Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001070309.1| major histocompatibility complex, class I [B... 190 2e-48
Alignment gi|NP_001035588.1| MHC Class I JSP.1 [Bos taurus]. 75 6e-14
Alignment gi|NP_001033607.1| MHC class I heavy chain isoform 1 [Bos tauru... 74 2e-13
Alignment gi|NP_001108327.1| major histocompatibility complex, class I, A... 72 5e-13
Alignment gi|NP_001098957.1| hypothetical protein LOC100125916 [Bos tauru... 72 8e-13
Alignment gi|NP_001099086.1| non-classical MHC class I antigen [Bos tauru... 70 3e-12
Alignment gi|NP_001035644.1| major histocompatibility complex, class I, A... 69 4e-12
Alignment gi|NP_001137215.1| hypothetical protein LOC790811 [Bos taurus]. 69 7e-12
Alignment gi|NP_001180225.1| MHC class I heavy chain [Bos taurus]. 67 2e-11
Alignment gi|NP_001193388.1| major histocompatibility complex, class I, A... 67 2e-11
>ref|NP_001070309.1| major histocompatibility complex, class I [Bos taurus].
Length = 353
Score = 190 bits (482), Expect = 2e-48
Identities = 89/119 (74%), Positives = 102/119 (85%)
Frame = +1
Query: 118 MWWAPVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEE 297
M W PVLL+ FL+ L ET+ R+HSLQYFY +SE PGVP+F AFG +D+QPFIRYD+EE
Sbjct: 1 MLWGPVLLYFFLAYLPETQTRSHSLQYFYSVVSEPGPGVPSFMAFGFVDNQPFIRYDSEE 60
Query: 298 MKAKSCVQWLREEPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTMENGLNKALEHKQT 474
MKAKSCV WLREEPSYF+DETKIFTSRMKIF LNLRNVQ+YYNQT E+GLN+AL KQT
Sbjct: 61 MKAKSCVHWLREEPSYFDDETKIFTSRMKIFHLNLRNVQQYYNQTKEDGLNRALAQKQT 119
>ref|NP_001035588.1| MHC Class I JSP.1 [Bos taurus].
Length = 359
Score = 75.5 bits (184), Expect = 6e-14
Identities = 39/103 (37%), Positives = 62/103 (60%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S + L ETRA +HSL+YFY A+S G P F G +DD F+R+D++ + +
Sbjct: 7 LLLLSGVLVLTETRAGSHSLRYFYTAVSRPGLGEPRFIIVGYVDDTQFVRFDSDAGDPRV 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y++ ET+ + FRL L ++ YYNQ+
Sbjct: 67 EPRARWVEQEGPEYWDQETRKAKDHAQFFRLGLNTLRGYYNQS 109
>ref|NP_001033607.1| MHC class I heavy chain isoform 1 [Bos taurus].
Length = 361
Score = 73.6 bits (179), Expect = 2e-13
Identities = 39/103 (37%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S + L ET A +HSL+YFY +S G P F A G +DD F+R+D++ + +
Sbjct: 10 LLLLSGVLVLTETLAGSHSLRYFYTGVSRPGLGEPRFIAVGYVDDTQFVRFDSDAADPRT 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ V W+ +E P Y++ ET+ + FR+NL + YYNQ+
Sbjct: 70 EPRVPWMEQEGPEYWDRETRNLKDAAQTFRVNLNTLLGYYNQS 112
>ref|NP_001108327.1| major histocompatibility complex, class I, A [Bos taurus].
Length = 363
Score = 72.4 bits (176), Expect = 5e-13
Identities = 35/94 (37%), Positives = 58/94 (61%), Gaps = 3/94 (3%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKAKSCVQWLRE 333
L ETRA +HSL+YFY A+S G P F + G +DD F+R+D++ + + + +W+ +
Sbjct: 20 LTETRAGSHSLRYFYTAVSRPGLGEPRFISVGYVDDTQFVRFDSDAPDPRIEPTARWVEQ 79
Query: 334 E-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
E P Y++ ET+ + FR+ L ++ YYNQ+
Sbjct: 80 EGPEYWHQETQRTKDTAQFFRVYLNTLRGYYNQS 113
>ref|NP_001098957.1| hypothetical protein LOC100125916 [Bos taurus].
Length = 363
Score = 71.6 bits (174), Expect = 8e-13
Identities = 38/103 (36%), Positives = 63/103 (61%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S + L ETRA +HSL+YFY A+S G P F + G +DD F+R+D++ +
Sbjct: 10 LLLLSGVLVLTETRAGSHSLRYFYTAVSRPGLGEPRFISVGYVDDTQFVRFDSDAPNPRM 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y++ ET+ + FR++L ++ YYNQ+
Sbjct: 70 EPRARWVEQEGPEYWDRETRNSKDTAQGFRVDLNTLRGYYNQS 112
>ref|NP_001099086.1| non-classical MHC class I antigen [Bos taurus].
Length = 342
Score = 69.7 bits (169), Expect = 3e-12
Identities = 40/121 (33%), Positives = 62/121 (51%), Gaps = 7/121 (5%)
Frame = +1
Query: 163 QETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKAKSCVQWLREE 336
++TRA HS++YF A+S G P F G +DD F+R+D++ + + + +W+ +E
Sbjct: 17 RDTRAGPHSMRYFLTAVSRPGLGEPRFITVGYVDDTQFVRFDSDRPDPRMEPRARWVEDE 76
Query: 337 -PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTMENGLNKALEH----KQTGRGLRGSGA 501
P Y++ ET+I + FR NL + YYNQ+ H GR LRG
Sbjct: 77 GPEYWDQETRIQKENTQTFRANLNTLLGYYNQSEAGSHTIQWMHGCGVGSDGRLLRGYNQ 136
Query: 502 H 504
H
Sbjct: 137 H 137
>ref|NP_001035644.1| major histocompatibility complex, class I, A [Bos taurus].
