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-000046
(1166 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, ... 372 e-103
Alignment gi|NP_001013619.3| major histocompatibility complex, class II, ... 355 4e-98
Alignment gi|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos tauru... 351 8e-97
Alignment gi|NP_001073045.1| major histocompatibility complex, class II, ... 344 1e-94
Alignment gi|NP_001012699.1| major histocompatibility complex, class II, ... 328 6e-90
Alignment gi|NP_001012696.1| major histocompatibility complex, class II, ... 310 2e-84
Alignment gi|NP_001192849.1| HLA class II histocompatibility antigen, DO ... 245 5e-65
Alignment gi|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos ta... 245 5e-65
Alignment gi|NP_001012695.1| major histocompatibility complex, class II, ... 226 2e-59
Alignment gi|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos ta... 226 4e-59
>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha 5 [Bos
taurus].
Length = 255
Score = 372 bits (956), Expect = e-103
Identities = 178/221 (80%), Positives = 194/221 (87%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MV R L+ G LALT +MS GGEDI ADHV YG+++YQSYG SG YTHEFDGDEQFYV
Sbjct: 1 MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEKKET WQLPLFS+ SFDPQ ALRNIA+ KL ++ LTK SN+TAA NKVPEVTVFSK
Sbjct: 61 DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV+LGQPNTLICHVD+IFPPVINITWL+NGHSVTEG SETSFL R+D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 719
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVC
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVC 221
>ref|NP_001013619.3| major histocompatibility complex, class II, DQ alpha, type 1 [Bos
taurus].
Length = 255
Score = 355 bits (911), Expect = 4e-98
Identities = 167/222 (75%), Positives = 189/222 (85%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MV R L+ GAL LT + S CGGEDI ADH+ +YG + YQS+G SG Y HEFDGDE FYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHIGTYGADFYQSHGPSGQYIHEFDGDELFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DL KKETVWQLP+F + TSF+ Q AL IA K TL++LTKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWQLPMFGELTSFEAQDALNEIAKAKHTLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SP++LGQPNTLICHVD+IFPPVINITWL+NGH+VTEG SETSFL ++D+SFLKI YLTFL
Sbjct: 121 SPMMLGQPNTLICHVDNIFPPVINITWLRNGHAVTEGVSETSFLPKSDYSFLKIGYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos taurus].
Length = 254
Score = 351 bits (900), Expect = 8e-97
Identities = 167/222 (75%), Positives = 188/222 (84%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MV R L+ GA ALT +MS CGGEDI ADHV SYG + QS+G S YT EFDGD+ FYV
Sbjct: 1 MVLNRALILGAFALTTMMSPCGGEDIVADHVGSYGTVISQSHGPSDQYTQEFDGDKLFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEKKETVW+LP+FS+F SFDPQ LRNIA+ K LNI+ K SN A+N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPMFSQFASFDPQAILRNIAISKHNLNIMIKYSNFIPAINEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SP++LGQPNTLICH+D+ FPPVINITWLKNGH+VTEG SETSFL ++DHSFLKI YLTFL
Sbjct: 121 SPMVLGQPNTLICHMDN-FPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDDD YDCKVEHW LD+PLLKHWEPE+PAPMSELTETVVCA
Sbjct: 180 PSDDDVYDCKVEHWSLDEPLLKHWEPEVPAPMSELTETVVCA 221
>ref|NP_001073045.1| major histocompatibility complex, class II, DQ alpha, type 3 [Bos
taurus].
Length = 254
Score = 344 bits (882), Expect = 1e-94
Identities = 164/222 (73%), Positives = 186/222 (83%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MV R L+ GAL LT + S CGGEDI ADHV +YG + YQS+G SG Y H+FDGDE+FYV
Sbjct: 1 MVLNRALILGALTLTTMTSLCGGEDIVADHVGTYGTDFYQSHGPSGQYIHQFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEK+E VW+LP+F K F PQGALRNIA+ K L++LTK N T +N+VPEVTVFSK
Sbjct: 61 DLEKEEAVWRLPMFDKLR-FHPQGALRNIAIAKHNLDVLTKLYNFTPVINEVPEVTVFSK 119
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV+L QPNTLICHVD+IFPPVINITWL+NGHSVTE SETSFL R+D+S+LKISYL F
Sbjct: 120 SPVMLSQPNTLICHVDNIFPPVINITWLRNGHSVTEHVSETSFLLRSDYSYLKISYLPFR 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 221
>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 2 [Bos
taurus].
Length = 268
Score = 328 bits (841), Expect = 6e-90
Identities = 154/204 (75%), Positives = 173/204 (84%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MV R L+ GALALT +MS+ GGEDI ADHV SYG +YQS+G SG YT EFDGDE FYV
Sbjct: 1 MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DL KKETVW+LP+FS+F FDPQ AL IA K L++LTKRSN T +N+VPEVTVFSK
Sbjct: 61 DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV+LGQPNTLICHVD+IFPPVINITWLKNGH+VTEG SETSFL ++DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHW 668
PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204
>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus].
