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-000760
(1178 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_001012693.1| major histocompatibility complex, class II, ... 370 e-102
Alignment gi|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos tauru... 362 e-100
Alignment gi|NP_001013619.3| major histocompatibility complex, class II, ... 360 1e-99
Alignment gi|NP_001073045.1| major histocompatibility complex, class II, ... 348 5e-96
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 333 2e-91
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 301 7e-82
Alignment gi|NP_001192849.1| HLA class II histocompatibility antigen, DO ... 236 3e-62
Alignment gi|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos ta... 236 3e-62
Alignment gi|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos ta... 223 2e-58
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 216 3e-56
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha 5 [Bos
taurus].
Length = 255
Score = 370 bits (950), Expect = e-102
Identities = 181/255 (70%), Positives = 204/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MV R L+ G LALTT+MS GGEDI ADHV YG+++YQSYGPSG +THEFDGDE+FYV
Sbjct: 1 MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEKKET W+LPLFS SFDPQ ALRNIA +K +++ +TK SN+TAA N+VPEVTVFSK
Sbjct: 61 DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSV +G SETSFL ++D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCTLGLTMGLVGITVGTIFII 240
Query: 848 QGLRSGGPSRHQGSL 892
QGLRSG PSRHQG L
Sbjct: 241 QGLRSGDPSRHQGPL 255
>ref|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos taurus].
Length = 254
Score = 362 bits (929), Expect = e-100
Identities = 179/255 (70%), Positives = 199/255 (78%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MV R L+ GA ALTT+MS CGGEDI ADHV SYG + QS+GPS +T EFDGD+ FYV
Sbjct: 1 MVLNRALILGAFALTTMMSPCGGEDIVADHVGSYGTVISQSHGPSDQYTQEFDGDKLFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEKKETVWRLP+FS+F SFDPQ LRNIA KHNLNI+ K SN A+N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPMFSQFASFDPQAILRNIAISKHNLNIMIKYSNFIPAINEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SP++LGQPNTLICH+D+ FPPVINITWLKNGH+V +G SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPMVLGQPNTLICHMDN-FPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 179
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDDD YDCKVEHW LD+PLLKHWEPE+PAPMSELTET
Sbjct: 180 PSDDDVYDCKVEHWSLDEPLLKHWEPEVPAPMSELTETVVCALRLTVGLVGIVVGTIFII 239
Query: 848 QGLRSGGPSRHQGSL 892
QGLRSGG SRHQG L
Sbjct: 240 QGLRSGGASRHQGPL 254
>ref|NP_001013619.3| major histocompatibility complex, class II, DQ alpha, type 1 [Bos
taurus].
Length = 255
Score = 360 bits (924), Expect = 1e-99
Identities = 174/255 (68%), Positives = 199/255 (78%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MV R L+ GAL LTT+ S CGGEDI ADH+ +YG + YQS+GPSG + HEFDGDE FYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHIGTYGADFYQSHGPSGQYIHEFDGDELFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DL KKETVW+LP+F E TSF+ Q AL IA KH L+++TKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWQLPMFGELTSFEAQDALNEIAKAKHTLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SP++LGQPNTLICHVD+IFPPVINITWL+NGH+V +G SETSFL K+D+SFLKI YLTFL
Sbjct: 121 SPMMLGQPNTLICHVDNIFPPVINITWLRNGHAVTEGVSETSFLPKSDYSFLKIGYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLII 240
Query: 848 QGLRSGGPSRHQGSL 892
+GLRSGG SRHQG L
Sbjct: 241 RGLRSGGASRHQGPL 255
>ref|NP_001073045.1| major histocompatibility complex, class II, DQ alpha, type 3 [Bos
taurus].
Length = 254
Score = 348 bits (893), Expect = 5e-96
Identities = 171/255 (67%), Positives = 196/255 (76%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MV R L+ GAL LTT+ S CGGEDI ADHV +YG + YQS+GPSG + H+FDGDEEFYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHVGTYGTDFYQSHGPSGQYIHQFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEK+E VWRLP+F + F PQGALRNIA KHNL+++TK N T +N+VPEVTVFSK
Sbjct: 61 DLEKEEAVWRLPMFDKLR-FHPQGALRNIAIAKHNLDVLTKLYNFTPVINEVPEVTVFSK 119
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV+L QPNTLICHVD+IFPPVINITWL+NGHSV + SETSFL ++D+S+LKISYL F
Sbjct: 120 SPVMLSQPNTLICHVDNIFPPVINITWLRNGHSVTEHVSETSFLLRSDYSYLKISYLPFR 179
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLIT 239
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 240 RGLRSSGASRHQGPL 254
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 2 [Bos
taurus].
Length = 268
Score = 333 bits (854), Expect = 2e-91
Identities = 157/204 (76%), Positives = 177/204 (86%), Gaps = 1/204 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MV R L+ GALALTT+MS+ GGEDI ADHV SYG +YQS+GPSG +T EFDGDE FYV
Sbjct: 1 MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DL KKETVWRLP+FS+F FDPQ AL IAT KHNL+++TKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV+LGQPNTLICHVD+IFPPVINITWLKNGH+V +G SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHW 739
PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus].
Length = 253
Score = 301 bits (771), Expect = 7e-82
Identities = 144/214 (67%), Positives = 169/214 (78%), Gaps = 1/214 (0%)
Frame = +2
Query: 143 RVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEK 322
+ L+ AL L T+MS GGEDI ADHV +YG NVYQ+YG SG FT EFDGDE FYVDL K
Sbjct: 3 KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62
Query: 323 KETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVI 502
KETVWRLP FS T F+ Q ALRNI K NL+I+ K S+ T A +++PEV VF KS V+
Sbjct: 63 KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122
Query: 503 LGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDD 679
LG PNTLIC VD+IFPPVINITW NGH V +G +ET+F K+DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182
Query: 680 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 781
DFYDC+VEHWGL++PL+KHWEPEIP P SELTET
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTET 216
>ref|NP_001192849.1| HLA class II histocompatibility antigen, DO alpha chain [Bos
taurus].