Length = 362
Score = 69.3 bits (168), Expect = 4e-12
Identities = 34/94 (36%), Positives = 57/94 (60%), Gaps = 3/94 (3%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKAKSCVQWLRE 333
L ET A +HSL+YFY A+S G P F + G +DD F+R+D++ + + + +W+ +
Sbjct: 19 LTETWAGSHSLRYFYTAVSRPGLGEPRFISVGYVDDTQFVRFDSDAPDPRIEPTARWVEQ 78
Query: 334 E-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
E P Y++ ET+ + FR+ L ++ YYNQ+
Sbjct: 79 EGPEYWHQETQRTKDTAQFFRVYLNTLRGYYNQS 112
>ref|NP_001137215.1| hypothetical protein LOC790811 [Bos taurus].
Length = 361
Score = 68.6 bits (166), Expect = 7e-12
Identities = 35/103 (33%), Positives = 63/103 (61%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S + L TRA +HS++YF A+S G P + G +DD F+R+D++ +
Sbjct: 10 LLLLSGVLVLTGTRAGSHSMRYFSTAVSRPGLGEPQYLEVGYVDDTQFVRFDSDAPNPRM 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+++E P Y+++ET+ ++FR+NL ++ YYNQ+
Sbjct: 70 EPRARWVKQEGPEYWDEETQRAKGITQVFRVNLNTLRGYYNQS 112
>ref|NP_001180225.1| MHC class I heavy chain [Bos taurus].
Length = 359
Score = 67.0 bits (162), Expect = 2e-11
Identities = 35/103 (33%), Positives = 60/103 (58%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S + L ETRA +HS++YF A+S G P + G +DD F+R+D++ +
Sbjct: 7 LLLLSGVLVLTETRAGSHSMRYFSTAVSRPGLGEPRYLEVGYVDDTQFVRFDSDAPNPRI 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y++ ET+ + FR+ L ++ YYNQ+
Sbjct: 67 EPTARWVEQEGPEYWHQETQRTKDTAQFFRVYLNTLRGYYNQS 109
>ref|NP_001193388.1| major histocompatibility complex, class I, A-like [Bos taurus].
Length = 360
Score = 67.0 bits (162), Expect = 2e-11
Identities = 34/94 (36%), Positives = 55/94 (58%), Gaps = 3/94 (3%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKAKSCVQWLRE 333
L ET A +HSL+YFY A+S P F G +DD F+R+D++ + + + +W+ +
Sbjct: 19 LTETWAGSHSLRYFYTAVSRPGLEEPRFIIVGYVDDMQFVRFDSDAPDPRMEPRARWVEQ 78
Query: 334 E-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
E P Y++ T+ + FR NL N++ YYNQ+
Sbjct: 79 ERPEYWDQATQRTKDTKQTFRANLNNLRGYYNQS 112
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
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 Sequences: 33088
Number of Hits to DB: 33,661,102
Number of extensions: 914758
Number of successful extensions: 3129
Number of sequences better than 1.0e-05: 25
Number of HSP's gapped: 3109
Number of HSP's successfully gapped: 25
Length of query: 286
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 185
Effective length of database: 14,339,486
Effective search space: 2652804910
Effective search space used: 2652804910
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001014401.1| MHC class I DLA-12 [Canis lupus familiaris]. 68 1e-11
Alignment gi|NP_001014767.1| MHC class I DLA-88 [Canis lupus familiaris]. 67 3e-11
Alignment gi|NP_001014400.1| MHC class I DLA-64 [Canis lupus familiaris]. 60 2e-09
Alignment gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein... 58 1e-08
Alignment gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris]. 52 9e-07
Alignment gi|NP_001018646.1| MHC class Ib [Canis lupus familiaris]. 52 9e-07
>ref|NP_001014401.1| MHC class I DLA-12 [Canis lupus familiaris].
Length = 358
Score = 68.2 bits (165), Expect = 1e-11
Identities = 35/102 (34%), Positives = 60/102 (58%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEM--KAK 309
LL S ++ TRA +HSL+YFY ++S G P F A G +DD F+R+D++ + +
Sbjct: 8 LLLSGALAVTLTRAGSHSLRYFYTSVSRPGRGDPRFIAVGYVDDTQFVRFDSDAATGRME 67
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E P Y++ +T+ + FR++L ++ YYNQ+
Sbjct: 68 PRAPWVEQEGPEYWDPQTRTIKETARTFRVDLDTLRGYYNQS 109
>ref|NP_001014767.1| MHC class I DLA-88 [Canis lupus familiaris].
Length = 361
Score = 66.6 bits (161), Expect = 3e-11
Identities = 35/105 (33%), Positives = 62/105 (59%), Gaps = 3/105 (2%)
Frame = +1
Query: 127 APVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEM-- 300
A ++L S ++ TRA +HSL+YFY ++S G P F A G +DD F+R+D++
Sbjct: 8 ALLVLLSAALAVTLTRAGSHSLRYFYTSVSRPGRGDPRFIAVGYVDDTQFVRFDSDAATG 67
Query: 301 KAKSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ + W+ +E P Y++ ET+ + +R++L ++ YYNQ+
Sbjct: 68 RMEPRAPWMEQEGPEYWDRETRTVKETAQRYRVDLDTLRGYYNQS 112
>ref|NP_001014400.1| MHC class I DLA-64 [Canis lupus familiaris].