Length = 253
Score = 310 bits (794), Expect = 2e-84
Identities = 145/218 (66%), Positives = 173/218 (79%)
Frame = +3
Query: 69 RVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEK 248
+ L+ AL L +MS GGEDI ADHV +YG NVYQ+YG+SG +T EFDGDE FYVDL K
Sbjct: 3 KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62
Query: 249 KETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVI 428
KETVW+LP FS T F+ Q ALRNI + K L+IL K S+ T A +++PEV VF KS V+
Sbjct: 63 KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122
Query: 429 LGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDD 608
LG PNTLIC VD+IFPPVINITW NGH V EG +ET+F ++DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182
Query: 609 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
DFYDC+VEHWGL++PL+KHWEPEIP P SELTETVVCA
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTETVVCA 220
>ref|NP_001192849.1| HLA class II histocompatibility antigen, DO alpha chain [Bos
taurus].
Length = 250
Score = 245 bits (626), Expect = 5e-65
Identities = 118/216 (54%), Positives = 149/216 (68%)
Frame = +3
Query: 75 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 254
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 255 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILG 434
VW+LP F F FDPQ L +IA+ K L L KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 435 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 614
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 615 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
YDCKVEHWGLD+PL +HWEP++P + + T T+VCA
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 222
>ref|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 250
Score = 245 bits (626), Expect = 5e-65
Identities = 118/216 (54%), Positives = 149/216 (68%)
Frame = +3
Query: 75 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 254
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 255 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILG 434
VW+LP F F FDPQ L +IA+ K L L KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 435 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 614
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 615 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
YDCKVEHWGLD+PL +HWEP++P + + T T+VCA
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGTLVCA 222
>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus].
Length = 253
Score = 226 bits (577), Expect = 2e-59
Identities = 107/178 (60%), Positives = 129/178 (72%)
Frame = +3
Query: 189 SGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSN 368
S + +FDGDE F+VD+ KKETVW+LP F F SF+ QGAL N+AV K L+I+ KRSN
Sbjct: 43 SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102
Query: 369 NTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFL 548
NT N PEVT+ PV LG+PNTLIC +D PPVI++TWL+NG VT+G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162
Query: 549 SRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
RNDH F K YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE VCA
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTENAVCA 220
>ref|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos taurus].
Length = 224
Score = 226 bits (575), Expect = 4e-59
Identities = 110/198 (55%), Positives = 136/198 (68%)
Frame = +3
Query: 75 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 254
L+ G L ++S I ADH+ SYG YQSY +G +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66
Query: 255 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILG 434
VW+LP F F FDPQ L +IA+ K L L KRSN T A N P V V KS V LG
Sbjct: 67 AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126
Query: 435 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 614
+PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K YLTF+P DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186
Query: 615 YDCKVEHWGLDKPLLKHW 668
YDCKVEHWGLD+PL +HW
Sbjct: 187 YDCKVEHWGLDQPLFQHW 204
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: 40,857,082
Number of extensions: 1040948
Number of successful extensions: 3087
Number of sequences better than 1.0e-05: 51
Number of HSP's gapped: 3073
Number of HSP's successfully gapped: 51
Length of query: 388
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 284
Effective length of database: 14,240,222
Effective search space: 4044223048
Effective search space used: 4044223048
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-000046
(1166 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, ... 370 e-102
Alignment gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati... 237 2e-62
Alignment gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam... 236 3e-62
Alignment gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati... 101 1e-21
Alignment gi|NP_001041564.1| major histocompatibility complex, class II, ... 72 1e-12
Alignment gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec... 67 2e-11
Alignment gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec... 67 2e-11
Alignment gi|NP_001014403.1| major histocompatibility complex, class II, ... 65 9e-11
Alignment gi|NP_001014768.1| DLA class II histocompatibility antigen, DR-... 64 2e-10
Alignment gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati... 60 5e-09
>ref|NP_001011726.1| major histocompatibility complex, class II, DQ alpha [Canis lupus
familiaris].
Length = 255
Score = 370 bits (949), Expect = e-102
Identities = 174/222 (78%), Positives = 195/222 (87%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ RVL+ G L LT +MS GGE+I ADHVA+YG+NVYQSYG SG YTHEFDGDE+FYV
Sbjct: 1 MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEKKETVW+LP+FS F SFDPQGALRN+A+ K LNI+TKRSN TAA N+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV+LGQPNTLIC VD+IFPPVIN+TWLKN HSVTEG SETSF ++ DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTETVVCA
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCA 222
>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 = 237 bits (604), Expect = 2e-62
Identities = 110/199 (55%), Positives = 142/199 (71%), Gaps = 7/199 (3%)
Frame = +3
Query: 147 VASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIA 326
+ SYG YQSYGSSG + HEFDG++ F V+L+K++ VW+LP F FDPQ L +IA
Sbjct: 1 MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60
Query: 327 VGKLTLNILTKRSNNTAAVNKV-------PEVTVFSKSPVILGQPNTLICHVDSIFPPVI 485
V K L++L +RSN T A+N P V V K V LGQPN LIC VD+IFPPVI
Sbjct: 61 VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120
Query: 486 NITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 665
NITWL+NG ++EG ++TSF S+ DH F K YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180
Query: 666 WEPEIPAPMSELTETVVCA 722
WEP++P P+ + ET++CA
Sbjct: 181 WEPQVPIPVPDTIETLICA 199
>ref|NP_001011723.1| MHC class II DR alpha chain [Canis lupus familiaris].