Length = 250
Score = 236 bits (602), Expect = 3e-62
Identities = 116/212 (54%), Positives = 146/212 (68%), Gaps = 1/212 (0%)
Frame = +2
Query: 149 LMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKE 328
L+ G L T++S I ADH+ SYG YQSY +G FT++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 329 TVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILG 508
VWRLP F F FDPQ L +IA +K +L + KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 509 QPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDF 685
+PN LIC VD IFPPVINITWL+NGH V +G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 686 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 781
YDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218
>ref|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 250
Score = 236 bits (602), Expect = 3e-62
Identities = 116/212 (54%), Positives = 146/212 (68%), Gaps = 1/212 (0%)
Frame = +2
Query: 149 LMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKE 328
L+ G L T++S I ADH+ SYG YQSY +G FT++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 329 TVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILG 508
VWRLP F F FDPQ L +IA +K +L + KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 509 QPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDF 685
+PN LIC VD IFPPVINITWL+NGH V +G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 686 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 781
YDCKVEHWGLD+PL +HWEP++P + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218
>ref|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 224
Score = 223 bits (569), Expect = 2e-58
Identities = 111/198 (56%), Positives = 137/198 (69%), Gaps = 1/198 (0%)
Frame = +2
Query: 149 LMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKE 328
L+ G L T++S I ADH+ SYG YQSY +G FT++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 329 TVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILG 508
VWRLP F F FDPQ L +IA +K +L + KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 509 QPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDF 685
+PN LIC VD IFPPVINITWL+NGH V +G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 686 YDCKVEHWGLDKPLLKHW 739
YDCKVEHWGLD+PL +HW
Sbjct: 187 YDCKVEHWGLDQPLFQHW 204
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus].
Length = 253
Score = 216 bits (550), Expect = 3e-56
Identities = 104/173 (60%), Positives = 125/173 (72%), Gaps = 1/173 (0%)
Frame = +2
Query: 263 SGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSN 442
S F +FDGDE F+VD+ KKETVWRLP F F SF+ QGAL N+A +K NL+I+ KRSN
Sbjct: 43 SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102
Query: 443 NTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFL 619
NT N PEVT+ PV LG+PNTLIC +D PPVI++TWL+NG V G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162
Query: 620 SKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 778
+NDH F K YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTE 215
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: 39,255,063
Number of extensions: 990257
Number of successful extensions: 3062
Number of sequences better than 1.0e-05: 31
Number of HSP's gapped: 3010
Number of HSP's successfully gapped: 31
Length of query: 392
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 288
Effective length of database: 14,240,222
Effective search space: 4101183936
Effective search space used: 4101183936
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: 35 (18.1 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-000760
(1178 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_001011726.1| major histocompatibility complex, class II, ... 380 e-105
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 224 9e-59
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam... 224 1e-58
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 102 5e-22
Alignment gi|NP_001041564.1| major histocompatibility complex, class II, ... 70 4e-12
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 69 1e-11
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 69 1e-11
Alignment gi|NP_001014768.1| DLA class II histocompatibility antigen, DR-... 62 1e-09
Alignment gi|NP_001014403.1| major histocompatibility complex, class II, ... 60 5e-09
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 59 1e-08
>ref|NP_001011726.1| major histocompatibility complex, class II, DQ alpha [Canis lupus
familiaris].
Length = 255
Score = 380 bits (975), Expect = e-105
Identities = 185/255 (72%), Positives = 205/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ RVL+ G L LT +MS GGE+I ADHVA+YG+NVYQSYGPSG +THEFDGDEEFYV
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEKKETVWRLP+FS F SFDPQGALRN+A +K NLNI+TKRSN TAA N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV+LGQPNTLIC VD+IFPPVIN+TWLKN HSV +G SETSF +K DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTET
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240
Query: 848 QGLRSGGPSRHQGSL 892
QGLRSGG SRHQG L
Sbjct: 241 QGLRSGGTSRHQGPL 255
>ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 11 [Canis familiaris].
Length = 227
Score = 224 bits (572), Expect = 9e-59
Identities = 106/195 (54%), Positives = 137/195 (70%), Gaps = 8/195 (4%)
Frame = +2
Query: 221 VASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIA 400
+ SYG YQSYG SG F HEFDG++ F V+L+K++ VWRLP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 401 TLKHNLNIVTKRSNNTAAVNQV-------PEVTVFSKSPVILGQPNTLICHVDSIFPPVI 559
+K +L+++ +RSN T A+N P V V K V LGQPN LIC VD+IFPPVI
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120
Query: 560 NITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 736
NITWL+NG + +G ++TSF S+ DH F K YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180
Query: 737 WEPEIPAPMSELTET 781
WEP++P P+ + ET
Sbjct: 181 WEPQVPIPVPDTIET 195
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis lupus familiaris].
Length = 254
Score = 224 bits (571), Expect = 1e-58
Identities = 110/179 (61%), Positives = 128/179 (71%), Gaps = 1/179 (0%)
Frame = +2
Query: 245 YQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNI 424
Y + PSG F +FDGDE F+VD+EKKETVWRL F F SF+ QGAL NIA K NL+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 425 VTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGF 601
+ KRSN+T N PEVTV S +PV LG+PN LIC +D PPVIN+TWL+NG+ V G
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157
Query: 602 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 778
SET FL + DH F K YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTE 216
>ref|XP_532104.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
alpha chain precursor (MHC class II antigen DOA) (MHC DZ
alpha) (MHC DN-alpha) isoform 10 [Canis familiaris].