Length = 361
Score = 60.5 bits (145), Expect = 2e-09
Identities = 32/105 (30%), Positives = 61/105 (58%), Gaps = 3/105 (2%)
Frame = +1
Query: 127 APVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EM 300
A ++L S ++ TRA +HSL++F+ A+S G P + + G +DD F+R++++
Sbjct: 8 ALLVLLSAALAVTLTRAGSHSLRFFHTAVSRPGRGDPLYISVGYVDDTQFLRFNSDAASP 67
Query: 301 KAKSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
K + +W+ +E P ++ ++T+I + R NL+ YYNQ+
Sbjct: 68 KVEPRARWMEQEGPEFWEEQTEIAKVHAQTSRSNLQTALGYYNQS 112
>ref|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein precursor
(Zn-alpha-2-glycoprotein) (Zn-alpha-2-GP) [Canis
familiaris].
Length = 315
Score = 57.8 bits (138), Expect = 1e-08
Identities = 30/88 (34%), Positives = 48/88 (54%), Gaps = 1/88 (1%)
Frame = +1
Query: 163 QETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLREEP- 339
QET+ +SL +FY +S + G P+F A ++DQ F YD+E KA W + E
Sbjct: 21 QETQGGPYSLSFFYTGLSRPSDGFPSFQATAYLNDQDFFHYDSETGKAIPRYPWSQMEGI 80
Query: 340 SYFNDETKIFTSRMKIFRLNLRNVQRYY 423
+ E+K+ +R IF + L+++ YY
Sbjct: 81 EDWEKESKLQKAREDIFMVTLKDIMEYY 108
>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris].
Length = 381
Score = 51.6 bits (122), Expect = 9e-07
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 8/132 (6%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEE--MKA 306
+LL S L +T A +HSL++ +S G P A +DD PF R+++E +
Sbjct: 15 LLLLSGTLGLAQTSAGSHSLRFLNTVVSRPGHGEPRHWAVAYVDDTPFERFNSEREGRRP 74
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTMENGLN-----KALEHK 468
+ V+WL +E P Y+ + T + ++ R L V + Y+ G + +
Sbjct: 75 EPLVRWLEQEGPEYWEERTLNSRTCTQVLRRTLNEVSQDYSNQSRTGSHTFQTITGCDVG 134
Query: 469 QTGRGLRGSGAH 504
GR LRG H
Sbjct: 135 PDGRFLRGYQRH 146
>ref|NP_001018646.1| MHC class Ib [Canis lupus familiaris].
Length = 381
Score = 51.6 bits (122), Expect = 9e-07
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 8/132 (6%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEE--MKA 306
+LL S L +T A +HSL++ +S G P A +DD PF R+++E +
Sbjct: 15 LLLLSGTLGLAQTSAGSHSLRFLNTVVSRPGHGEPRHWAVAYVDDTPFERFNSEREGRRP 74
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTMENGLN-----KALEHK 468
+ V+WL +E P Y+ + T + ++ R L V + Y+ G + +
Sbjct: 75 EPLVRWLEQEGPEYWEERTLNSRTCTQVLRRTLNEVSQDYSNQSRTGSHTFQTITGCDVG 134
Query: 469 QTGRGLRGSGAH 504
GR LRG H
Sbjct: 135 PDGRFLRGYQRH 146
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
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 Sequences: 33336
Number of Hits to DB: 35,008,680
Number of extensions: 933927
Number of successful extensions: 3115
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 3108
Number of HSP's successfully gapped: 6
Length of query: 286
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 184
Effective length of database: 15,474,232
Effective search space: 2847258688
Effective search space used: 2847258688
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_005507.3| HLA class I histocompatibility antigen, alpha c... 72 5e-13
Alignment gi|NP_005505.2| major histocompatibility complex, class I, B pr... 71 1e-12
Alignment gi|NP_002118.1| HLA class I histocompatibility antigen, alpha c... 68 9e-12
Alignment gi|NP_001229687.1| HLA class I histocompatibility antigen, A-1 ... 68 1e-11
Alignment gi|NP_001229971.1| HLA class I histocompatibility antigen, Cw-1... 67 2e-11
Alignment gi|NP_002108.4| HLA class I histocompatibility antigen, Cw-1 al... 67 2e-11
Alignment gi|NP_002107.3| HLA class I histocompatibility antigen, A-1 alp... 65 6e-11
Alignment gi|NP_001181964.1| major histocompatibility complex class I-rel... 63 4e-10
Alignment gi|NP_001181929.1| major histocompatibility complex class I-rel... 63 4e-10
Alignment gi|NP_001181928.1| major histocompatibility complex class I-rel... 63 4e-10
>ref|NP_005507.3| HLA class I histocompatibility antigen, alpha chain E precursor
[Homo sapiens].
Length = 358
Score = 72.4 bits (176), Expect = 5e-13
Identities = 38/103 (36%), Positives = 62/103 (60%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKS 312
+LL S +L +T A +HSL+YF+ ++S G P F + G +DD F+R+DN+ +
Sbjct: 7 LLLLSEALALTQTWAGSHSLKYFHTSVSRPGRGEPRFISVGYVDDTQFVRFDNDAASPRM 66
Query: 313 C--VQWLREEPS-YFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E S Y++ ET+ +IFR+NLR ++ YYNQ+
Sbjct: 67 VPRAPWMEQEGSEYWDRETRSARDTAQIFRVNLRTLRGYYNQS 109
>ref|NP_005505.2| major histocompatibility complex, class I, B precursor [Homo
sapiens].
