Number of HSP's better than 0.0 without gapping: 2233
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): 2413
length of database: 19,266,565
effective HSP length: 101
effective length of database: 15,859,633
effective search space used: 2521681647
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-061774
(782 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] 98 8e-21
>ref|NP_033865.2| beta-2-microglobulin [Mus musculus]
Length = 119
Score = 98.2 bits (243), Expect = 8e-21
Identities = 48/94 (51%), Positives = 59/94 (62%), Gaps = 1/94 (1%)
Frame = +3
Query: 102 PKVQVY*HHPAEN*EPNYLN*SVSGFHPPQIAIDWL-TPRETMNAEQSDLSFRPDWSFYL 278
P++QVY HP EN +PN LN V+ FHPP I I L ++ E SD+SF DWSFY+
Sbjct: 25 PQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKDWSFYI 84
Query: 279 LDHTELTPTPVDQYRCRVPHVTLYEPHIVPRDRE 380
L HTE TPT D Y CRV H ++ EP V DR+
Sbjct: 85 LAHTEFTPTETDTYACRVKHASMAEPKTVYWDRD 118
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: 37,454,302
Number of Sequences: 45328
Number of extensions: 979673
Number of successful extensions: 3049
Number of sequences better than 1.0e-05: 1
Number of HSP's better than 0.0 without gapping: 2727
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): 3039
length of database: 21,768,885
effective HSP length: 101
effective length of database: 17,190,757
effective search space used: 2733330363
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)