Length = 142
Score = 102 bits (255), Expect = 5e-22
Identities = 51/108 (47%), Positives = 70/108 (64%)
Frame = +2
Query: 206 IAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGA 385
I ADH+ SYG YQSYG SG F HEFDG++ F V+L+K++ VWRLP F FDPQ
Sbjct: 12 IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71
Query: 386 LRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLIC 529
L +IA +K +L+++ +RSN T A+N+ P+V + + TLIC
Sbjct: 72 LASIAVIKAHLDVLVERSNRTRAINE-PQVPIPVPDTI-----ETLIC 113
>ref|NP_001041564.1| major histocompatibility complex, class II, DM alpha [Canis lupus
familiaris].
Length = 170
Score = 70.1 bits (170), Expect = 4e-12
Identities = 39/130 (30%), Positives = 62/130 (47%)
Frame = +2
Query: 389 RNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINIT 568
R A L L+++ + A P V VF+ P+ G+PN L+C + ++FPP + +
Sbjct: 12 RQGAALLRLLHLLWLLPYSRTAPEGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVN 71
Query: 569 WLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 748
W + V+G T + + SF SYL F P+ D + C V H + + +W P
Sbjct: 72 WWHHLDPVEGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPH 131
Query: 749 IPAPMSELTE 778
P S+L E
Sbjct: 132 DALP-SDLLE 140
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris].
Length = 125
Score = 68.6 bits (166), Expect = 1e-11
Identities = 33/97 (34%), Positives = 52/97 (53%)
Frame = +2
Query: 452 AVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKND 631
AV P++ V+S+ P G+PN L C+V PP I I LKNG +K +T D
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKA-EQTDLSFSKD 85
Query: 632 HSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 742
+F + + F P++ D + C+V+H L +P + W+
Sbjct: 86 WTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris].
Length = 125
Score = 68.6 bits (166), Expect = 1e-11
Identities = 33/97 (34%), Positives = 52/97 (53%)
Frame = +2
Query: 452 AVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKND 631
AV P++ V+S+ P G+PN L C+V PP I I LKNG +K +T D
Sbjct: 27 AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKA-EQTDLSFSKD 85
Query: 632 HSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 742
+F + + F P++ D + C+V+H L +P + W+
Sbjct: 86 WTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|NP_001014768.1| DLA class II histocompatibility antigen, DR-1 beta chain precursor
[Canis lupus familiaris].
Length = 266
Score = 61.6 bits (148), Expect = 1e-09
Identities = 33/123 (26%), Positives = 55/123 (44%), Gaps = 1/123 (0%)
Frame = +2
Query: 407 KHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGH 586
+HN ++ + T P VTV+ L N L+C V+ +P I + WL+NG
Sbjct: 109 RHNYGVI---ESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQ 165
Query: 587 SVK-GFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 763
+ G T + D +F + L +P + Y C+VEH L P+ W + +
Sbjct: 166 EEEAGVVSTGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQ 225
Query: 764 SEL 772
S++
Sbjct: 226 SKM 228
>ref|NP_001014403.1| major histocompatibility complex, class II, DQ beta 1 [Canis lupus
familiaris].
Length = 269
Score = 59.7 bits (143), Expect = 5e-09
Identities = 29/103 (28%), Positives = 43/103 (41%), Gaps = 1/103 (0%)
Frame = +2
Query: 467 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG-HSVKGFSETSFLSKNDHSFL 643
P VT+F +L N L+C V +P I + W +N G T + D +F
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188
Query: 644 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 772
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231
>ref|XP_849737.1| PREDICTED: similar to HLA class II histocompatibility antigen, DM
beta chain precursor (MHC class II antigen DMB) [Canis
familiaris].
Length = 263
Score = 58.5 bits (140), Expect = 1e-08
Identities = 32/101 (31%), Positives = 51/101 (50%), Gaps = 2/101 (1%)
Frame = +2
Query: 467 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSK--NDHSF 640
P V V +P + L C+V +P + I+W KNG V S +++ D ++
Sbjct: 115 PTVQVAKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTY 174
Query: 641 LKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 763
+S+L PS +D Y C VEH G +P+ + W P + +PM
Sbjct: 175 QTVSHLATTPSYEDTYTCVVEHIGAPEPVCEDWTPGL-SPM 214
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: 41,019,983
Number of extensions: 1024135
Number of successful extensions: 3240
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 3224
Number of HSP's successfully gapped: 11
Length of query: 392
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 287
Effective length of database: 15,374,224
Effective search space: 4412402288
Effective search space used: 4412402288
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: 35 (18.1 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-000760
(1178 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|XP_003119375.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
Alignment gi|XP_003119374.1| PREDICTED: HLA class II histocompatibility a... 385 e-107
Alignment gi|XP_003120319.1| PREDICTED: HLA class II histocompatibility a... 379 e-105
Alignment gi|XP_003120317.1| PREDICTED: HLA class II histocompatibility a... 379 e-105
Alignment gi|NP_002113.2| HLA class II histocompatibility antigen, DQ alp... 372 e-103
Alignment gi|XP_003119376.1| PREDICTED: HLA class II histocompatibility a... 371 e-103
Alignment gi|NP_064440.1| HLA class II histocompatibility antigen, DQ alp... 370 e-102
Alignment gi|XP_003120318.1| PREDICTED: HLA class II histocompatibility a... 365 e-101
Alignment gi|XP_003119377.1| PREDICTED: HLA class II histocompatibility a... 347 1e-95
Alignment gi|XP_003120320.1| PREDICTED: HLA class II histocompatibility a... 339 3e-93
>ref|XP_003119375.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 255
Score = 385 bits (989), Expect = e-107
Identities = 189/255 (74%), Positives = 206/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG ++HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003119374.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 255
Score = 385 bits (989), Expect = e-107
Identities = 189/255 (74%), Positives = 206/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG ++HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255
>ref|XP_003120319.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 254
Score = 379 bits (973), Expect = e-105
Identities = 189/255 (74%), Positives = 205/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG FTHEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF FDPQ AL NIA LKHNLNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRL-RFDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|XP_003120317.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 254
Score = 379 bits (973), Expect = e-105
Identities = 189/255 (74%), Positives = 205/255 (80%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG FTHEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF FDPQ AL NIA LKHNLNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRL-RFDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254
>ref|NP_002113.2| HLA class II histocompatibility antigen, DQ alpha 1 chain precursor
[Homo sapiens].