Length = 362
Score = 71.2 bits (173), Expect = 1e-12
Identities = 36/103 (34%), Positives = 64/103 (62%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S +L ET A +HS++YFY ++S G P F + G +DD F+R+D++ +
Sbjct: 10 LLLLSAALALTETWAGSHSMRYFYTSVSRPGRGEPRFISVGYVDDTQFVRFDSDAASPRE 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ W+ +E P Y++ T+I+ ++ + R +LRN++ YYNQ+
Sbjct: 70 EPRAPWIEQEGPEYWDRNTQIYKAQAQTDRESLRNLRGYYNQS 112
>ref|NP_002118.1| HLA class I histocompatibility antigen, alpha chain G precursor
[Homo sapiens].
Length = 338
Score = 68.2 bits (165), Expect = 9e-12
Identities = 36/102 (35%), Positives = 60/102 (58%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEM--KAK 309
LL S +L ET A +HS++YF A+S G P F A G +DD F+R+D++ + +
Sbjct: 11 LLLSGALTLTETWAGSHSMRYFSAAVSRPGRGEPRFIAMGYVDDTQFVRFDSDSACPRME 70
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E P Y+ +ET+ + + R+NL+ ++ YYNQ+
Sbjct: 71 PRAPWVEQEGPEYWEEETRNTKAHAQTDRMNLQTLRGYYNQS 112
>ref|NP_001229687.1| HLA class I histocompatibility antigen, A-1 alpha chain precursor
[Homo sapiens].
Length = 365
Score = 67.8 bits (164), Expect = 1e-11
Identities = 35/103 (33%), Positives = 60/103 (58%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S +L +T A +HS++YF+ ++S G P F A G +DD F+R+D++ K
Sbjct: 10 LLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQKM 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ W+ +E P Y++ ET+ + + R NL ++ YYNQ+
Sbjct: 70 EPRAPWIEQEGPEYWDQETRNMKAHSQTDRANLGTLRGYYNQS 112
>ref|NP_001229971.1| HLA class I histocompatibility antigen, Cw-1 alpha chain precursor
[Homo sapiens].
Length = 366
Score = 67.0 bits (162), Expect = 2e-11
Identities = 37/105 (35%), Positives = 64/105 (60%), Gaps = 3/105 (2%)
Frame = +1
Query: 127 APVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EM 300
A +LL S +L ET A +HS++YF A+S G P F + G +DD F+R+D++
Sbjct: 8 ALLLLLSGGLALTETWACSHSMRYFDTAVSRPGRGEPRFISVGYVDDTQFVRFDSDAASP 67
Query: 301 KAKSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ + W+ +E P Y++ ET+ + + + R++LRN++ YYNQ+
Sbjct: 68 RGEPRAPWVEQEGPEYWDRETQNYKRQAQADRVSLRNLRGYYNQS 112
>ref|NP_002108.4| HLA class I histocompatibility antigen, Cw-1 alpha chain precursor
[Homo sapiens].
Length = 366
Score = 67.0 bits (162), Expect = 2e-11
Identities = 37/105 (35%), Positives = 64/105 (60%), Gaps = 3/105 (2%)
Frame = +1
Query: 127 APVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EM 300
A +LL S +L ET A +HS++YF A+S G P F + G +DD F+R+D++
Sbjct: 8 ALLLLLSGGLALTETWACSHSMRYFDTAVSRPGRGEPRFISVGYVDDTQFVRFDSDAASP 67
Query: 301 KAKSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ + W+ +E P Y++ ET+ + + + R++LRN++ YYNQ+
Sbjct: 68 RGEPRAPWVEQEGPEYWDRETQKYKRQAQADRVSLRNLRGYYNQS 112
>ref|NP_002107.3| HLA class I histocompatibility antigen, A-1 alpha chain precursor
[Homo sapiens].
Length = 365
Score = 65.5 bits (158), Expect = 6e-11
Identities = 33/103 (32%), Positives = 62/103 (60%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKA 306
+LL S +L +T A +HS++YF+ ++S G P F A G +DD F+R+D++ +
Sbjct: 10 LLLLSGALALTQTWAGSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRM 69
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ W+ +E P Y++ ET+ ++ + R++L ++ YYNQ+
Sbjct: 70 EPRAPWIEQEGPEYWDQETRNVKAQSQTDRVDLGTLRGYYNQS 112
>ref|NP_001181964.1| major histocompatibility complex class I-related gene protein
isoform 4 precursor [Homo sapiens].
Length = 214
Score = 62.8 bits (151), Expect = 4e-10
Identities = 28/93 (30%), Positives = 53/93 (56%), Gaps = 2/93 (2%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLREE- 336
++ + +RTHSL+YF L +S+ GVP F + G +D P YD+ + + W+ E
Sbjct: 17 VKHSDSRTHSLRYFRLGVSDPIHGVPEFISVGYVDSHPITTYDSVTRQKEPRAPWMAENL 76
Query: 337 -PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
P ++ T++ ++F++ L+ +QR+YN +
Sbjct: 77 APDHWERYTQLLRGWQQMFKVELKRLQRHYNHS 109
>ref|NP_001181929.1| major histocompatibility complex class I-related gene protein
isoform 3 precursor [Homo sapiens].