Length = 254
Score = 236 bits (602), Expect = 3e-62
Identities = 113/184 (61%), Positives = 133/184 (72%)
Frame = +3
Query: 171 YQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNI 350
Y + SG + +FDGDE F+VD+EKKETVW+L F +F SF+ QGAL NIAV K L+
Sbjct: 38 YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97
Query: 351 LTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGF 530
+ KRSN+T N PEVTV S +PV LG+PN LIC +D PPVIN+TWL+NG+ VT G
Sbjct: 98 MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157
Query: 531 SETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 710
SET FL R DH F K YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTEN 217
Query: 711 VVCA 722
VVCA
Sbjct: 218 VVCA 221
>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 = 101 bits (252), Expect = 1e-21
Identities = 52/108 (48%), Positives = 70/108 (64%)
Frame = +3
Query: 132 IAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGA 311
I ADH+ SYG YQSYGSSG + HEFDG++ F V+L+K++ VW+LP F FDPQ
Sbjct: 12 IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71
Query: 312 LRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLIC 455
L +IAV K L++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 = 71.6 bits (174), Expect = 1e-12
Identities = 40/126 (31%), Positives = 62/126 (49%)
Frame = +3
Query: 342 LNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVT 521
L++L + A P V VF+ P+ G+PN L+C + ++FPP + + W + V
Sbjct: 21 LHLLWLLPYSRTAPEGFPMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV- 79
Query: 522 EGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
EG T + + SF SYL F P+ D + C V H + + +W P P S+L
Sbjct: 80 EGIGPTFVSAVDGFSFQAFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDL 138
Query: 702 TETVVC 719
E V+C
Sbjct: 139 LENVLC 144
>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
[Canis familiaris].
Length = 125
Score = 67.4 bits (163), Expect = 2e-11
Identities = 36/114 (31%), Positives = 59/114 (51%)
Frame = +3
Query: 330 GKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG 509
G L L ++ + AV P++ V+S+ P G+PN L C+V PP I I LKNG
Sbjct: 11 GFLALLLILLAACRLDAVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 510 HSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 671
+ ++ SF D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 71 KEMKAEQTDLSF--SKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
[Canis familiaris].
Length = 125
Score = 67.4 bits (163), Expect = 2e-11
Identities = 36/114 (31%), Positives = 59/114 (51%)
Frame = +3
Query: 330 GKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNG 509
G L L ++ + AV P++ V+S+ P G+PN L C+V PP I I LKNG
Sbjct: 11 GFLALLLILLAACRLDAVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNG 70
Query: 510 HSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 671
+ ++ SF D +F + + F P++ D + C+V+H L +P + W+
Sbjct: 71 KEMKAEQTDLSF--SKDWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122
>ref|NP_001014403.1| major histocompatibility complex, class II, DQ beta 1 [Canis lupus
familiaris].
Length = 269
Score = 65.5 bits (158), Expect = 9e-11
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
P VT+F +L N L+C V +P I + W +N T G T + D +F
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
+ L P D Y C VEH L P+ W + + S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231
>ref|NP_001014768.1| DLA class II histocompatibility antigen, DR-1 beta chain precursor
[Canis lupus familiaris].
Length = 266
Score = 64.3 bits (155), Expect = 2e-10
Identities = 30/103 (29%), Positives = 47/103 (45%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
P VTV+ L N L+C V+ +P I + WL+NG G T + D +F
Sbjct: 126 PTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNGDWTFQ 185
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
+ L +P + Y C+VEH L P+ W + + S++
Sbjct: 186 ILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKM 228
>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 = 59.7 bits (143), Expect = 5e-09
Identities = 34/108 (31%), Positives = 53/108 (49%), Gaps = 1/108 (0%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN-DHSF 569
P V V +P + L C+V +P + I+W KNG V S + N D ++
Sbjct: 115 PTVQVAKSTPFNTKESVMLACYVWGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTY 174
Query: 570 LKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETV 713
+S+L PS +D Y C VEH G +P+ + W P + +PM + +V
Sbjct: 175 QTVSHLATTPSYEDTYTCVVEHIGAPEPVCEDWTPGL-SPMQTVKVSV 221
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: 42,653,215
Number of extensions: 1078186
Number of successful extensions: 3277
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 3264
Number of HSP's successfully gapped: 11
Length of query: 388
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 283
Effective length of database: 15,374,224
Effective search space: 4350905392
Effective search space used: 4350905392
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-000046
(1166 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... 376 e-104
Alignment gi|XP_003119374.1| PREDICTED: HLA class II histocompatibility a... 376 e-104
Alignment gi|NP_064440.1| HLA class II histocompatibility antigen, DQ alp... 375 e-104
Alignment gi|XP_003120319.1| PREDICTED: HLA class II histocompatibility a... 368 e-102
Alignment gi|XP_003120317.1| PREDICTED: HLA class II histocompatibility a... 368 e-102
Alignment gi|NP_002113.2| HLA class II histocompatibility antigen, DQ alp... 367 e-101
Alignment gi|XP_003119376.1| PREDICTED: HLA class II histocompatibility a... 362 e-100
Alignment gi|XP_003120318.1| PREDICTED: HLA class II histocompatibility a... 353 1e-97
Alignment gi|XP_003119377.1| PREDICTED: HLA class II histocompatibility a... 342 4e-94
Alignment gi|XP_003120320.1| PREDICTED: HLA class II histocompatibility a... 332 4e-91
>ref|XP_003119375.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 255
Score = 376 bits (966), Expect = e-104
Identities = 179/222 (80%), Positives = 196/222 (88%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCA 222
>ref|XP_003119374.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 255
Score = 376 bits (966), Expect = e-104
Identities = 179/222 (80%), Positives = 196/222 (88%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTETVVCA
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCA 222
>ref|NP_064440.1| HLA class II histocompatibility antigen, DQ alpha 2 chain precursor
[Homo sapiens].