Length = 255
Score = 372 bits (955), Expect = e-103
Identities = 183/255 (71%), Positives = 202/255 (79%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + L+ GALALTTVMS CGGEDI ADHVAS G+N+YQ YGPSG +THEFDGDE+FYV
Sbjct: 1 MILNKALLLGALALTTVMSPCGGEDIVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KET WR P FS+F FDPQGALRN+A KHNLNI+ KR N+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETAWRWPEFSKFGGFDPQGALRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NG SV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDQPLLKHWEPEIPAPMSELTETVVCALGLSVGLMGIVVGTVFII 240
Query: 848 QGLRSGGPSRHQGSL 892
QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGPL 255
>ref|XP_003119376.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 250
Score = 371 bits (952), Expect = e-103
Identities = 185/255 (72%), Positives = 202/255 (79%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CG ADHVASYG+N+YQSYGPSG ++HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 55
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 56 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 115
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 116 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 175
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET
Sbjct: 176 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 235
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 236 RGLRSVGASRHQGPL 250
>ref|NP_064440.1| HLA class II histocompatibility antigen, DQ alpha 2 chain precursor
[Homo sapiens].
Length = 255
Score = 370 bits (949), Expect = e-102
Identities = 181/255 (70%), Positives = 202/255 (79%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + L+ GALALT VMS CGGEDI ADHVASYG+N YQS+GPSG +THEFDGDEEFYV
Sbjct: 1 MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE KETVW+LP+FS+F SFDPQ ALRN+A KH L + ++SN+TAA N+VPEVTVFSK
Sbjct: 61 DLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
PV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 121 FPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCALGLSVGLMGIVVGTVFII 240
Query: 848 QGLRSGGPSRHQGSL 892
QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGLL 255
>ref|XP_003120318.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 249
Score = 365 bits (936), Expect = e-101
Identities = 185/255 (72%), Positives = 201/255 (78%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CG ADHVASYG+N+YQSYGPSG FTHEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 55
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF FDPQ AL NIA LKHNLNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 56 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 114
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 115 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 174
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET
Sbjct: 175 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 234
Query: 848 QGLRSGGPSRHQGSL 892
+GLRS G SRHQG L
Sbjct: 235 RGLRSVGASRHQGPL 249
>ref|XP_003119377.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 4 [Homo sapiens].
Length = 208
Score = 347 bits (890), Expect = 1e-95
Identities = 165/204 (80%), Positives = 181/204 (88%), Gaps = 1/204 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG ++HEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF F FDPQ AL NIA LKHNLNIV KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHW 739
PSDD+ YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHW 204
>ref|XP_003120320.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 4 [Homo sapiens].
Length = 207
Score = 339 bits (870), Expect = 3e-93
Identities = 164/204 (80%), Positives = 179/204 (87%), Gaps = 1/204 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
M+ + LM GALALTTVMS CGGEDI ADHVASYG+N+YQSYGPSG FTHEFDGDEEFYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLE+KETVW+LPLF FDPQ AL NIA LKHNLNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRL-RFDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSV +G SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHW 739
PS D+ YDCKVEHWGLD+PLLKHW
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHW 203
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: 40,253,984
Number of extensions: 1009030
Number of successful extensions: 3110
Number of sequences better than 1.0e-05: 48
Number of HSP's gapped: 3052
Number of HSP's successfully gapped: 48
Length of query: 392
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 287
Effective length of database: 14,835,944
Effective search space: 4257915928
Effective search space used: 4257915928
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: 35 (18.1 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-000760
(1178 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_034508.2| histocompatibility 2, class II antigen A, alpha... 333 2e-91
Alignment gi|NP_032232.2| histocompatibility 2, O region alpha locus [Mus... 228 9e-60
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 214 8e-56
Alignment gi|NP_034516.3| class II histocompatibility antigen, M alpha ch... 82 1e-15
Alignment gi|NP_033865.2| beta-2-microglobulin precursor [Mus musculus]. 70 3e-12
Alignment gi|NP_034517.2| class II histocompatibility antigen, M beta 1 c... 65 1e-10
Alignment gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ... 65 1e-10
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 64 2e-10
Alignment gi|XP_003086107.1| PREDICTED: class II histocompatibility antig... 64 2e-10
Alignment gi|NP_034512.2| H-2 class II histocompatibility antigen, I-E be... 58 1e-08
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha precursor [Mus
musculus].