Length = 249
Score = 62.8 bits (151), Expect = 4e-10
Identities = 28/93 (30%), Positives = 53/93 (56%), Gaps = 2/93 (2%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLREE- 336
++ + +RTHSL+YF L +S+ GVP F + G +D P YD+ + + W+ E
Sbjct: 17 VKHSDSRTHSLRYFRLGVSDPIHGVPEFISVGYVDSHPITTYDSVTRQKEPRAPWMAENL 76
Query: 337 -PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
P ++ T++ ++F++ L+ +QR+YN +
Sbjct: 77 APDHWERYTQLLRGWQQMFKVELKRLQRHYNHS 109
>ref|NP_001181928.1| major histocompatibility complex class I-related gene protein
isoform 2 precursor [Homo sapiens].
Length = 296
Score = 62.8 bits (151), Expect = 4e-10
Identities = 28/93 (30%), Positives = 53/93 (56%), Gaps = 2/93 (2%)
Frame = +1
Query: 160 LQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLREE- 336
++ + +RTHSL+YF L +S+ GVP F + G +D P YD+ + + W+ E
Sbjct: 17 VKHSDSRTHSLRYFRLGVSDPIHGVPEFISVGYVDSHPITTYDSVTRQKEPRAPWMAENL 76
Query: 337 -PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
P ++ T++ ++F++ L+ +QR+YN +
Sbjct: 77 APDHWERYTQLLRGWQQMFKVELKRLQRHYNHS 109
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
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 Sequences: 32964
Number of Hits to DB: 34,413,002
Number of extensions: 922756
Number of successful extensions: 3135
Number of sequences better than 1.0e-05: 16
Number of HSP's gapped: 3115
Number of HSP's successfully gapped: 16
Length of query: 286
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 185
Effective length of database: 14,967,800
Effective search space: 2769043000
Effective search space used: 2769043000
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_032233.2| histocompatibility 2, T region locus 24 [Mus mu... 118 7e-27
Alignment gi|XP_001474348.1| PREDICTED: HLA class I histocompatibility an... 116 3e-26
Alignment gi|NP_034523.1| histocompatibility 2, Q region locus 5 [Mus mus... 79 4e-15
Alignment gi|NP_001170938.1| predicted gene 7030 [Mus musculus]. 75 5e-14
Alignment gi|NP_001185489.1| H-2 class I histocompatibility antigen, Q7 a... 74 1e-13
Alignment gi|NP_034524.3| H-2 class I histocompatibility antigen, Q7 alph... 74 1e-13
Alignment gi|NP_001185490.1| H-2 class I histocompatibility antigen, Q7 a... 74 1e-13
Alignment gi|XP_003085233.1| PREDICTED: h-2 class I histocompatibility an... 74 1e-13
Alignment gi|XP_003085236.1| PREDICTED: h-2 class I histocompatibility an... 74 1e-13
Alignment gi|XP_003085234.1| PREDICTED: h-2 class I histocompatibility an... 74 1e-13
>ref|NP_032233.2| histocompatibility 2, T region locus 24 [Mus musculus].
Length = 363
Score = 118 bits (295), Expect = 7e-27
Identities = 55/103 (53%), Positives = 74/103 (71%)
Frame = +1
Query: 124 WAPVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMK 303
WA L+ LS Q+ AR+HSL Y Y A++E PGVP+F A G +D+QPFI YD+ MK
Sbjct: 2 WA--LIFWLLSHPQDGGARSHSLHYCYSAVTEPGPGVPSFFASGFLDNQPFIHYDSRSMK 59
Query: 304 AKSCVQWLREEPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
A+ C WLRE YF ET++FT+RMKIF+L+LRN+++YYN +
Sbjct: 60 AEPCADWLRENAQYFTHETEVFTNRMKIFQLSLRNIRQYYNSS 102
>ref|XP_001474348.1| PREDICTED: HLA class I histocompatibility antigen, B-7 alpha
chain-like [Mus musculus].
Length = 486
Score = 116 bits (290), Expect = 3e-26
Identities = 54/103 (52%), Positives = 73/103 (70%)
Frame = +1
Query: 124 WAPVLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMK 303
WA L+ LS + AR+HSL Y Y A++E PGVP+F A G +D+QPFI YD+ MK
Sbjct: 2 WA--LIFWLLSHPHDGGARSHSLHYCYSAVTEPGPGVPSFFASGFLDNQPFIHYDSRSMK 59
Query: 304 AKSCVQWLREEPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
A+ C WLRE YF ET++FT+RMKIF+L+LRN+++YYN +
Sbjct: 60 AEPCADWLRENAQYFTHETEVFTNRMKIFQLSLRNIRQYYNSS 102
>ref|NP_034523.1| histocompatibility 2, Q region locus 5 [Mus musculus].
Length = 349
Score = 79.0 bits (193), Expect = 4e-15
Identities = 41/105 (39%), Positives = 64/105 (60%), Gaps = 3/105 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L +TRA +HSL+YFY A+S G P F + G +DD F R+D+ E A
Sbjct: 10 LLLLAAALTLTQTRAGSHSLRYFYTAVSRPNFGEPRFISVGYVDDTQFQRFDSAAENASA 69
Query: 307 KSCVQWLRE-EPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTME 438
K C W+++ +P Y+ ++TKI + + FR +LR YYNQ+ +
Sbjct: 70 KPCAPWMKQKKPEYWEEQTKIAKNNKQWFRGSLRTALNYYNQSAD 114
>ref|NP_001170938.1| predicted gene 7030 [Mus musculus].