Length = 255
Score = 375 bits (964), Expect = e-104
Identities = 177/222 (79%), Positives = 197/222 (88%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + L+ GALALTAVMS CGGEDI ADHVASYG+N YQS+G SG YTHEFDGDE+FYV
Sbjct: 1 MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE KETVWQLP+FSKF SFDPQ ALRN+AVGK TL + ++SN+TAA N+VPEVTVFSK
Sbjct: 61 DLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
PV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 FPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET+VCA
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCA 222
>ref|XP_003120319.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 254
Score = 368 bits (944), Expect = e-102
Identities = 178/222 (80%), Positives = 195/222 (87%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG +THEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVW+LPLF + FDPQ AL NIAV K LNIL KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 221
>ref|XP_003120317.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 1 [Homo sapiens].
Length = 254
Score = 368 bits (944), Expect = e-102
Identities = 178/222 (80%), Positives = 195/222 (87%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG +THEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVW+LPLF + FDPQ AL NIAV K LNIL KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 221
>ref|NP_002113.2| HLA class II histocompatibility antigen, DQ alpha 1 chain precursor
[Homo sapiens].
Length = 255
Score = 367 bits (941), Expect = e-101
Identities = 175/222 (78%), Positives = 192/222 (86%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + L+ GALALT VMS CGGEDI ADHVAS G+N+YQ YG SG YTHEFDGDEQFYV
Sbjct: 1 MILNKALLLGALALTTVMSPCGGEDIVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KET W+ P FSKF FDPQGALRN+AV K LNI+ KR N+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETAWRWPEFSKFGGFDPQGALRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NG SVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSADEIYDCKVEHWGLDQPLLKHWEPEIPAPMSELTETVVCA 222
>ref|XP_003119376.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 3 [Homo sapiens].
Length = 250
Score = 362 bits (929), Expect = e-100
Identities = 175/222 (78%), Positives = 192/222 (86%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CG ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 55
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 56 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 115
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 116 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 175
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTETVVCA
Sbjct: 176 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCA 217
>ref|XP_003120318.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 2 [Homo sapiens].
Length = 249
Score = 353 bits (907), Expect = 1e-97
Identities = 174/222 (78%), Positives = 191/222 (86%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CG ADHVASYG+N+YQSYG SG +THEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 55
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVW+LPLF + FDPQ AL NIAV K LNIL KRSN+TAA N+VPEVTVFSK
Sbjct: 56 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 114
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 115 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 174
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTETVVCA
Sbjct: 175 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCA 216
>ref|XP_003119377.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
chain-like isoform 4 [Homo sapiens].
Length = 208
Score = 342 bits (877), Expect = 4e-94
Identities = 162/204 (79%), Positives = 179/204 (87%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG Y+HEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVWQLPLF +F FDPQ AL NIAV K LNI+ KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHW 668
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 = 332 bits (851), Expect = 4e-91
Identities = 160/204 (78%), Positives = 177/204 (86%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
M+ + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYG SG +THEFDGDE+FYV
Sbjct: 1 MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLE+KETVW+LPLF + FDPQ AL NIAV K LNIL KRSN+TAA N+VPEVTVFSK
Sbjct: 61 DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV LGQPNTLIC VD+IFPPV+NITWL NGHSVTEG SETSFLS++DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHW 668
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: 41,958,666
Number of extensions: 1062827
Number of successful extensions: 3258
Number of sequences better than 1.0e-05: 53
Number of HSP's gapped: 3242
Number of HSP's successfully gapped: 53
Length of query: 388
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 284
Effective length of database: 14,868,908
Effective search space: 4222769872
Effective search space used: 4222769872
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-000046
(1166 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... 327 1e-89
Alignment gi|NP_032232.2| histocompatibility 2, O region alpha locus [Mus... 233 2e-61
Alignment gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ... 232 5e-61
Alignment gi|NP_034516.3| class II histocompatibility antigen, M alpha ch... 82 6e-16
Alignment gi|NP_033865.2| beta-2-microglobulin precursor [Mus musculus]. 70 3e-12
Alignment gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ... 68 2e-11
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 ... 64 2e-10
Alignment gi|XP_003086107.1| PREDICTED: class II histocompatibility antig... 64 2e-10
Alignment gi|NP_996988.2| histocompatibility 2, class II antigen A, beta ... 64 3e-10
>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha precursor [Mus
musculus].
Length = 256
Score = 327 bits (837), Expect = 1e-89
Identities = 156/223 (69%), Positives = 179/223 (80%), Gaps = 1/223 (0%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGED-IAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFY 233
M R L+ G LALT ++S CGGED I ADHV +YG++VYQS G G YT EFDGDE FY
Sbjct: 1 MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60
Query: 234 VDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFS 413
VDL+KKETVW LP F + SFDPQG L+NIAV K L +LTKRSN+T A N+ P+ TVF
Sbjct: 61 VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120
Query: 414 KSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTF 593
KSPV+LGQPNTLIC VD+IFPPVINITWL+N SV +G ETSF D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180
Query: 594 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
+PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTETVVCA
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCA 223
>ref|NP_032232.2| histocompatibility 2, O region alpha locus [Mus musculus].