Length = 256
Score = 333 bits (853), Expect = 2e-91
Identities = 164/256 (64%), Positives = 189/256 (73%), Gaps = 2/256 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGED-IAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFY 307
M R L+ G LALTT++S CGGED I ADHV +YG++VYQS G G +T EFDGDE FY
Sbjct: 1 MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 308 VDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFS 487
VDL+KKETVW LP F + SFDPQG L+NIA +KHNL ++TKRSN+T A N+ P+ TVF
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 488 KSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTF 664
KSPV+LGQPNTLIC VD+IFPPVINITWL+N SV G ETSF D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 665 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXX 844
+PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTET
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240
Query: 845 XQGLRSGGPSRHQGSL 892
QGLRSGG SRH G L
Sbjct: 241 IQGLRSGGTSRHPGPL 256
>ref|NP_032232.2| histocompatibility 2, O region alpha locus [Mus musculus].
Length = 250
Score = 228 bits (580), Expect = 9e-60
Identities = 111/207 (53%), Positives = 142/207 (68%), Gaps = 1/207 (0%)
Frame = +2
Query: 164 LALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRL 343
L + +S G I ADH+ SYG YQSY SG FTHEFDG++ F VDL+ +E VWRL
Sbjct: 12 LTAMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71
Query: 344 PLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTL 523
P F +F D Q L +I+ +K +L+I+ +RSN T AV+ P VTV K+ V LG+PN L
Sbjct: 72 PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131
Query: 524 ICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKV 700
IC VD IFPPVIN+TWL+N + KG ++TSF S+ +H F K YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191
Query: 701 EHWGLDKPLLKHWEPEIPAPMSELTET 781
EHWGLD PLL+HWEP++ P + ET
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTIET 218
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha precursor [Mus
musculus].
Length = 255
Score = 214 bits (546), Expect = 8e-56
Identities = 101/172 (58%), Positives = 126/172 (73%), Gaps = 1/172 (0%)
Frame = +2
Query: 266 GYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNN 445
G F +FDGDE F+VD+EK ET+WRL F++F SF+ QGAL NIA K NL+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 446 TAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLS 622
T N PEVTV S+SPV LG+PN LIC +D PPV+N+TW +NG V +G SET FL
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164
Query: 623 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 778
++DH F K YLTFLPS DDFYDC+V+HWGL++PL KHWE E + E TE
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTE 216
>ref|NP_034516.3| class II histocompatibility antigen, M alpha chain precursor [Mus
musculus].
Length = 261
Score = 81.6 bits (200), Expect = 1e-15
Identities = 54/178 (30%), Positives = 81/178 (45%), Gaps = 5/178 (2%)
Frame = +2
Query: 260 PSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVT--- 430
P+ + +D DE F D + V RLP F+E+ QG IA K ++
Sbjct: 55 PNIGLSETYDEDELFSFDFSQNTRVPRLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREV 112
Query: 431 --KRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFS 604
K +P VF+ P+ G+PNTL+C + ++FPP + + W + V+G S
Sbjct: 113 SPKLEGQIPVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPVEGAS 172
Query: 605 ETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 778
TS + + +F SYL F P D Y C V H + +W P+ P S+L E
Sbjct: 173 PTSISAVDGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLE 229
>ref|NP_033865.2| beta-2-microglobulin precursor [Mus musculus].
Length = 119
Score = 70.1 bits (170), Expect = 3e-12
Identities = 31/100 (31%), Positives = 54/100 (54%)
Frame = +2
Query: 452 AVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKND 631
A+ + P++ V+S+ P G+PN L C+V PP I I LKNG + + D
Sbjct: 20 AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSFSKD 79
Query: 632 HSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 751
SF +++ F P++ D Y C+V+H + +P +W+ ++
Sbjct: 80 WSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119
>ref|NP_034517.2| class II histocompatibility antigen, M beta 1 chain precursor [Mus
musculus].
Length = 261
Score = 64.7 bits (156), Expect = 1e-10
Identities = 33/97 (34%), Positives = 47/97 (48%), Gaps = 2/97 (2%)
Frame = +2
Query: 461 QVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFS--ETSFLSKNDH 634
+ P V V +P +P L C+V +P + ITW+KNG V S E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 635 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 745
++ +SYL PS D Y C V+H G +P+ W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus].
Length = 261
Score = 64.7 bits (156), Expect = 1e-10
Identities = 33/97 (34%), Positives = 47/97 (48%), Gaps = 2/97 (2%)
Frame = +2
Query: 461 QVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFS--ETSFLSKNDH 634
+ P V V +P +P L C+V +P + ITW+KNG V S E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 635 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 745
++ +SYL PS D Y C V+H G +P+ W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus].
Length = 271
Score = 64.3 bits (155), Expect = 2e-10
Identities = 34/99 (34%), Positives = 48/99 (48%), Gaps = 1/99 (1%)
Frame = +2
Query: 446 TAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVK-GFSETSFLS 622
T N PEVTV+ + +L Q N L+C V +P I++ W +NG + G T +
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175
Query: 623 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 739
D +F L +P D Y C VEH GL +P+ W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>ref|XP_003086107.1| PREDICTED: class II histocompatibility antigen, M beta 1 chain-like
[Mus musculus].
Length = 261
Score = 64.3 bits (155), Expect = 2e-10
Identities = 33/95 (34%), Positives = 46/95 (48%), Gaps = 2/95 (2%)
Frame = +2
Query: 467 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFS--ETSFLSKNDHSF 640
P V V +P +P L C+V +P + ITW+KNG V S E + D ++
Sbjct: 115 PSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDWTY 174
Query: 641 LKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 745
+SYL PS D Y C V+H G +P+ W P
Sbjct: 175 QTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209
>ref|NP_034512.2| H-2 class II histocompatibility antigen, I-E beta chain precursor
[Mus musculus].
