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-028335
(948 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: 944,889
Number of Sequences: 1040
Number of extensions: 23819
Number of successful extensions: 89
Number of sequences better than 1.0e-05: 0
Number of HSP's better than 0.0 without gapping: 84
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): 89
length of database: 434,620
effective HSP length: 77
effective length of database: 354,540
effective search space used: 84380520
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-028335
(948 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] 113 1e-42
Alignment gi|NP_001012694.1| major histocompatibility complex, class II, ... 106 7e-42
Alignment gi|NP_001012697.1| major histocompatibility complex, class II, ... 95 1e-33
Alignment gi|NP_001012698.2| major histocompatibility complex, class II, ... 97 3e-32
Alignment gi|XP_582099.2| PREDICTED: similar to major histocompatibility ... 86 3e-29
Alignment gi|NP_001013618.1| major histocompatibility complex, class II, ... 78 6e-24
Alignment gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati... 71 1e-22
Alignment gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati... 62 8e-19
>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
Length = 261
Score = 113 bits (283), Expect(3) = 1e-42
Identities = 54/86 (62%), Positives = 67/86 (77%)
Frame = +2
Query: 293 FRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTISPSIA 472
+RA+TPL RPDA+Y +KDFLE TRA D+VC+H Y E ++L V+PT+TISPS
Sbjct: 79 YRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELITSLQRRVEPTVTISPSRT 138
Query: 473 EALNHHNLLVCAVTHFYPSHVKVQWF 550
EALNHHNLLVC+VT FYPS +KV+WF
Sbjct: 139 EALNHHNLLVCSVTDFYPSQIKVRWF 164
Score = 73.2 bits (178), Expect(3) = 1e-42
Identities = 39/71 (54%), Positives = 47/71 (66%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + GDVY+C VEH SLQSP + WR+QS+SAQS ML+GV F+ GLIF LGL
Sbjct: 191 VMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLGLIFLGLGLI 250
Query: 811 IRRMCHIALVR 843
I L+R
Sbjct: 251 IHHRSQKGLMR 261
Score = 25.8 bits (55), Expect(3) = 1e-42
Identities = 18/52 (34%), Positives = 22/52 (42%)
Frame = +3
Query: 60 GKAALRLPRSLWHPALTAMLVEPAARMDHALDSLVDYHVPDLGARCYFFGRT 215
G AL +PR LW + LV + DS D+ V G CYF T
Sbjct: 3 GMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGL-CYFTNGT 53
>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
Length = 261
Score = 106 bits (265), Expect(3) = 7e-42
Identities = 53/91 (58%), Positives = 67/91 (73%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L R A+Y +KD LE TRA LD+VC+H Y +E ++L V+PT+TI
Sbjct: 74 SDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVITSLQRQVEPTVTI 133
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
S S EALNHHNLLVC+VT FYP +KV+WF
Sbjct: 134 SLSRTEALNHHNLLVCSVTDFYPGQIKVRWF 164
Score = 74.7 bits (182), Expect(3) = 7e-42
Identities = 40/70 (57%), Positives = 47/70 (67%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + GDVY+C VEH SLQSP WR+QS+SAQS ML+GV F+ GLIF LGL
Sbjct: 191 VMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLGLIFLGLGLI 250
Query: 811 IRRMCHIALV 840
+RR LV
Sbjct: 251 VRRRSQKGLV 260
Score = 28.9 bits (63), Expect(3) = 7e-42
Identities = 19/52 (36%), Positives = 24/52 (46%)
Frame = +3
Query: 60 GKAALRLPRSLWHPALTAMLVEPAARMDHALDSLVDYHVPDLGARCYFFGRT 215
G ALR+PR LW A+ L + DS D V +G +CYF T
Sbjct: 3 GMVALRIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMG-QCYFTNGT 53
>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus]
Length = 259
Score = 94.7 bits (234), Expect(2) = 1e-33
Identities = 48/91 (52%), Positives = 62/91 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEF AVT L R A+ +KD L RA +D++C+H Y G T+ V+PT+T+
Sbjct: 72 SDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTV 131
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
SP+ EALNHHNLLVC+VT FYP VKV+WF
Sbjct: 132 SPASTEALNHHNLLVCSVTDFYPRQVKVKWF 162
Score = 67.0 bits (162), Expect(2) = 1e-33
Identities = 34/61 (55%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML +LGDVY C V+H SLQSP WR+QS+SAQS M +G+ F+ GLIF +GLF
Sbjct: 189 VMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGIGGFVLGLIFLGVGLF 248
Query: 811 I 813
+
Sbjct: 249 V 249
>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus]