Length = 250
Score = 233 bits (595), Expect = 2e-61
Identities = 111/210 (52%), Positives = 145/210 (69%)
Frame = +3
Query: 90 LALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQL 269
L + +S G I ADH+ SYG YQSY +SG +THEFDG++ F VDL+ +E VW+L
Sbjct: 12 LTAMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71
Query: 270 PLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTL 449
P F F D Q L +I++ K L+IL +RSN T AV+ P VTV K+ V LG+PN L
Sbjct: 72 PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131
Query: 450 ICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKV 629
IC VD IFPPVIN+TWL+N +T+G ++TSF S+ +H F K YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191
Query: 630 EHWGLDKPLLKHWEPEIPAPMSELTETVVC 719
EHWGLD PLL+HWEP++ P + ET++C
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTIETLIC 221
>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha precursor [Mus
musculus].
Length = 255
Score = 232 bits (591), Expect = 5e-61
Identities = 107/177 (60%), Positives = 131/177 (74%)
Frame = +3
Query: 192 GYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNN 371
G + +FDGDE F+VD+EK ET+W+L F+KF SF+ QGAL NIAV K L+++ +RSNN
Sbjct: 45 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104
Query: 372 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 551
T N PEVTV S+SPV LG+PN LIC +D PPV+N+TW +NG VTEG SET FL
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164
Query: 552 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
R+DH F K YLTFLPS DDFYDC+V+HWGL++PL KHWE E + E TE VVCA
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTENVVCA 221
>ref|NP_034516.3| class II histocompatibility antigen, M alpha chain precursor [Mus
musculus].
Length = 261
Score = 82.4 bits (202), Expect = 6e-16
Identities = 54/175 (30%), Positives = 80/175 (45%), Gaps = 5/175 (2%)
Frame = +3
Query: 210 FDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGK-----LTLNILTKRSNNT 374
+D DE F D + V +LP F+++ QG IA K L + K
Sbjct: 63 YDEDELFSFDFSQNTRVPRLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREVSPKLEGQI 120
Query: 375 AAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSR 554
+P VF+ P+ G+PNTL+C + ++FPP + + W + V EG S TS +
Sbjct: 121 PVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAV 179
Query: 555 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 719
+ +F SYL F P D Y C V H + +W P+ P S+L E +C
Sbjct: 180 DGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLENALC 233
>ref|NP_033865.2| beta-2-microglobulin precursor [Mus musculus].
Length = 119
Score = 70.1 bits (170), Expect = 3e-12
Identities = 35/102 (34%), Positives = 58/102 (56%), Gaps = 1/102 (0%)
Frame = +3
Query: 378 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTE-GFSETSFLSR 554
A+ K P++ V+S+ P G+PN L C+V PP I I LKNG + + S+ SF
Sbjct: 20 AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSF--S 77
Query: 555 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 680
D SF +++ F P++ D Y C+V+H + +P +W+ ++
Sbjct: 78 KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119
>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus].
Length = 271
Score = 67.8 bits (164), Expect = 2e-11
Identities = 34/99 (34%), Positives = 47/99 (47%)
Frame = +3
Query: 372 TAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLS 551
T N PEVTV+ + +L Q N L+C V +P I++ W +NG G T +
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175
Query: 552 RNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 668
D +F L +P D Y C VEH GL +P+ W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214
>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 = 39/127 (30%), Positives = 60/127 (47%), Gaps = 1/127 (0%)
Frame = +3
Query: 345 NILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-T 521
N LT R+ + P V V +P +P L C+V +P + ITW+KNG V +
Sbjct: 106 NALTHRT-------RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPS 158
Query: 522 EGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
E + D ++ +SYL PS D Y C V+H G +P+ W P + +P+ +
Sbjct: 159 HSNKEKTAQPNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGL-SPIQTV 217
Query: 702 TETVVCA 722
+V A
Sbjct: 218 KVSVSAA 224
>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus].
Length = 261
Score = 64.3 bits (155), Expect = 2e-10
Identities = 35/113 (30%), Positives = 55/113 (48%), Gaps = 1/113 (0%)
Frame = +3
Query: 387 KVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-TEGFSETSFLSRNDH 563
+ P V V +P +P L C+V +P + ITW+KNG V + E + D
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172
Query: 564 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
++ +SYL PS D Y C V+H G +P+ W P + +P+ + +V A
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGL-SPIQTVKVSVSAA 224
>ref|XP_003086107.1| PREDICTED: class II histocompatibility antigen, M beta 1 chain-like
[Mus musculus].
Length = 261
Score = 63.9 bits (154), Expect = 2e-10
Identities = 39/127 (30%), Positives = 60/127 (47%), Gaps = 1/127 (0%)
Frame = +3
Query: 345 NILTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-T 521
N LT R+ + P V V +P +P L C+V +P + ITW+KNG V +
Sbjct: 106 NALTHRT-------RPPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPS 158
Query: 522 EGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
E + D ++ +SYL PS D Y C V+H G +P+ W P + +P+ +
Sbjct: 159 HSNKEKTAQPNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTPGL-SPIQTV 217
Query: 702 TETVVCA 722
+V A
Sbjct: 218 KVSVSAA 224
>ref|NP_996988.2| histocompatibility 2, class II antigen A, beta 1 precursor [Mus
musculus].
