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-026600
(713 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: 623,153
Number of Sequences: 1040
Number of extensions: 14338
Number of successful extensions: 43
Number of sequences better than 1.0e-05: 0
Number of HSP's better than 0.0 without gapping: 42
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): 42
length of database: 434,620
effective HSP length: 74
effective length of database: 357,660
effective search space used: 58298580
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-026600
(713 letters)
Database: RefSeqBP
33,508 sequences; 16,112,626 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029840.2| MHC class II antigen [Bos taurus] 139 3e-33
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 135 4e-32
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 101 6e-22
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 93 2e-19
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 90 1e-18
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 87 1e-17
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 67 1e-11
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 139 bits (349), Expect = 3e-33
Identities = 66/91 (72%), Positives = 77/91 (84%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVT 234
MSGMVAL +PRGLWTA + V LV+L P AEGRDSP+DFV QFKG CYF NGT+RVR+VT
Sbjct: 1 MSGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVT 60
Query: 235 RYIYNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
RYIYNQEE+VRFDSD +RA+TPLGRP+ +
Sbjct: 61 RYIYNQEEYVRFDSDWDLYRALTPLGRPDAE 91
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 135 bits (339), Expect = 4e-32
Identities = 65/87 (74%), Positives = 72/87 (82%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVT 234
MSGMVALR+PRGLWTAA+ V L VL P AEGRDSPQD V F G+CYF NGT+RVR+VT
Sbjct: 1 MSGMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMGQCYFTNGTERVRYVT 60
Query: 235 RYIYNQEEHVRFDSDVGEFRAVTPLGR 315
RYIYNQEE +DSDVGE+RAVT LGR
Sbjct: 61 RYIYNQEETAYYDSDVGEYRAVTQLGR 87
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 101 bits (251), Expect = 6e-22
Identities = 51/85 (60%), Positives = 60/85 (70%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L G W AAL VML+VL P+A R+ F+ +KGEC+FFNGT+RVR + R+
Sbjct: 1 MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
YN EE VRFDSD GEFRAVT LGRP
Sbjct: 61 YNGEEFVRFDSDWGEFRAVTELGRP 85
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 92.8 bits (229), Expect = 2e-19
Identities = 53/100 (53%), Positives = 65/100 (65%), Gaps = 2/100 (2%)
Frame = +1
Query: 79 LPRGLWTAALTVMLV--VLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQ 252
+PR T A VM V VL P A RD+P++FVYQFKG CYF NGT+ VR V R IYN+
Sbjct: 5 IPRNPGTVAGMVMAVFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNK 64
Query: 253 EEHVRFDSDVGEFRAVTPLGRPEPDIRPDIRTSCSKHRAY 372
EE + FDSD+GEF AVT LGR +I + ++ RAY
Sbjct: 65 EEILHFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAY 104
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 90.1 bits (222), Expect = 1e-18
Identities = 43/86 (50%), Positives = 58/86 (67%), Gaps = 3/86 (3%)
Frame = +1
Query: 94 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEEHVRFD 273
W + L A V +GRDSP+DFV Q K +CYF NGT++VR V R+I+N E++ RFD
Sbjct: 8 WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67
Query: 274 SDVGEFRAVTPLGRPEPD---IRPDI 342
SD+G F A+T LG+P+ + RPDI
Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDI 93
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 87.0 bits (214), Expect = 1e-17
Identities = 41/72 (56%), Positives = 52/72 (72%)
Frame = +1
Query: 100 AALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEEHVRFDSD 279
AAL V+L+VL P + R++ F++QFKGEC F NG +R+R RYIYN +E V FDSD
Sbjct: 2 AALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDSD 61
Query: 280 VGEFRAVTPLGR 315
VGEF A+T LGR
Sbjct: 62 VGEFTALTELGR 73
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 67.4 bits (163), Expect = 1e-11
Identities = 31/47 (65%), Positives = 38/47 (80%)
Frame = +1
Query: 178 QFKGECYFFNGTQRVRHVTRYIYNQEEHVRFDSDVGEFRAVTPLGRP 318
Q K EC+F NGTQ+VR + RYIYN+EE V+FDS VGE+RA T +GRP
Sbjct: 3 QGKSECHFSNGTQQVRFLDRYIYNREEQVQFDSLVGEYRARTEMGRP 49
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: 22,705,877
Number of Sequences: 33508
Number of extensions: 523857
Number of successful extensions: 1535
Number of sequences better than 1.0e-05: 7
Number of HSP's better than 0.0 without gapping: 1419
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): 1533
length of database: 16,112,626
effective HSP length: 98
effective length of database: 12,828,842
effective search space used: 1783209038
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-026600
(713 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 126 2e-29
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 124 6e-29
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 105 3e-23
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 105 3e-23
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 105 3e-23
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 103 1e-22