Length = 285
Score = 75.5 bits (184), Expect = 5e-14
Identities = 43/108 (39%), Positives = 62/108 (57%), Gaps = 5/108 (4%)
Frame = +1
Query: 130 PVLLHSFLSSLQETRA--RTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRY--DNEE 297
P+LL ++L TRA +HSL+YF AMS G P FTA G +DD F+R+ D+E
Sbjct: 8 PLLLLLLATALAPTRAGKSSHSLRYFATAMSRPGLGEPRFTAVGYVDDTQFMRFDSDSEN 67
Query: 298 MKAKSCVQWLRE-EPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQTME 438
+A+ C W+ + EP Y+ ET+ F + FR L N+ YNQ+ +
Sbjct: 68 PRAEPCKPWVEQMEPEYWEQETRKFKEHTQNFRTCLYNLLHLYNQSQD 115
>ref|NP_001185489.1| H-2 class I histocompatibility antigen, Q7 alpha chain isoform 2
precursor [Mus musculus].
Length = 310
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
>ref|NP_034524.3| H-2 class I histocompatibility antigen, Q7 alpha chain isoform 1
precursor [Mus musculus].
Length = 334
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
>ref|NP_001185490.1| H-2 class I histocompatibility antigen, Q7 alpha chain isoform 3
precursor [Mus musculus].
Length = 215
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
>ref|XP_003085233.1| PREDICTED: h-2 class I histocompatibility antigen, Q7 alpha
chain-like isoform 1 [Mus musculus].
Length = 334
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
>ref|XP_003085236.1| PREDICTED: h-2 class I histocompatibility antigen, Q7 alpha
chain-like isoform 4 [Mus musculus].
Length = 224
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
>ref|XP_003085234.1| PREDICTED: h-2 class I histocompatibility antigen, Q7 alpha
chain-like isoform 2 [Mus musculus].
Length = 310
Score = 74.3 bits (181), Expect = 1e-13
Identities = 41/103 (39%), Positives = 61/103 (59%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKA 306
+LL + +L ETRA HSLQYF+ A+S G P F + G +DD F+R+D+ E +
Sbjct: 7 LLLVAAALTLIETRAGQHSLQYFHTAVSRPGLGEPWFISVGYVDDTQFVRFDSDAENPRM 66
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ +W+ +E P Y+ ET+I + FR +LR Q YYNQ+
Sbjct: 67 EPRARWMEQEGPEYWERETQIAKGHEQSFRGSLRTAQSYYNQS 109
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
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 Sequences: 30036
Number of Hits to DB: 29,266,326
Number of extensions: 779820
Number of successful extensions: 2578
Number of sequences better than 1.0e-05: 94
Number of HSP's gapped: 2486
Number of HSP's successfully gapped: 94
Length of query: 286
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 186
Effective length of database: 12,613,959
Effective search space: 2346196374
Effective search space used: 2346196374
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_003361021.1| PREDICTED: class I histocompatibility antige... 74 1e-13
Alignment gi|NP_001107528.1| MHC class I antigen 5 [Sus scrofa]. 70 2e-12
Alignment gi|XP_003356639.1| PREDICTED: patr class I histocompatibility a... 69 3e-12
Alignment gi|NP_001090896.1| MHC class I antigen 3 [Sus scrofa]. 65 4e-11
Alignment gi|NP_001107175.1| MHC class I antigen 8 [Sus scrofa]. 64 1e-10
Alignment gi|XP_003128290.1| PREDICTED: patr class I histocompatibility a... 62 4e-10
Alignment gi|NP_001090900.1| MHC class I antigen 1 [Sus scrofa]. 61 9e-10
Alignment gi|XP_003130403.1| PREDICTED: major histocompatibility complex ... 61 9e-10
Alignment gi|XP_003130402.1| PREDICTED: major histocompatibility complex ... 61 9e-10
Alignment gi|XP_003357615.1| PREDICTED: major histocompatibility complex ... 61 9e-10
>ref|XP_003361021.1| PREDICTED: class I histocompatibility antigen, Gogo-C*0101/C*0102
alpha chain-like [Sus scrofa].
Length = 374
Score = 73.6 bits (179), Expect = 1e-13
Identities = 37/85 (43%), Positives = 51/85 (60%), Gaps = 1/85 (1%)
Frame = +1
Query: 181 THSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLRE-EPSYFNDE 357
THSL+Y YLA+SE PG+P F A G +DDQ FIRYD+ KA+ W+ + Y+ E
Sbjct: 41 THSLRYHYLALSEPGPGLPQFLAVGYVDDQVFIRYDSRRGKAEPQAPWMAHMDAQYWEKE 100
Query: 358 TKIFTSRMKIFRLNLRNVQRYYNQT 432
TK K+ ++ + V YYNQ+
Sbjct: 101 TKKQRIWAKVQQVEMWTVMGYYNQS 125
>ref|NP_001107528.1| MHC class I antigen 5 [Sus scrofa].
Length = 361
Score = 69.7 bits (169), Expect = 2e-12
Identities = 37/102 (36%), Positives = 57/102 (55%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKS- 312
LL S +L TRA HSL Y + ++S G P F A G +DD P +R+D++ K +
Sbjct: 8 LLLSGALALTGTRAGPHSLSYLFTSVSRPGRGEPRFIAVGCVDDTPLVRFDSDARKPRKE 67
Query: 313 -CVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E P Y+++ET+I + R NL ++ YYNQ+
Sbjct: 68 PRAWWIEQEGPEYWDEETRISKDNAQTLRGNLNTLRGYYNQS 109
>ref|XP_003356639.1| PREDICTED: patr class I histocompatibility antigen, A-126 alpha
chain-like [Sus scrofa].