Length = 265
Score = 63.5 bits (153), Expect = 3e-10
Identities = 30/103 (29%), Positives = 44/103 (42%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
P V + L NTL+C V +P I + W +NG T G S T + D +F
Sbjct: 125 PNVVISLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQ 184
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
+ L P + Y C VEH L P+ W + + S++
Sbjct: 185 VLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKM 227
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: 35,697,641
Number of extensions: 895823
Number of successful extensions: 2737
Number of sequences better than 1.0e-05: 28
Number of HSP's gapped: 2722
Number of HSP's successfully gapped: 28
Length of query: 388
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 285
Effective length of database: 12,523,851
Effective search space: 3569297535
Effective search space used: 3569297535
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-000046
(1166 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_001123696.1| SLA class II histocompatibility antigen, DQ ... 440 e-124
Alignment gi|NP_001107534.2| SLA class II histocompatibility antigen, DQ ... 429 e-120
Alignment gi|NP_001172072.1| src-like-adapter [Sus scrofa]. 264 6e-71
Alignment gi|NP_001107178.1| MHC class II DR-alpha [Sus scrofa]. 234 9e-62
Alignment gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa]. 80 3e-15
Alignment gi|NP_001107177.1| major histocompatibility complex, class II, ... 80 3e-15
Alignment gi|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa]. 73 3e-13
Alignment gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ... 61 1e-09
Alignment gi|NP_001107536.2| MHC class II, DO beta [Sus scrofa]. 60 2e-09
Alignment gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a... 60 2e-09
>ref|NP_001123696.1| SLA class II histocompatibility antigen, DQ haplotype D alpha chain
precursor [Sus scrofa].
Length = 255
Score = 440 bits (1131), Expect = e-124
Identities = 210/222 (94%), Positives = 215/222 (96%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYG SGYYTHEFDGDE+FYV
Sbjct: 1 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEKKETVWQLPLFSKFTSFDPQGALRNIA K LNIL KRSNNTAAVN+VPEVTVF K
Sbjct: 61 DLEKKETVWQLPLFSKFTSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPV+LGQPNTLICHVD+IFPPVINITWLKNGHSVTEGFSETSFLS+NDHSFLKISYLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 180
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 181 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 222
>ref|NP_001107534.2| SLA class II histocompatibility antigen, DQ haplotype C alpha chain
precursor [Sus scrofa].
Length = 254
Score = 429 bits (1104), Expect = e-120
Identities = 207/222 (93%), Positives = 215/222 (96%)
Frame = +3
Query: 57 MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYV 236
MVPGRVLMWGALALT VMSACGGEDIAADHVASYGLNVYQSYG SGY+THEFDGDE+FYV
Sbjct: 1 MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 60
Query: 237 DLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSK 416
DLEKKETVW+LPLFS+FTSFDPQGALRNIA K LNI+TKRSNNTAAVN+VPEVTVFSK
Sbjct: 61 DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 120
Query: 417 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFL 596
SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV +GFSETSFLS+NDHSFLKISYLTFL
Sbjct: 121 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 179
Query: 597 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA
Sbjct: 180 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 221
>ref|NP_001172072.1| src-like-adapter [Sus scrofa].
Length = 250
Score = 264 bits (675), Expect = 6e-71
Identities = 125/216 (57%), Positives = 156/216 (72%)
Frame = +3
Query: 75 LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKE 254
L+ G L ++S I ADH+ SYG YQSY SG +T++FDG++ F VDL+K+E
Sbjct: 7 LVLGLHILMTLLSPQKAGAIKADHMGSYGPAFYQSYDGSGQFTYDFDGEQLFSVDLKKRE 66
Query: 255 TVWQLPLFSKFTSFDPQGALRNIAVGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILG 434
VW+LP FS F FDPQ LR IA+ + L++L +RSN+T A N P VTV KSPV LG
Sbjct: 67 AVWRLPEFSNFADFDPQNGLRGIALIRAHLDVLVERSNHTRATNVPPRVTVLPKSPVALG 126
Query: 435 QPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDF 614
QPN LIC VD+IFPPVINITWL NG +VTEG ++TSF ++ DHSF K YLTF+PS DF
Sbjct: 127 QPNVLICIVDNIFPPVINITWLHNGQTVTEGVTQTSFYAQPDHSFRKFHYLTFVPSAGDF 186
Query: 615 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCA 722
YDCKVEHWGLD+PL HWEP++ P+ + TET+VCA
Sbjct: 187 YDCKVEHWGLDEPLFTHWEPQVTMPLPDTTETLVCA 222
>ref|NP_001107178.1| MHC class II DR-alpha [Sus scrofa].
Length = 252
Score = 234 bits (596), Expect = 9e-62
Identities = 112/184 (60%), Positives = 128/184 (69%)
Frame = +3
Query: 171 YQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTSFDPQGALRNIAVGKLTLNI 350
Y S SG + +FDGDE F+VD+EK+ETVW+L F F SF+ QGAL NIAV K L I
Sbjct: 36 YLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEI 95
Query: 351 LTKRSNNTAAVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGF 530
L KRSNNT N PEVTV S PV LG+PN LIC +D PPV+N+TWL+NG VT G
Sbjct: 96 LIKRSNNTPNTNVPPEVTVLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGV 155
Query: 531 SETSFLSRNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 710
SET FL R DH F K YL F+PS +D YDC+VEHWGLDKPLLKHWE E P+ E TE
Sbjct: 156 SETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTEN 215
Query: 711 VVCA 722
VCA
Sbjct: 216 TVCA 219
>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa].