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 99 3e-21
Alignment gi|XP_945196.1| PREDICTED: similar to HLA class II histocompati... 99 4e-21
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 99 4e-21
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 94 1e-19
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 126 bits (316), Expect = 2e-29
Identities = 61/91 (67%), Positives = 72/91 (79%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVT 234
MS +AL++P G W AA+TVMLV+L PVAE RD P+DF+ QFKG CYF NGT+RVR V
Sbjct: 1 MSWKMALQIPGGFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERVRGVA 60
Query: 235 RYIYNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
RYIYN+EE+ RFDSDVGEF+AVT LGR D
Sbjct: 61 RYIYNREEYGRFDSDVGEFQAVTELGRSIED 91
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 124 bits (312), Expect = 6e-29
Identities = 63/88 (71%), Positives = 71/88 (80%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVT 234
MS ALR+P GL A +T+ML +L PVAEGRDSP+DFVYQFKG CYF NGT+RVR V+
Sbjct: 1 MSWKKALRIPGGLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERVRLVS 60
Query: 235 RYIYNQEEHVRFDSDVGEFRAVTPLGRP 318
R IYN+EE VRFDSDVGEFRAVT LG P
Sbjct: 61 RSIYNREEIVRFDSDVGEFRAVTLLGLP 88
>ref|XP_945926.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 1 [Homo sapiens]
Length = 266
Score = 105 bits (263), Expect = 3e-23
Identities = 54/85 (63%), Positives = 66/85 (77%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G AALTV L+VL +P+A D+ F+ Q K EC+FFNGT+RVR++ R I
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
YNQEE+VRFDSDVGE+RAVT LGRP
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRP 85
>ref|XP_949921.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 3 [Homo sapiens]
Length = 325
Score = 105 bits (263), Expect = 3e-23
Identities = 54/85 (63%), Positives = 66/85 (77%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G AALTV L+VL +P+A D+ F+ Q K EC+FFNGT+RVR++ R I
Sbjct: 1 MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLKQDKFECHFFNGTERVRYLHRGI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
YNQEE+VRFDSDVGE+RAVT LGRP
Sbjct: 61 YNQEENVRFDSDVGEYRAVTELGRP 85
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 105 bits (263), Expect = 3e-23
Identities = 53/88 (60%), Positives = 66/88 (75%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G ALTV L+VL +P+A D+ F++Q K EC+FFNGT+RVR + R I
Sbjct: 1 MVCLKLPGGSCMTALTVTLMVLSSPLALAGDTRPRFLWQLKFECHFFNGTERVRLLERCI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
YNQEE VRFDSDVGE+RAVT LGRP+ +
Sbjct: 61 YNQEESVRFDSDVGEYRAVTELGRPDAE 88
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 103 bits (257), Expect = 1e-22
Identities = 52/88 (59%), Positives = 66/88 (75%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G + A LTV L+VL +P+A D+ F+ Q K EC+FFNGT+RVR + R I
Sbjct: 1 MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
YNQEE +RFDSDVGE+RAVT LGRP+ +
Sbjct: 61 YNQEEDLRFDSDVGEYRAVTELGRPDAE 88
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 99.0 bits (245), Expect = 3e-21
Identities = 50/85 (58%), Positives = 63/85 (74%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G AALTV L+VL + +A D+ F+ K EC+FFNGT+RVR++ RY
Sbjct: 1 MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
+NQEE +RFDSDVGE+RAVT LGRP
Sbjct: 61 HNQEEFLRFDSDVGEYRAVTELGRP 85
>ref|XP_945196.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DR-W53 beta chain precursor [Homo sapiens]
Length = 140
Score = 98.6 bits (244), Expect = 4e-21
Identities = 48/88 (54%), Positives = 65/88 (73%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G AALTV L VL +P+A D+ F+ Q K EC+F NGT+RV ++ RYI
Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
YNQEE+ R++SD+GE++AVT LGRP+ +
Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAE 88
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 98.6 bits (244), Expect = 4e-21
Identities = 48/88 (54%), Positives = 65/88 (73%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L+LP G AALTV L VL +P+A D+ F+ Q K EC+F NGT+RV ++ RYI
Sbjct: 1 MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
YNQEE+ R++SD+GE++AVT LGRP+ +
Sbjct: 61 YNQEEYARYNSDLGEYQAVTELGRPDAE 88
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 93.6 bits (231), Expect = 1e-19
Identities = 47/85 (55%), Positives = 62/85 (72%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
M+ L++ T ALT +L+VL V +GR +P+++++Q + ECY FNGTQR + RYI
Sbjct: 1 MMVLQVSAAPRTVALTALLMVLLTSVVQGRATPENYLFQGRQECYAFNGTQRF--LERYI 58
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
YN+EE RFDSDVGEFRAVT LGRP
Sbjct: 59 YNREEFARFDSDVGEFRAVTELGRP 83
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: 25,574,181
Number of Sequences: 39411
Number of extensions: 600577
Number of successful extensions: 1889
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 1739
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): 1882
length of database: 17,774,539
effective HSP length: 99
effective length of database: 13,872,850
effective search space used: 1914453300
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-026600
(713 letters)
Database: RefSeqMP
45,328 sequences; 21,768,885 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ... 114 1e-25