Length = 361
Score = 68.9 bits (167), Expect = 3e-12
Identities = 38/102 (37%), Positives = 59/102 (57%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAK-- 309
LL S +L T+A HSL YFY A+S G F G +DD F+R+D++ AK
Sbjct: 8 LLLSGALALTGTQAGPHSLSYFYTAVSRPDRGDSRFFIVGYVDDTQFVRFDSDAPNAKME 67
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
QW+++E P Y++ ET+I + +R+ L+ ++ YYNQ+
Sbjct: 68 PRAQWIKQEGPEYWDRETQISKETAQTYRVGLKTLRGYYNQS 109
>ref|NP_001090896.1| MHC class I antigen 3 [Sus scrofa].
Length = 361
Score = 65.5 bits (158), Expect = 4e-11
Identities = 36/102 (35%), Positives = 58/102 (56%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNE--EMKAK 309
LL S +L TR HSL+YF A+S G P F + G +DD F+R+D++ + +
Sbjct: 8 LLLSGTLALTGTREGPHSLRYFDTAVSRPDRGKPRFISVGYVDDTQFVRFDSDAPNPRME 67
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E Y+++ET+ + FR+NL N++ YYNQ+
Sbjct: 68 PRAPWIEQEGQEYWDEETRNAMGSAQTFRVNLNNLRGYYNQS 109
>ref|NP_001107175.1| MHC class I antigen 8 [Sus scrofa].
Length = 355
Score = 63.5 bits (153), Expect = 1e-10
Identities = 34/103 (33%), Positives = 59/103 (57%), Gaps = 3/103 (2%)
Frame = +1
Query: 133 VLLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEM--KA 306
+LL L +L ET A +HS++YF+ +S G P + G +DD F+R+D+E +
Sbjct: 5 MLLLVLLGALTETWAGSHSMRYFHTVVSRPGYGEPRYLEVGYVDDTQFVRFDSEAQNPRM 64
Query: 307 KSCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
+ W+ +E Y+++ET+ ++ FR NL ++ YYNQ+
Sbjct: 65 EPRAPWVEQEGQEYWDEETQRVKDLVQNFRRNLMILRGYYNQS 107
>ref|XP_003128290.1| PREDICTED: patr class I histocompatibility antigen, A-126 alpha
chain-like [Sus scrofa].
Length = 361
Score = 62.0 bits (149), Expect = 4e-10
Identities = 35/102 (34%), Positives = 56/102 (54%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDN--EEMKAK 309
LL S +L T+A HSL YFY A+S G F A G +DD F+R+DN + +
Sbjct: 8 LLLSGTLALTGTQAGPHSLSYFYTAVSRPDRGDSRFIAVGYVDDTQFVRFDNYAPNPRME 67
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
V W+++E Y+++ET+ + + + L ++ YYNQ+
Sbjct: 68 PRVPWIQQEGQDYWDEETRKVKDNAQTYGVGLNTLRGYYNQS 109
>ref|NP_001090900.1| MHC class I antigen 1 [Sus scrofa].
Length = 361
Score = 60.8 bits (146), Expect = 9e-10
Identities = 34/102 (33%), Positives = 58/102 (56%), Gaps = 3/102 (2%)
Frame = +1
Query: 136 LLHSFLSSLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEM--KAK 309
LL S +L T+A HSL YFY A+S G F G +DD F+R+D++ + + +
Sbjct: 8 LLLSGTLALTGTQAGPHSLSYFYTAVSRPDLGDSRFIEVGYVDDTQFVRFDSDALNPRME 67
Query: 310 SCVQWLREE-PSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
W+ +E Y+++ET+ +I R++L+ ++ YYNQ+
Sbjct: 68 PRAPWIEKEGQDYWDEETRKVKETAQINRVDLKTLRGYYNQS 109
>ref|XP_003130403.1| PREDICTED: major histocompatibility complex class I-related gene
protein-like isoform 2 [Sus scrofa].
Length = 300
Score = 60.8 bits (146), Expect = 9e-10
Identities = 28/94 (29%), Positives = 52/94 (55%), Gaps = 2/94 (2%)
Frame = +1
Query: 157 SLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLRE- 333
+++ + ARTHSL+YF L +S+ +P F + G +D P YD+ + + W+ E
Sbjct: 9 TVKHSDARTHSLRYFRLGISDPGHEMPEFISVGYVDSYPITTYDSVSRQKEPRAPWMAEN 68
Query: 334 -EPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
EP ++ T++ + F+ L+ +QR+YN +
Sbjct: 69 LEPDHWERYTQLLRGWQQTFKAELKQLQRHYNHS 102
>ref|XP_003130402.1| PREDICTED: major histocompatibility complex class I-related gene
protein-like isoform 1 [Sus scrofa].
Length = 337
Score = 60.8 bits (146), Expect = 9e-10
Identities = 28/94 (29%), Positives = 52/94 (55%), Gaps = 2/94 (2%)
Frame = +1
Query: 157 SLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLRE- 333
+++ + ARTHSL+YF L +S+ +P F + G +D P YD+ + + W+ E
Sbjct: 9 TVKHSDARTHSLRYFRLGISDPGHEMPEFISVGYVDSYPITTYDSVSRQKEPRAPWMAEN 68
Query: 334 -EPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
EP ++ T++ + F+ L+ +QR+YN +
Sbjct: 69 LEPDHWERYTQLLRGWQQTFKAELKQLQRHYNHS 102
>ref|XP_003357615.1| PREDICTED: major histocompatibility complex class I-related gene
protein-like isoform 2 [Sus scrofa].