Length = 264
Score = 58.2 bits (139), Expect = 1e-08
Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 1/103 (0%)
Frame = +2
Query: 467 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVK-GFSETSFLSKNDHSFL 643
P VTV+ L N L+C V +P I + W +NG K G T + D +F
Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183
Query: 644 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 772
+ L +P + Y C+VEH L P+ W+ + + +++
Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKM 226
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: 34,130,731
Number of extensions: 845923
Number of successful extensions: 2750
Number of sequences better than 1.0e-05: 13
Number of HSP's gapped: 2647
Number of HSP's successfully gapped: 13
Length of query: 392
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 289
Effective length of database: 12,523,851
Effective search space: 3619392939
Effective search space used: 3619392939
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: 35 (18.1 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-000760
(1178 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|NP_001107534.2| SLA class II histocompatibility antigen, DQ ... 473 e-133
Alignment gi|NP_001123696.1| SLA class II histocompatibility antigen, DQ ... 453 e-128
Alignment gi|NP_001172072.1| src-like-adapter [Sus scrofa]. 254 8e-68
Alignment gi|NP_001107178.1| MHC class II DR-alpha [Sus scrofa]. 224 9e-59
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]. 82 8e-16
Alignment gi|NP_001107177.1| major histocompatibility complex, class II, ... 82 8e-16
Alignment gi|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa]. 70 2e-12
Alignment gi|NP_001107179.1| MHC class II, DM beta [Sus scrofa]. 59 7e-09
Alignment gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ... 57 3e-08
Alignment gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a... 56 3e-08
>ref|NP_001107534.2| SLA class II histocompatibility antigen, DQ haplotype C alpha chain
precursor [Sus scrofa].
Length = 254
Score = 473 bits (1216), Expect = e-133
Identities = 231/254 (90%), Positives = 231/254 (90%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV
Sbjct: 1 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK
Sbjct: 61 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLP 670
SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLP
Sbjct: 121 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLP 180
Query: 671 SDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXXQ 850
SDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET Q
Sbjct: 181 SDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFIIQ 240
Query: 851 GLRSGGPSRHQGSL 892
GL SGGPSRHQGSL
Sbjct: 241 GLLSGGPSRHQGSL 254
>ref|NP_001123696.1| SLA class II histocompatibility antigen, DQ haplotype D alpha chain
precursor [Sus scrofa].
Length = 255
Score = 453 bits (1166), Expect = e-128
Identities = 221/255 (86%), Positives = 228/255 (89%), Gaps = 1/255 (0%)
Frame = +2
Query: 131 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 310
MVPGRVLMWGALALT VMSACGGEDIAADHVASYGLNVYQSYGPSGY+THEFDGDEEFYV
Sbjct: 1 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 60
Query: 311 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 490
DLEKKETVW+LPLFS+FTSFDPQGALRNIAT KHNLNI+ KRSNNTAAVNQVPEVTVF K
Sbjct: 61 DLEKKETVWQLPLFSKFTSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 120
Query: 491 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 667
SPV+LGQPNTLICHVD+IFPPVINITWLKNGHSV +GFSETSFLSKNDHSFLKISYLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 180
Query: 668 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 847
PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET
Sbjct: 181 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFII 240
Query: 848 QGLRSGGPSRHQGSL 892
QGLRSGGPSRHQGSL
Sbjct: 241 QGLRSGGPSRHQGSL 255
>ref|NP_001172072.1| src-like-adapter [Sus scrofa].
Length = 250
Score = 254 bits (648), Expect = 8e-68
Identities = 122/212 (57%), Positives = 153/212 (72%), Gaps = 1/212 (0%)
Frame = +2
Query: 149 LMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKE 328
L+ G L T++S I ADH+ SYG YQSY SG FT++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHILMTLLSPQKAGAIKADHMGSYGPAFYQSYDGSGQFTYDFDGEQLFSVDLKKRE 66
Query: 329 TVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILG 508
VWRLP FS F FDPQ LR IA ++ +L+++ +RSN+T A N P VTV KSPV LG
Sbjct: 67 AVWRLPEFSNFADFDPQNGLRGIALIRAHLDVLVERSNHTRATNVPPRVTVLPKSPVALG 126
Query: 509 QPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFLPSDDDF 685
QPN LIC VD+IFPPVINITWL NG +V +G ++TSF ++ DHSF K YLTF+PS DF
Sbjct: 127 QPNVLICIVDNIFPPVINITWLHNGQTVTEGVTQTSFYAQPDHSFRKFHYLTFVPSAGDF 186
Query: 686 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 781
YDCKVEHWGLD+PL HWEP++ P+ + TET
Sbjct: 187 YDCKVEHWGLDEPLFTHWEPQVTMPLPDTTET 218
>ref|NP_001107178.1| MHC class II DR-alpha [Sus scrofa].
Length = 252
Score = 224 bits (570), Expect = 9e-59
Identities = 113/217 (52%), Positives = 134/217 (61%), Gaps = 1/217 (0%)
Frame = +2
Query: 245 YQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNI 424
Y S SG F +FDGDE F+VD+EK+ETVWRL F F SF+ QGAL NIA K NL I
Sbjct: 36 YLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEI 95
Query: 425 VTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGF 601
+ KRSNNT N PEVTV S PV LG+PN LIC +D PPV+N+TWL+NG V +G
Sbjct: 96 LIKRSNNTPNTNVPPEVTVLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGV 155
Query: 602 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 781
SET FL + DH F K YL F+PS +D YDC+VEHWGLDKPLLKHWE E P+ E TE
Sbjct: 156 SETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTEN 215
Query: 782 XXXXXXXXXXXXXXXXXXXXXXQGLRSGGPSRHQGSL 892
+G+R G + +G L
Sbjct: 216 TVCALGLIVALVGIIVGTVLIIKGVRKGNATERRGPL 252
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa].