Length = 266
Score = 97.4 bits (241), Expect(2) = 3e-32
Identities = 46/91 (50%), Positives = 62/91 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S GEFRAVT L RP A++ +KDFLE RA +D VC+H Y + T+ V+PT+T+
Sbjct: 71 SDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V FYP H++V+WF
Sbjct: 131 YPAKTQPLQHHNLLVCSVNGFYPGHIEVRWF 161
Score = 59.7 bits (143), Expect(2) = 3e-32
Identities = 30/61 (49%), Positives = 42/61 (68%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + G+VY+C+V+H SP WR++SDSAQS M++GV F+ GL+F +GLF
Sbjct: 188 VMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLLFLAVGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
DR beta 5 precursor [Bos taurus]
Length = 255
Score = 86.3 bits (212), Expect(2) = 3e-29
Identities = 41/91 (45%), Positives = 59/91 (64%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEF A+T L R DA+Y +KDF+E RA +D++C+ Y V+PT+T+
Sbjct: 60 SDVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTV 119
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V FYP H++V+WF
Sbjct: 120 YPAKTQPLQHHNLLVCSVNGFYPGHIEVRWF 150
Score = 60.8 bits (146), Expect(2) = 3e-29
Identities = 30/61 (49%), Positives = 42/61 (68%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + G+VY+C+VEH S SP WR+QSDSAQ +++G+ F+ GL+F +GLF
Sbjct: 177 VMLETVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQRKLMSGIGGFVLGLLFLGVGLF 236
Query: 811 I 813
I
Sbjct: 237 I 237
>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus]
Length = 271
Score = 77.8 bits (190), Expect(2) = 6e-24
Identities = 39/91 (42%), Positives = 54/91 (59%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +G F A+T L +PDA+ R D L +RA +D +C+ Y++ T+ VQP +T+
Sbjct: 68 SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P AL H NLL+C VT FYP +KV WF
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWF 158
Score = 51.6 bits (122), Expect(2) = 6e-24
Identities = 25/62 (40%), Positives = 39/62 (62%)
Frame = +1
Query: 628 SVMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGL 807
+VML LG+VY+C V+H SL SP WR+QS+ + +L+G F+ GL+FF + +
Sbjct: 184 TVMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEI 243
Query: 808 FI 813
+
Sbjct: 244 VV 245
>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
beta chain precursor [Bos taurus]
Length = 269
Score = 70.9 bits (172), Expect(2) = 1e-22
Identities = 37/91 (40%), Positives = 52/91 (57%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RA T + RP A+ L+ RA + + C Y T+ VQPT+T+
Sbjct: 35 SLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAYCASNYEFFASRTVQRRVQPTVTV 94
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P + L HHNLLVC+V FYP H++V+WF
Sbjct: 95 YPVKSRPLWHHNLLVCSVNGFYPGHIEVRWF 125
Score = 53.9 bits (128), Expect(2) = 1e-22
Identities = 29/65 (44%), Positives = 41/65 (63%), Gaps = 2/65 (3%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGL- 807
VML + G+VY+C VEH S SP WR+Q +S+Q ML+G+ + GL+F +GL
Sbjct: 152 VMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEKMLSGIGACVLGLLFLGMGLL 211
Query: 808 -FIRR 819
+IRR
Sbjct: 212 FYIRR 216
>ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-7 beta chain precursor (MHC class I antigen DRB1*7)
(DR-7) (DR7) [Bos taurus]
Length = 347
Score = 61.6 bits (148), Expect(2) = 8e-19
Identities = 31/60 (51%), Positives = 42/60 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML L+ G+VY+C++EH S +SP WR+QSDSAQS M++G F GL+F +GLF
Sbjct: 159 VMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLF 218
Score = 50.4 bits (119), Expect(2) = 8e-19
Identities = 21/43 (48%), Positives = 31/43 (72%)
Frame = +2
Query: 422 TLPLPVQPTLTISPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
TL V+PT+T+ P+ + L H++LLVC+V FY HV+V+WF
Sbjct: 90 TLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWF 132
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: 35,366,390
Number of Sequences: 33508
Number of extensions: 917057
Number of successful extensions: 3705
Number of sequences better than 1.0e-05: 8
Number of HSP's better than 0.0 without gapping: 3120
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): 3703
length of database: 16,112,626
effective HSP length: 101
effective length of database: 12,728,318
effective search space used: 2723860052
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-028335
