Animal-Genome cDNA 20110601C-000046


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)