Length = 260
Score = 79.7 bits (195), Expect = 3e-15
Identities = 59/212 (27%), Positives = 92/212 (43%), Gaps = 10/212 (4%)
Frame = +3
Query: 114 ACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTS 293
A G D +H Y + G + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYCQDGNPEVGL-SEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 294 --------FDPQGALRNIA--VGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPN 443
F +G R + VG L +P VF+ P+ G+PN
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLF-------EGKIPVSRGLPIAEVFTLKPLEFGKPN 143
Query: 444 TLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDC 623
TL+C V ++FPP + +TW ++ + EG T + +D SF SYL F P+ D + C
Sbjct: 144 TLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSC 202
Query: 624 KVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 719
V H + +W P+ P S+L E V+C
Sbjct: 203 VVTHELDGYVAISYWVPQNALP-SDLLENVLC 233
>ref|NP_001107177.1| major histocompatibility complex, class II, DO alpha [Sus scrofa].
Length = 260
Score = 79.7 bits (195), Expect = 3e-15
Identities = 59/212 (27%), Positives = 92/212 (43%), Gaps = 10/212 (4%)
Frame = +3
Query: 114 ACGGEDIAADHVASYGLNVYQSYGSSGYYTHEFDGDEQFYVDLEKKETVWQLPLFSKFTS 293
A G D +H Y + G + +DGD+ F + + V +LP F+ +
Sbjct: 32 APGWRDELQNHTFQYTMYCQDGNPEVGL-SEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90
Query: 294 --------FDPQGALRNIA--VGKLTLNILTKRSNNTAAVNKVPEVTVFSKSPVILGQPN 443
F +G R + VG L +P VF+ P+ G+PN
Sbjct: 91 QIEDTPAIFFDKGFCREMIEKVGPLF-------EGKIPVSRGLPIAEVFTLKPLEFGKPN 143
Query: 444 TLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFLKISYLTFLPSDDDFYDC 623
TL+C V ++FPP + +TW ++ + EG T + +D SF SYL F P+ D + C
Sbjct: 144 TLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFSC 202
Query: 624 KVEHWGLDKPLLKHWEPEIPAPMSELTETVVC 719
V H + +W P+ P S+L E V+C
Sbjct: 203 VVTHELDGYVAISYWVPQNALP-SDLLENVLC 233
>ref|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa].
Length = 118
Score = 72.8 bits (177), Expect = 3e-13
Identities = 39/98 (39%), Positives = 54/98 (55%)
Frame = +3
Query: 378 AVNKVPEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRN 557
AV + P+V V+S+ P G+PN L C+V PP I I LKNG + S+ SF
Sbjct: 20 AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77
Query: 558 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 671
D SF + + F P+ D Y C+V+H LDKP + W+
Sbjct: 78 DWSFYLLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKWD 115
>ref|NP_001107166.1| SLA class II histocompatibility antigen, DQ haplotype C beta chain
precursor [Sus scrofa].
Length = 261
Score = 61.2 bits (147), Expect = 1e-09
Identities = 29/107 (27%), Positives = 45/107 (42%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
P VT+ L N L+C V +P + + W +NG T G T + D ++
Sbjct: 129 PTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIRNGDWTYQ 188
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETV 713
+ L D Y C+VEH L P+L W + + S++ V
Sbjct: 189 VLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSGV 235
>ref|NP_001107536.2| MHC class II, DO beta [Sus scrofa].
Length = 277
Score = 60.5 bits (145), Expect = 2e-09
Identities = 32/103 (31%), Positives = 44/103 (42%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
PEVTV + L N L+C V +P I I W +NG EG T + D +F
Sbjct: 136 PEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLIRNGDWTFQ 195
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 701
+ L P D Y C V+H L P+ W + ++L
Sbjct: 196 TVVMLEMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKL 238
>ref|XP_003128397.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
chain-like [Sus scrofa].
Length = 321
Score = 60.1 bits (144), Expect = 2e-09
Identities = 27/95 (28%), Positives = 41/95 (43%)
Frame = +3
Query: 393 PEVTVFSKSPVILGQPNTLICHVDSIFPPVINITWLKNGHSVTEGFSETSFLSRNDHSFL 572
P VTV+ L N L+C V +P + + W +NG G T + D +F
Sbjct: 126 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 185
Query: 573 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 677
+ 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: 26,256,865
Number of extensions: 668054
Number of successful extensions: 1927
Number of sequences better than 1.0e-05: 24
Number of HSP's gapped: 1917
Number of HSP's successfully gapped: 24
Length of query: 388
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 287
Effective length of database: 8,829,335
Effective search space: 2534019145
Effective search space used: 2534019145
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-000046
(1166 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 527 e-147
>Sscrofa_Chr07
|| Length = 134764511
Score = 527 bits (266), Expect = e-147
Identities = 278/282 (98%)
Strand = Plus / Plus
Query: 388 aggttcctgaggtgactgtgttttccaagtctccagtgatactgggtcagcccaacaccc 447
||||||||||||||||||||||| |||||||||||||||| |||||||||||||||||||
Sbjct: 29169480 aggttcctgaggtgactgtgtttcccaagtctccagtgatgctgggtcagcccaacaccc 29169539
Query: 448 tcatctgtcatgtggacagcatctttcctcctgtgatcaacatcacgtggttgaagaacg 507
|||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169540 tcatctgtcatgtggacaacatctttcctcctgtgatcaacatcacgtggttgaagaacg 29169599