(948 letters)
Database: RefSeqHP
39,411 sequences; 17,774,539 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_002114.2| major histocompatibility complex, class II, DQ ... 109 8e-39
Alignment gi|NP_002116.2| major histocompatibility complex, class II, DR ... 97 7e-34
Alignment gi|NP_002115.1| major histocompatibility complex, class II, DR ... 97 3e-33
Alignment gi|NP_068818.4| major histocompatibility complex, class II, DR ... 95 4e-32
Alignment gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati... 92 5e-32
Alignment gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati... 92 5e-32
Alignment gi|NP_002112.3| major histocompatibility complex, class II, DP ... 94 1e-31
Alignment gi|NP_072049.2| major histocompatibility complex, class II, DR ... 87 3e-29
Alignment gi|NP_872355.1| major histocompatibility complex, class II, DQ ... 104 4e-28
Alignment gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati... 92 5e-28
>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
[Homo sapiens]
Length = 261
Score = 109 bits (273), Expect(2) = 8e-39
Identities = 54/91 (59%), Positives = 67/91 (73%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEFRAVT L P A+Y +KD LE RA +D VC+H Y +E +TL V+PT+TI
Sbjct: 74 SDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLELRTTLQRRVEPTVTI 133
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
SPS EALNHHNLLVC+VT FYP+ +KV+WF
Sbjct: 134 SPSRTEALNHHNLLVCSVTDFYPAQIKVRWF 164
Score = 69.7 bits (169), Expect(2) = 8e-39
Identities = 36/61 (59%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + GDVY+C VEH SLQSP WR+QS+SAQS ML+G+ F+ GLIF LGL
Sbjct: 191 VMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGIGGFVLGLIFLGLGLI 250
Query: 811 I 813
I
Sbjct: 251 I 251
>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
[Homo sapiens]
Length = 266
Score = 97.4 bits (241), Expect(2) = 7e-34
Identities = 44/91 (48%), Positives = 63/91 (69%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RPDA+Y +KDFLE RA +D+ C+H Y + + T+ V+P +T+
Sbjct: 71 SDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTVQRRVEPKVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V FYP ++V+WF
Sbjct: 131 YPARTQTLQHHNLLVCSVNGFYPGSIEVRWF 161
Score = 65.5 bits (158), Expect(2) = 7e-34
Identities = 34/61 (55%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ SP WR+QS+SAQS ML+GV F+ GL+F GLF
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLLFLGAGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|NP_002115.1| major histocompatibility complex, class II, DR beta 1 precursor
[Homo sapiens]
Length = 266
Score = 97.1 bits (240), Expect(2) = 3e-33
Identities = 44/91 (48%), Positives = 63/91 (69%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RPDA+Y +KD LE RA +D+ C+H Y + + T+ V+P +T+
Sbjct: 71 SDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYGVGESFTVQRRVEPKVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
PS + L HHNLLVC+V+ FYP ++V+WF
Sbjct: 131 YPSKTQPLQHHNLLVCSVSGFYPGSIEVRWF 161
Score = 63.9 bits (154), Expect(2) = 3e-33
Identities = 33/61 (54%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ SP WR++S+SAQS ML+GV F+ GL+F GLF
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
[Homo sapiens]
Length = 266
Score = 94.7 bits (234), Expect(2) = 4e-32
Identities = 43/92 (46%), Positives = 63/92 (68%)
Frame = +2
Query: 275 HSHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLT 454
+S +GE++AVT L RPDA+Y +KD LE RA +D+ C++ Y + + T+ VQP +T
Sbjct: 70 NSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTVQRRVQPKVT 129
Query: 455 ISPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
+ PS + L HHNLLVC+V FYP ++V+WF
Sbjct: 130 VYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWF 161
Score = 62.4 bits (150), Expect(2) = 4e-32
Identities = 32/61 (52%), Positives = 42/61 (68%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ SP W ++S+SAQS ML+GV F+ GL+F GLF
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLLFLGTGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen,
DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
(DR-9) (DR9) isoform 2 [Homo sapiens]
Length = 284
Score = 92.4 bits (228), Expect(2) = 5e-32
Identities = 43/91 (47%), Positives = 62/91 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RP A+ +KDFLE RA +D+VC+H Y + + T+ V P +T+