Length = 260
Score = 81.6 bits (200), Expect = 8e-16
Identities = 56/200 (28%), Positives = 90/200 (45%), Gaps = 3/200 (1%)
Frame = +2
Query: 188 ACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTS 367
A G D +H Y + Q P + +DGD+ F + + V RLP F+++
Sbjct: 32 APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 368 F--DPQGALRNIATLKHNLNIVTKRSNNTAAVNQ-VPEVTVFSKSPVILGQPNTLICHVD 538
D + + + V V++ +P VF+ P+ G+PNTL+C V
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRGLPIAEVFTLKPLEFGKPNTLVCFVS 150
Query: 539 SIFPPVINITWLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLD 718
++FPP + +TW + V+G T + +D SF SYL F P+ D + C V H
Sbjct: 151 NLFPPALTVTWEHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSCVVTHELDG 210
Query: 719 KPLLKHWEPEIPAPMSELTE 778
+ +W P+ P S+L E
Sbjct: 211 YVAISYWVPQNALP-SDLLE 229
>ref|NP_001107177.1| major histocompatibility complex, class II, DO alpha [Sus scrofa].
Length = 260
Score = 81.6 bits (200), Expect = 8e-16
Identities = 56/200 (28%), Positives = 90/200 (45%), Gaps = 3/200 (1%)
Frame = +2
Query: 188 ACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYVDLEKKETVWRLPLFSEFTS 367
A G D +H Y + Q P + +DGD+ F + + V RLP F+++
Sbjct: 32 APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 368 F--DPQGALRNIATLKHNLNIVTKRSNNTAAVNQ-VPEVTVFSKSPVILGQPNTLICHVD 538
D + + + V V++ +P VF+ P+ G+PNTL+C V
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRGLPIAEVFTLKPLEFGKPNTLVCFVS 150
Query: 539 SIFPPVINITWLKNGHSVKGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLD 718
++FPP + +TW + V+G T + +D SF SYL F P+ D + C V H
Sbjct: 151 NLFPPALTVTWEHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSCVVTHELDG 210
Query: 719 KPLLKHWEPEIPAPMSELTE 778
+ +W P+ P S+L E
Sbjct: 211 YVAISYWVPQNALP-SDLLE 229
>ref|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa].
Length = 118
Score = 70.1 bits (170), Expect = 2e-12
Identities = 40/98 (40%), Positives = 55/98 (56%), Gaps = 1/98 (1%)
Frame = +2
Query: 452 AVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLS-KN 628
AV + P+V V+S+ P G+PN L C+V PP I I LKNG + +E S LS
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMN--AEQSDLSFSK 77
Query: 629 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 742
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|NP_001107179.1| MHC class II, DM beta [Sus scrofa].
Length = 272
Score = 58.5 bits (140), Expect = 7e-09
Identities = 31/95 (32%), Positives = 48/95 (50%), Gaps = 2/95 (2%)
Frame = +2
Query: 461 QVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVKGFSETSFLSK--NDH 634
Q P V V +P + L C+V +P + ITW KNG V + +++ D
Sbjct: 122 QPPSVQVAKTTPFNTRESVMLACYVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDW 181
Query: 635 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 739
++ +S+L PS D Y C VEH G+ +P+L+ W
Sbjct: 182 TYQTVSHLATTPSYGDTYTCVVEHIGVPEPILQDW 216
>ref|NP_001107166.1| SLA class II histocompatibility antigen, DQ haplotype C beta chain
precursor [Sus scrofa].
Length = 261
Score = 56.6 bits (135), Expect = 3e-08
Identities = 32/123 (26%), Positives = 48/123 (39%), Gaps = 1/123 (0%)
Frame = +2
Query: 407 KHNLNIVTKRSNNTAAVNQVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG- 583
KHN I T P VT+ L N L+C V +P + + W +NG
Sbjct: 112 KHNYQI---EEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQ 168
Query: 584 HSVKGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 763
G T + D ++ + L D Y C+VEH L P+L W + +
Sbjct: 169 EETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQ 228
Query: 764 SEL 772
S++
Sbjct: 229 SKM 231
>ref|XP_003128397.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
chain-like [Sus scrofa].