Query: 508 ggcactctgtcacagaaggtttttctgagaccagcttcctctccagaaatgatcattcct 567
||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 29169600 ggcactctgtcacagaaggtttttctgagaccagcttcctctccaaaaatgatcattcct 29169659
Query: 568 tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 627
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169660 tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 29169719
Query: 628 tggagcactggggcctggataagccacttctgaaacactggg 669
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169720 tggagcactggggcctggataagccacttctgaaacactggg 29169761
Score = 375 bits (189), Expect = e-101
Identities = 234/249 (93%)
Strand = Plus / Plus
Query: 138 gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggttccagcggctat 197
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 29168779 gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggtcccagcggctat 29168838
Query: 198 tatacccatgaatttgatggtgacgagcaattctacgtggacctggagaagaaggagact 257
|||||||||||||||||||| |||||| |||||||||||||||||| |||||||||||||
Sbjct: 29168839 tatacccatgaatttgatggcgacgaggaattctacgtggacctggggaagaaggagact 29168898
Query: 258 gtctggcagctgcctctgtttagcaaatttacaagttttgacccgcagggtgcactgagg 317
||||||||||||||||||||||||||||||| |||||||||||| |||||||||||||||
Sbjct: 29168899 gtctggcagctgcctctgtttagcaaatttagaagttttgacccacagggtgcactgagg 29168958
Query: 318 aacatagctgtgggaaaacttaccttgaacatcctgactaaacgctccaacaacacagcg 377
||||||||| || ||||| || ||||||||||||| |||||| ||||||||||| |||
Sbjct: 29168959 aacatagctacggcaaaacataatttgaacatcctgattaaacgttccaacaacaccgcg 29169018
Query: 378 gctgtcaat 386
|||||||||
Sbjct: 29169019 gctgtcaat 29169027
Score = 317 bits (160), Expect = 8e-84
Identities = 195/204 (95%), Gaps = 2/204 (0%)
Strand = Plus / Plus
Query: 964 ggaacttaaggtgctgtgtcatctcaaaattcatatgcccttggaatcctcttcctgaac 1023
|||||||||||||||||||||||||| ||||||||||||||||||||||||||||||| |
Sbjct: 29170461 ggaacttaaggtgctgtgtcatctcagaattcatatgcccttggaatcctcttcctgacc 29170520
Query: 1024 ttctaggtcttttt-cttttctcagttgttacctggttatgggatctctgagatatccca 1082
|||||||| ||||| |||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 29170521 ttctaggttttttttcttttctcagttgttacctg-ttatgggatctctgagatatccca 29170579
Query: 1083 ctcggctatctgatccctcagtgaccctaaactaatatgtacatggaaacagtaaatcgc 1142
|||||||| |||||||||||||||||||||||||||||||||||||||||| |||||| |
Sbjct: 29170580 ctcggctacctgatccctcagtgaccctaaactaatatgtacatggaaacaataaatcac 29170639
Query: 1143 tttatgaggtttttgtactgaatt 1166
|| |||||||||||||||||||||
Sbjct: 29170640 ttcatgaggtttttgtactgaatt 29170663
Score = 274 bits (138), Expect = 1e-70
Identities = 168/178 (94%)
Strand = Plus / Plus
Query: 669 gaacctgagattccagcccccatgtcagagctgacagagacggtggtctgcgccctgggg 728
||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 29170000 gaacctgagattccagcccccatgtcagagctgacagagacagtggtctgcgccctggga 29170059
Query: 729 ttgatcgtgggccttgtgggcatcgtggtgggtactgtcctccttattcgaggcctgcgc 788
|||||||||||||||||||||||||||||||| |||||| || | |||| |||||| |||
Sbjct: 29170060 ttgatcgtgggccttgtgggcatcgtggtgggcactgtcttcatcattcaaggcctacgc 29170119
Query: 789 tcaggtggtctctctagacaccaagggtccttgtgagtcacactccagaagagaaggt 846
|||||||||| |||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 29170120 tcaggtggtccctctagacaccaagggtccttgtgagtcacactccagaagggaaggt 29170177
Score = 264 bits (133), Expect = 1e-67
Identities = 136/137 (99%)
Strand = Plus / Plus
Query: 2 tcatcattgctctacaactccgaagagcaacagctgagaccaccttgagaagagcatggt 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29164975 tcatcattgctctacaactccgaagagcaacagctgagaccaccttgagaagagcatggt 29165034
Query: 62 cccaggccgagttctgatgtggggggccctcgccctgaccgccgtgatgagcgcctgtgg 121
||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 29165035 cccaggccgagttctgatgtggggggccctcgccctgaccgccttgatgagcgcctgtgg 29165094
Query: 122 aggtgaagacattgcgg 138
|||||||||||||||||
Sbjct: 29165095 aggtgaagacattgcgg 29165111
Score = 157 bits (79), Expect = 2e-35
Identities = 82/83 (98%)
Strand = Plus / Plus
Query: 843 aggtgcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactatt 902
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170340 aggtgcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactatt 29170399
Query: 903 ttctggccaaattcgtcatatac 925
|||||||||||||| ||||||||
Sbjct: 29170400 ttctggccaaattcatcatatac 29170422
Score = 63.9 bits (32), Expect = 2e-07
Identities = 32/32 (100%)
Strand = Plus / Minus
Query: 615 tatgactgcaaagtggagcactggggcctgga 646
||||||||||||||||||||||||||||||||
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: 34,110,501
Number of extensions: 217
Number of successful extensions: 217
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 215
Number of HSP's successfully gapped: 7
Length of query: 1166
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1145
Effective length of database: 2,808,413,156
Effective search space: 3215633063620
Effective search space used: 3215633063620
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)