Sbjct: 89 SDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTV 148
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V+ FYP ++V+WF
Sbjct: 149 YPAKTQPLQHHNLLVCSVSGFYPGSIEVRWF 179
Score = 64.3 bits (155), Expect(2) = 5e-32
Identities = 33/61 (54%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ SP WR++S+SAQS ML+GV F+ GL+F GLF
Sbjct: 206 VMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLF 265
Query: 811 I 813
I
Sbjct: 266 I 266
>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 = 92.4 bits (228), Expect(2) = 5e-32
Identities = 43/91 (47%), Positives = 62/91 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RP A+ +KDFLE RA +D+VC+H Y + + T+ V P +T+
Sbjct: 71 SDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V+ FYP ++V+WF
Sbjct: 131 YPAKTQPLQHHNLLVCSVSGFYPGSIEVRWF 161
Score = 64.3 bits (155), Expect(2) = 5e-32
Identities = 33/61 (54%), Positives = 43/61 (70%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ SP WR++S+SAQS ML+GV F+ GL+F GLF
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
[Homo sapiens]
Length = 258
Score = 93.6 bits (231), Expect(2) = 1e-31
Identities = 47/91 (51%), Positives = 58/91 (63%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEFRAVT L RP A+Y +KD LE RA D +C+H Y + TL VQP + +
Sbjct: 69 SDVGEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYELGGPMTLQRRVQPRVNV 128
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
SPS L HHNLLVC VT FYP ++V+WF
Sbjct: 129 SPSKKGPLQHHNLLVCHVTDFYPGSIQVRWF 159
Score = 61.6 bits (148), Expect(2) = 1e-31
Identities = 31/63 (49%), Positives = 42/63 (66%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + GDVY+C+VEH+SL SP W++QSDSA+S L G F+ GLI +G+F
Sbjct: 186 VMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLTGAGGFVLGLIICGVGIF 245
Query: 811 IRR 819
+ R
Sbjct: 246 MHR 248
>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
[Homo sapiens]
Length = 266
Score = 86.7 bits (213), Expect(2) = 3e-29
Identities = 40/91 (43%), Positives = 59/91 (64%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RP A+ +KD LE R +D+ C+H Y + + T+ V P +T+
Sbjct: 71 SDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTVQRRVHPQVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V+ FYP ++V+WF
Sbjct: 131 YPAKTQPLQHHNLLVCSVSGFYPGSIEVRWF 161
Score = 60.8 bits (146), Expect(2) = 3e-29
Identities = 32/61 (52%), Positives = 42/61 (68%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH S+ S WR++S+SAQS ML+GV F+ GL+F GLF
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLLFLGAGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
sapiens]
Length = 231
Score = 104 bits (259), Expect(2) = 4e-28
Identities = 54/91 (59%), Positives = 65/91 (71%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEF+AVT L R D+ KDFLE RA +D VC+H Y E +TL V+PT+TI
Sbjct: 74 SDVGEFQAVTELGRSIEDWN-NYKDFLEQERAAVDKVCRHNYEAELRTTLQRQVEPTVTI 132
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
SPS EALNHHNLLVC+VT FYP+ +KVQWF
Sbjct: 133 SPSRTEALNHHNLLVCSVTDFYPAQIKVQWF 163
Score = 39.3 bits (90), Expect(2) = 4e-28
Identities = 17/31 (54%), Positives = 21/31 (67%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WR 723
VML + GD+Y+C+VEH SLQSP WR
Sbjct: 190 VMLEITPQRGDIYTCQVEHPSLQSPITVEWR 220
>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 = 92.4 bits (228), Expect(3) = 5e-28
Identities = 43/91 (47%), Positives = 62/91 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GE+RAVT L RP A+ +KDFLE RA +D+VC+H Y + + T+ V P +T+
Sbjct: 71 SDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYGVGESFTVQRRVHPEVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V+ FYP ++V+WF
Sbjct: 131 YPAKTQPLQHHNLLVCSVSGFYPGSIEVRWF 161
Score = 35.8 bits (81), Expect(3) = 5e-28
Identities = 16/25 (64%), Positives = 19/25 (76%)
Frame = +3
Query: 555 NGHQDTAGVVSTPLIRNGYWTCQVL 629
NG ++ AGVVST LI+NG WT Q L
Sbjct: 163 NGQEEKAGVVSTGLIQNGDWTFQTL 187
Score = 35.0 bits (79), Expect(3) = 5e-28
Identities = 16/33 (48%), Positives = 20/33 (60%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQ 729
VML R G+VY+C+VEH S+ SP W Q
Sbjct: 188 VMLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQ 220
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: 40,186,349
Number of Sequences: 39411
Number of extensions: 1073001
Number of successful extensions: 4483