Length = 300
Score = 60.8 bits (146), Expect = 9e-10
Identities = 28/94 (29%), Positives = 52/94 (55%), Gaps = 2/94 (2%)
Frame = +1
Query: 157 SLQETRARTHSLQYFYLAMSEAAPGVPAFTAFGVIDDQPFIRYDNEEMKAKSCVQWLRE- 333
+++ + ARTHSL+YF L +S+ +P F + G +D P YD+ + + W+ E
Sbjct: 9 TVKHSDARTHSLRYFRLGISDPGHEMPEFISVGYVDSYPITTYDSVSRQKEPRAPWMAEN 68
Query: 334 -EPSYFNDETKIFTSRMKIFRLNLRNVQRYYNQT 432
EP ++ T++ + F+ L+ +QR+YN +
Sbjct: 69 LEPDHWERYTQLLRGWQQTFKAELKQLQRHYNHS 102
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
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 Sequences: 24897
Number of Hits to DB: 21,644,593
Number of extensions: 587905
Number of successful extensions: 1946
Number of sequences better than 1.0e-05: 16
Number of HSP's gapped: 1932
Number of HSP's successfully gapped: 16
Length of query: 286
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 188
Effective length of database: 8,904,026
Effective search space: 1673956888
Effective search space used: 1673956888
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 33 (17.3 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
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= 20110601C-000637
(860 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Sscrofa_Chr07 1352 0.0
>Sscrofa_Chr07
|| Length = 134764511
Score = 1352 bits (682), Expect = 0.0
Identities = 682/682 (100%)
Strand = Plus / Minus
Query: 179 gaacacattctctgcaatatttctacttggccatgtctgaggctgcaccaggtgtccctg 238
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679913 gaacacattctctgcaatatttctacttggccatgtctgaggctgcaccaggtgtccctg 26679854
Query: 239 catttactgctttcggagtcatagacgaccagcccttcattcgctatgacaatgaggaga 298
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679853 catttactgctttcggagtcatagacgaccagcccttcattcgctatgacaatgaggaga 26679794
Query: 299 tgaaggcaaaatcttgtgttcagtggttgagggaggagccaagttacttcaatgatgaga 358
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679793 tgaaggcaaaatcttgtgttcagtggttgagggaggagccaagttacttcaatgatgaga 26679734
Query: 359 ccaagatcttcaccagtcggatgaagatcttccgcttaaatctgaggaacgtgcagcgat 418
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679733 ccaagatcttcaccagtcggatgaagatcttccgcttaaatctgaggaacgtgcagcgat 26679674
Query: 419 attacaaccaaaccatggagaatgggctgaacaaagccctggagcacaagcaaacaggta 478
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679673 attacaaccaaaccatggagaatgggctgaacaaagccctggagcacaagcaaacaggta 26679614
Query: 479 ggggcctgaggggaagcggtgctcaccgagtcgcaccgatcctcaggggagaaaggctct 538
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679613 ggggcctgaggggaagcggtgctcaccgagtcgcaccgatcctcaggggagaaaggctct 26679554
Query: 539 ctcaacaagtgttcctgtagaatcagactggcgctggagaacgtgtgcaaggtatcactt 598
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679553 ctcaacaagtgttcctgtagaatcagactggcgctggagaacgtgtgcaaggtatcactt 26679494
Query: 599 gagagtgagagaagacctagtctggtcactatggggtagggtctgtttgacatgaattaa 658
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679493 gagagtgagagaagacctagtctggtcactatggggtagggtctgtttgacatgaattaa 26679434
Query: 659 taactaataaatagattaattaagcagtttgggtcatggacgtatgtatcttttgggtgc 718
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679433 taactaataaatagattaattaagcagtttgggtcatggacgtatgtatcttttgggtgc 26679374
Query: 719 tgcgggcagggatccagaaaagtacgacctggtgtttgttttcaaagagcttacaattct 778
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679373 tgcgggcagggatccagaaaagtacgacctggtgtttgttttcaaagagcttacaattct 26679314
Query: 779 tacggttcgtatgatgagcagactcacacttctgtgaaaactttattgaccctttggtgc 838
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26679313 tacggttcgtatgatgagcagactcacacttctgtgaaaactttattgaccctttggtgc 26679254
Query: 839 agacccagaaatgtcaaagacc 860
||||||||||||||||||||||
Sbjct: 26679253 agacccagaaatgtcaaagacc 26679232
Score = 355 bits (179), Expect = 3e-95
Identities = 179/179 (100%)
Strand = Plus / Minus
Query: 1 cttctaaggcaccaccccgctggggagctgcagcagaaccagctctctcctcgctgtgtc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26684662 cttctaaggcaccaccccgctggggagctgcagcagaaccagctctctcctcgctgtgtc 26684603
Query: 61 cctcagccgcccggttatgcccgggaaggttgggacccagtcacagcagctgaggcgatg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26684602 cctcagccgcccggttatgcccgggaaggttgggacccagtcacagcagctgaggcgatg 26684543
Query: 121 tggtgggctcccgtcctcttacactccttcctgagctctctgcaggagacccgagcccg 179
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 26684542 tggtgggctcccgtcctcttacactccttcctgagctctctgcaggagacccgagcccg 26684484
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 24,616,687
Number of extensions: 162
Number of successful extensions: 162
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 162
Number of HSP's successfully gapped: 2
Length of query: 860
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 839
Effective length of database: 2,808,413,156
Effective search space: 2356258637884
Effective search space used: 2356258637884
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)