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 97 2e-20
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 94 2e-19
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 88 7e-18
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 114 bits (285), Expect = 1e-25
Identities = 56/87 (64%), Positives = 72/87 (82%)
Frame = +1
Query: 67 VALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIY 246
+AL++P L +AA+ V+L+VL +P EG DS + FVYQF GECYF NGTQR+R+VTRYIY
Sbjct: 1 MALQIPSLLLSAAV-VVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIY 59
Query: 247 NQEEHVRFDSDVGEFRAVTPLGRPEPD 327
N+EE+VR+DSDVGE RAVT LGRP+ +
Sbjct: 60 NREEYVRYDSDVGEHRAVTELGRPDAE 86
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 96.7 bits (239), Expect = 2e-20
Identities = 49/83 (59%), Positives = 60/83 (72%)
Frame = +1
Query: 79 LPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEE 258
LPR AA+ ++L VL PVA RDS F+ K EC+F+NGTQRVR + RY YN EE
Sbjct: 4 LPRVPCVAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRFLKRYFYNLEE 63
Query: 259 HVRFDSDVGEFRAVTPLGRPEPD 327
++RFDSDVGEFRAVT LGRP+ +
Sbjct: 64 NLRFDSDVGEFRAVTELGRPDAE 86
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 93.6 bits (231), Expect = 2e-19
Identities = 48/85 (56%), Positives = 60/85 (70%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV+L LPRGL AA+ + L++L PV RD F+ Q K EC++FNG +RV VTR+I
Sbjct: 1 MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
YNQEE RF+SD G+F AVT LGRP
Sbjct: 61 YNQEEFARFNSDFGKFLAVTELGRP 85
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 88.2 bits (217), Expect = 7e-18
Identities = 41/81 (50%), Positives = 57/81 (70%)
Frame = +1
Query: 85 RGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEEHV 264
R W AL V L+ L + + EGRDSP++FV Q K +CYF NGT++V + R+I+N EE++
Sbjct: 5 RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64
Query: 265 RFDSDVGEFRAVTPLGRPEPD 327
FDSD+G F A+T LG P+ D
Sbjct: 65 HFDSDLGMFVALTELGEPDAD 85
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: 30,757,218
Number of Sequences: 45328
Number of extensions: 712136
Number of successful extensions: 2197
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 1985
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): 2184
length of database: 21,768,885
effective HSP length: 100
effective length of database: 17,236,085
effective search space used: 2361343645
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-026600
(713 letters)
Database: RefSeqCP
33,732 sequences; 19,266,565 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca... 140 1e-33
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 102 3e-22
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 91 1e-18
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 91 1e-18
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 140 bits (353), Expect = 1e-33
Identities = 65/91 (71%), Positives = 78/91 (85%)
Frame = +1
Query: 55 MSGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVT 234
MSG + L +PRG WTAA+ ++LVVL PVAEGRDSPQDFV+Q+K ECYF NGT+RVR +T
Sbjct: 1 MSGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLT 60
Query: 235 RYIYNQEEHVRFDSDVGEFRAVTPLGRPEPD 327
+YIYN+EE VRFDSDVGEFRAVT LGRP+ +
Sbjct: 61 KYIYNREEFVRFDSDVGEFRAVTELGRPDAE 91
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 102 bits (255), Expect = 3e-22
Identities = 52/85 (61%), Positives = 60/85 (70%)
Frame = +1
Query: 64 MVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYI 243
MV L G W AL ++L+VL P A RD+P F+ K ECYF NGT+RVR V RYI
Sbjct: 1 MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60
Query: 244 YNQEEHVRFDSDVGEFRAVTPLGRP 318
+N+EE VRFDSDVGEFRAVT LGRP
Sbjct: 61 HNREEFVRFDSDVGEFRAVTELGRP 85
>ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
2 [Canis familiaris]
Length = 228
Score = 90.5 bits (223), Expect = 1e-18
Identities = 40/79 (50%), Positives = 57/79 (72%)
Frame = +1
Query: 94 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEEHVRFD 273
W AL V + L + + +GRDSP+DFV Q K +CYF NGT++V+ V R+I+N EE+ RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 274 SDVGEFRAVTPLGRPEPDI 330
S VG F A+T LG+P+ ++
Sbjct: 68 SHVGMFVALTELGKPDAEL 86
>ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
beta chain precursor (MHC class II antigen DOB) isoform
1 [Canis familiaris]
Length = 270
Score = 90.5 bits (223), Expect = 1e-18
Identities = 40/79 (50%), Positives = 57/79 (72%)
Frame = +1
Query: 94 WTAALTVMLVVLGAPVAEGRDSPQDFVYQFKGECYFFNGTQRVRHVTRYIYNQEEHVRFD 273
W AL V + L + + +GRDSP+DFV Q K +CYF NGT++V+ V R+I+N EE+ RFD
Sbjct: 8 WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67
Query: 274 SDVGEFRAVTPLGRPEPDI 330
S VG F A+T LG+P+ ++
Sbjct: 68 SHVGMFVALTELGKPDAEL 86
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: 26,614,667
Number of Sequences: 33732
Number of extensions: 611704
Number of successful extensions: 1931
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 1790
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): 1925
length of database: 19,266,565
effective HSP length: 100
effective length of database: 15,893,365
effective search space used: 2177391005
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)