Number of sequences better than 1.0e-05: 10
Number of HSP's better than 0.0 without gapping: 3846
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): 4482
length of database: 17,774,539
effective HSP length: 102
effective length of database: 13,754,617
effective search space used: 2929733421
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-028335
(948 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 ... 96 3e-33
Alignment gi|NP_034512.1| histocompatibility 2, class II antigen E beta [... 95 4e-31
Alignment gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/... 77 4e-24
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 74 3e-22
>ref|NP_996988.1| histocompatibility 2, class II antigen A, beta 1 [Mus musculus]
Length = 265
Score = 95.5 bits (236), Expect(2) = 3e-33
Identities = 50/92 (54%), Positives = 63/92 (68%), Gaps = 1/92 (1%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYH-IEDGSTLPLPVQPTLT 454
S +GE RAVT L RPDA+Y + + LE TRA LD+VC+H Y E ++L QP +
Sbjct: 69 SDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVV 128
Query: 455 ISPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
IS S EALNHHN LVC+VT FYP+ +KV+WF
Sbjct: 129 ISLSRTEALNHHNTLVCSVTDFYPTQIKVRWF 160
Score = 65.5 bits (158), Expect(2) = 3e-33
Identities = 34/62 (54%), Positives = 43/62 (69%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C VEH SL+SP WR+QS+SA S ML+G+ + G+IF LGLF
Sbjct: 187 VMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLF 246
Query: 811 IR 816
IR
Sbjct: 247 IR 248
>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
Length = 264
Score = 94.7 bits (234), Expect(2) = 4e-31
Identities = 43/91 (47%), Positives = 63/91 (69%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEFRAVT L RPDA+ + + L+ RA +D+ C+H Y I D +P V+PT+T+
Sbjct: 69 SDVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYEIFDNFLVPRRVEPTVTV 128
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P+ + L HHNLLVC+V+ FYP +++V+WF
Sbjct: 129 YPTKTQPLEHHNLLVCSVSDFYPGNIEVRWF 159
Score = 59.3 bits (142), Expect(2) = 4e-31
Identities = 31/61 (50%), Positives = 41/61 (67%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + G+VY+C+VEH SL P W++QS SAQ+ ML+GV F+ GL+F GLF
Sbjct: 186 VMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLRAGLF 245
Query: 811 I 813
I
Sbjct: 246 I 246
>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
Length = 287
Score = 77.0 bits (188), Expect(2) = 4e-24
Identities = 39/92 (42%), Positives = 57/92 (61%)
Frame = +2
Query: 275 HSHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLT 454
+S G+F AVT L RP +Y +KD L+ RA +D C++ Y + D L L +P +T
Sbjct: 70 NSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFMLNLKAEPKVT 128
Query: 455 ISPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
+ P+ + L HHNLLVC+V FYP ++V+WF
Sbjct: 129 VYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWF 160
Score = 53.5 bits (127), Expect(2) = 4e-24
Identities = 29/60 (48%), Positives = 38/60 (63%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML R G+VY+C+VEH SL SP WR++S SAQ+ +L+GV GL +GLF
Sbjct: 187 VMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGVMGMALGLFILAVGLF 246
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus]
Length = 271
Score = 74.3 bits (181), Expect(2) = 3e-22
Identities = 38/91 (41%), Positives = 52/91 (57%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +G F A+T L PDAD R D LE +RA ++ VC+ Y + T+ V P +T+
Sbjct: 68 SDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPEVTV 127
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P L HNLL+C+VT FYP + V+WF
Sbjct: 128 YPERTPLLQQHNLLLCSVTGFYPGDISVKWF 158
Score = 49.7 bits (117), Expect(2) = 3e-22
Identities = 26/62 (41%), Positives = 36/62 (58%)
Frame = +1
Query: 628 SVMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGL 807
+VML LGD+YSC VEH L P W +QS+ + +L+G F+ GLI F +G+
Sbjct: 184 TVMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGV 243
Query: 808 FI 813
I
Sbjct: 244 VI 245
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: 47,613,396
Number of Sequences: 45328
Number of extensions: 1237068
Number of successful extensions: 4953
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 4264
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): 4946
length of database: 21,768,885