Length = 321
Score = 56.2 bits (134), Expect = 3e-08
Identities = 27/95 (28%), Positives = 41/95 (43%), Gaps = 1/95 (1%)
Frame = +2
Query: 467 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHS-VKGFSETSFLSKNDHSFL 643
P VTV+ L N L+C V +P + + W +NG G T + D +F
Sbjct: 126 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 185
Query: 644 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 748
+ L +P + Y C+VEH L P+ W +
Sbjct: 186 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRAQ 220
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: 25,277,647
Number of extensions: 637319
Number of successful extensions: 1799
Number of sequences better than 1.0e-05: 18
Number of HSP's gapped: 1782
Number of HSP's successfully gapped: 18
Length of query: 392
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 291
Effective length of database: 8,829,335
Effective search space: 2569336485
Effective search space used: 2569336485
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 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-000760
(1178 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 507 e-141
>Sscrofa_Chr07
|| Length = 134764511
Score = 507 bits (256), Expect = e-141
Identities = 276/282 (97%), Gaps = 3/282 (1%)
Strand = Plus / Plus
Query: 462 aggttcctgaggtgactgtgttttccaagtctccagtgatactgggtcagcccaacaccc 521
||||||||||||||||||||||| |||||||||||||||| |||||||||||||||||||
Sbjct: 29169480 aggttcctgaggtgactgtgtttcccaagtctccagtgatgctgggtcagcccaacaccc 29169539
Query: 522 tcatctgtcatgtggacagcatctttcctcctgtgatcaacatcacgtggttgaagaacg 581
|||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169540 tcatctgtcatgtggacaacatctttcctcctgtgatcaacatcacgtggttgaagaacg 29169599
Query: 582 ggcactctgtca---aaggtttttctgagaccagcttcctctccaaaaatgatcattcct 638
|||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169600 ggcactctgtcacagaaggtttttctgagaccagcttcctctccaaaaatgatcattcct 29169659
Query: 639 tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 698
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169660 tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 29169719
Query: 699 tggagcactggggcctggataagccacttctgaaacactggg 740
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169720 tggagcactggggcctggataagccacttctgaaacactggg 29169761
Score = 385 bits (194), Expect = e-104
Identities = 236/250 (94%)
Strand = Plus / Plus
Query: 212 gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggtcccagcggctat 271
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29168779 gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggtcccagcggctat 29168838
Query: 272 tttacccatgaatttgatggcgacgaggaattctacgtggacctggagaagaaggagact 331
| |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 29168839 tatacccatgaatttgatggcgacgaggaattctacgtggacctggggaagaaggagact 29168898
Query: 332 gtctggcggctgcctctgtttagtgaatttacaagttttgacccgcagggtgcactgagg 391
||||||| ||||||||||||||| |||||| |||||||||||| |||||||||||||||
Sbjct: 29168899 gtctggcagctgcctctgtttagcaaatttagaagttttgacccacagggtgcactgagg 29168958
Query: 392 aatatagctacgttaaaacataacttgaacatcgtgactaaacgctccaacaacaccgcg 451
|| ||||||||| ||||||||| ||||||||| ||| |||||| |||||||||||||||
Sbjct: 29168959 aacatagctacggcaaaacataatttgaacatcctgattaaacgttccaacaacaccgcg 29169018
Query: 452 gctgtcaatc 461
||||||||||
Sbjct: 29169019 gctgtcaatc 29169028
Score = 335 bits (169), Expect = 3e-89
Identities = 175/177 (98%)
Strand = Plus / Plus
Query: 740 gaacctgagattccagcccccatgtcagagctgacagagactgtggtctgcgccctggga 799
||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 29170000 gaacctgagattccagcccccatgtcagagctgacagagacagtggtctgcgccctggga 29170059
Query: 800 ttgatcgtgggccttgtgggcatcgtggtgggcactgtcttcatcattcaaggcctgcgc 859
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 29170060 ttgatcgtgggccttgtgggcatcgtggtgggcactgtcttcatcattcaaggcctacgc 29170119
Query: 860 tcaggtggtccctctagacaccaagggtccttgtgagtcacactccagaagggaagg 916
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170120 tcaggtggtccctctagacaccaagggtccttgtgagtcacactccagaagggaagg 29170176
Score = 244 bits (123), Expect = 9e-62
Identities = 132/135 (97%)
Strand = Plus / Plus
Query: 78 atcattgctctacaactccgaagagcaagagctgagaccaccttgagaagagcatggtcc 137
|||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 29164977 atcattgctctacaactccgaagagcaacagctgagaccaccttgagaagagcatggtcc 29165036
Query: 138 caggccgagttctgatgtggggggccctcgccctgaccaccgtgatgagcgcctgtggag 197
|||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||
Sbjct: 29165037 caggccgagttctgatgtggggggccctcgccctgaccgccttgatgagcgcctgtggag 29165096
Query: 198 gtgaagacattgcgg 212
|||||||||||||||
Sbjct: 29165097 gtgaagacattgcgg 29165111
Score = 170 bits (86), Expect = 1e-39
Identities = 133/146 (91%), Gaps = 2/146 (1%)
Strand = Plus / Plus
Query: 1035 ggaacttaaggtgctgtgtcatctcagaattcatatgcccttgggatcctttttccgacc 1094
|||||||||||||||||||||||||||||||||||||||||||| ||||| || | ||||
Sbjct: 29170461 ggaacttaaggtgctgtgtcatctcagaattcatatgcccttggaatcctcttcctgacc 29170520
Query: 1095 ttctagg-tctttttcttttctcagtggtaccttgttatgggatctctga-aaatcccac 1152
||||||| | |||||||||||||||| || | ||||||||||||||||| | |||||||
Sbjct: 29170521 ttctaggttttttttcttttctcagttgttacctgttatgggatctctgagatatcccac 29170580
Query: 1153 tccgctacctgatccctcagtgaccc 1178
|| |||||||||||||||||||||||
Sbjct: 29170581 tcggctacctgatccctcagtgaccc 29170606
Score = 149 bits (75), Expect = 4e-33
Identities = 78/79 (98%)
Strand = Plus / Plus
Query: 918 gcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactattttct 977
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170344 gcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactattttct 29170403
Query: 978 ggcccaattcatcatatac 996
|||| ||||||||||||||
Sbjct: 29170404 ggccaaattcatcatatac 29170422
Score = 63.9 bits (32), Expect = 2e-07
Identities = 32/32 (100%)
Strand = Plus / Minus
Query: 686 tatgactgcaaagtggagcactggggcctgga 717
||||||||||||||||||||||||||||||||
Sbjct: 29547115 tatgactgcaaagtggagcactggggcctgga 29547084
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: 33,156,188
Number of extensions: 194
Number of successful extensions: 194
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 191
Number of HSP's successfully gapped: 7
Length of query: 1178
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1157
Effective length of database: 2,808,413,156
Effective search space: 3249334021492
Effective search space used: 3249334021492
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)