effective HSP length: 103
effective length of database: 17,100,101
effective search space used: 3625221412
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-028335
(948 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... 109 2e-39
Alignment gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami... 94 4e-33
Alignment gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati... 84 2e-26
Alignment gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati... 84 3e-24
>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
Length = 269
Score = 109 bits (272), Expect(2) = 2e-39
Identities = 53/91 (58%), Positives = 67/91 (73%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEFRAVT L RPDA+Y +KD ++ RA LD+VC+H Y E+ +TL V+PT+TI
Sbjct: 74 SDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELTTLQRRVEPTVTI 133
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
PS E LNHHNLLVC+VT FYP +KV+WF
Sbjct: 134 FPSKTEVLNHHNLLVCSVTDFYPGQIKVRWF 164
Score = 72.4 bits (176), Expect(2) = 2e-39
Identities = 37/62 (59%), Positives = 45/62 (72%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + GDVY+C VEH+SLQSP WR+QS+SAQS ML+G+ F+ GLIF LGL
Sbjct: 191 VMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLGLIFLGLGLI 250
Query: 811 IR 816
IR
Sbjct: 251 IR 252
>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
Length = 266
Score = 94.0 bits (232), Expect(2) = 4e-33
Identities = 43/90 (47%), Positives = 62/90 (68%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
S +GEFRAVT L RP A+ G+K+ LE RA +D+ C+H Y + + T+ V+PT+T+
Sbjct: 71 SDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTVQRRVEPTVTV 130
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQW 547
P+ + L HHNLLVC+V FYP H++V+W
Sbjct: 131 YPTKTQTLQHHNLLVCSVNGFYPGHIEVRW 160
Score = 66.6 bits (161), Expect(2) = 4e-33
Identities = 34/61 (55%), Positives = 44/61 (72%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML + G+VY+C+VEH SL SP WR+QSDSAQS ML+G+ F+ GL+F +GLF
Sbjct: 188 VMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLLFLAVGLF 247
Query: 811 I 813
I
Sbjct: 248 I 248
>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 = 84.0 bits (206), Expect(2) = 2e-26
Identities = 38/91 (41%), Positives = 58/91 (63%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
SH+G F A+T L +PDA+ + LE +RA +D +C+H Y + T+ VQP +T+
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P ++ HHNLL+C+VT FYP +K++WF
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWF 158
Score = 54.3 bits (129), Expect(2) = 2e-26
Identities = 29/61 (47%), Positives = 36/61 (59%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*WRSQSDSAQS*MLNGV*CFMTGLIFFWLGLF 810
VML LGDVY+C V H SL SP WR+QS + ML+G+ F+ GLIF +G
Sbjct: 185 VMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTV 244
Query: 811 I 813
I
Sbjct: 245 I 245
>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 = 84.0 bits (206), Expect(3) = 3e-24
Identities = 38/91 (41%), Positives = 58/91 (63%)
Frame = +2
Query: 278 SHMGEFRAVTPLERPDADYCIGRKDFLELTRA*LDSVCKHIYHIEDGSTLPLPVQPTLTI 457
SH+G F A+T L +PDA+ + LE +RA +D +C+H Y + T+ VQP +T+
Sbjct: 68 SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127
Query: 458 SPSIAEALNHHNLLVCAVTHFYPSHVKVQWF 550
P ++ HHNLL+C+VT FYP +K++WF
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWF 158
Score = 33.9 bits (76), Expect(3) = 3e-24
Identities = 14/25 (56%), Positives = 18/25 (72%)
Frame = +3
Query: 555 NGHQDTAGVVSTPLIRNGYWTCQVL 629
NG ++ GV+ST LIRNG WT Q +
Sbjct: 160 NGQEERVGVMSTGLIRNGDWTFQTM 184
Score = 33.1 bits (74), Expect(3) = 3e-24
Identities = 16/30 (53%), Positives = 17/30 (56%)
Frame = +1
Query: 631 VMLHYDLRLGDVYSCRVEHSSLQSPFLF*W 720
VML LGDVY+C V H SL SP W
Sbjct: 185 VMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214
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: 41,396,620
Number of Sequences: 33732
Number of extensions: 1069287
Number of successful extensions: 4332
Number of sequences better than 1.0e-05: 4
Number of HSP's better than 0.0 without gapping: 3751
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): 4326
length of database: 19,266,565
effective HSP length: 103
effective length of database: 15,792,169
effective search space used: 3347939828
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)