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= LNG01_0073_F10
         (1199 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, ...   376   e-104
Alignment   gi|NP_001013619.3| major histocompatibility complex, class II, ...   371   e-103
Alignment   gi|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos tauru...   367   e-102
Alignment   gi|NP_001073045.1| major histocompatibility complex, class II, ...   358   7e-99
Alignment   gi|NP_001012699.1| major histocompatibility complex, class II, ...   344   1e-94
Alignment   gi|NP_001012696.1| major histocompatibility complex, class II, ...   312   4e-85
Alignment   gi|NP_001192849.1| HLA class II histocompatibility antigen, DO ...   242   4e-64
Alignment   gi|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos ta...   242   4e-64
Alignment   gi|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos ta...   229   3e-60
Alignment   gi|NP_001012695.1| major histocompatibility complex, class II, ...   228   8e-60

>ref|NP_001012693.1| major histocompatibility complex, class II, DQ alpha 5 [Bos
           taurus].
          Length = 255

 Score =  376 bits (966), Expect = e-104
 Identities = 184/255 (72%), Positives = 201/255 (78%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MV  R L+ G LALT +MS  GGEDI ADHV  YG+++YQSYGPSG YTHEFDGDE+FYV
Sbjct: 1   MVLNRALILGTLALTTMMSPSGGEDIVADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL KKET WQLPLFS+  SFDPQ ALRNIA  K +++ L K SN+TAA N+VPEVTVF K
Sbjct: 61  DLEKKETAWQLPLFSRMLSFDPQLALRNIAIMKLHVDFLTKFSNSTAATNKVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPVMLGQPNTLICHVDNIFPPVINITWL+NGHSVTEG SETSFL ++D+SFLKI YL FL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLRNGHSVTEGVSETSFLIRSDYSFLKIKYLAFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 181 PSDDDIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCTLGLTMGLVGITVGTIFII 240

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRSG PSRHQG L
Sbjct: 241 QGLRSGDPSRHQGPL 255


>ref|NP_001013619.3| major histocompatibility complex, class II, DQ alpha, type 1 [Bos
           taurus].
          Length = 255

 Score =  371 bits (952), Expect = e-103
 Identities = 178/255 (69%), Positives = 198/255 (77%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MV  R L+ GAL LT + S CGGEDI ADH+ +YG + YQS+GPSG Y HEFDGDE FYV
Sbjct: 1   MVLNRALILGALTLTTMTSLCGGEDIVADHIGTYGADFYQSHGPSGQYIHEFDGDELFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DLGKKETVWQLP+F +  SF+ Q AL  IA AKH L++L KRSN T  +N+VPEVTVF K
Sbjct: 61  DLGKKETVWQLPMFGELTSFEAQDALNEIAKAKHTLDVLTKRSNFTPVINEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SP+MLGQPNTLICHVDNIFPPVINITWL+NGH+VTEG SETSFL K+D+SFLKI YLTFL
Sbjct: 121 SPMMLGQPNTLICHVDNIFPPVINITWLRNGHAVTEGVSETSFLPKSDYSFLKIGYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 181 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLII 240

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRSGG SRHQG L
Sbjct: 241 RGLRSGGASRHQGPL 255


>ref|XP_002702914.1| PREDICTED: BOLA-DQA2 protein-like [Bos taurus].
          Length = 254

 Score =  367 bits (943), Expect = e-102
 Identities = 180/255 (70%), Positives = 199/255 (78%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MV  R L+ GA ALT +MS CGGEDI ADHV SYG  + QS+GPS  YT EFDGD+ FYV
Sbjct: 1   MVLNRALILGAFALTTMMSPCGGEDIVADHVGSYGTVISQSHGPSDQYTQEFDGDKLFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL KKETVW+LP+FS+F SFDPQ  LRNIA +KHNLNI+IK SN   A+N+VPEVTVF K
Sbjct: 61  DLEKKETVWRLPMFSQFASFDPQAILRNIAISKHNLNIMIKYSNFIPAINEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SP++LGQPNTLICH+DN FPPVINITWLKNGH+VTEG SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPMVLGQPNTLICHMDN-FPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDD YDCKVEHW LD+PLLKHWEPE+PAPMSELTET                      
Sbjct: 180 PSDDDVYDCKVEHWSLDEPLLKHWEPEVPAPMSELTETVVCALRLTVGLVGIVVGTIFII 239

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRSGG SRHQG L
Sbjct: 240 QGLRSGGASRHQGPL 254


>ref|NP_001073045.1| major histocompatibility complex, class II, DQ alpha, type 3 [Bos
           taurus].
          Length = 254

 Score =  358 bits (918), Expect = 7e-99
 Identities = 175/255 (68%), Positives = 195/255 (76%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MV  R L+ GAL LT + S CGGEDI ADHV +YG + YQS+GPSG Y H+FDGDEEFYV
Sbjct: 1   MVLNRALILGALTLTTMTSLCGGEDIVADHVGTYGTDFYQSHGPSGQYIHQFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL K+E VW+LP+F K R F PQGALRNIA AKHNL++L K  N T  +N+VPEVTVF K
Sbjct: 61  DLEKEEAVWRLPMFDKLR-FHPQGALRNIAIAKHNLDVLTKLYNFTPVINEVPEVTVFSK 119

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPVML QPNTLICHVDNIFPPVINITWL+NGHSVTE  SETSFL ++D+S+LKISYL F 
Sbjct: 120 SPVMLSQPNTLICHVDNIFPPVINITWLRNGHSVTEHVSETSFLLRSDYSYLKISYLPFR 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDD YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 180 PSDDDVYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLTVGLVGIVVGTVLIT 239

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 240 RGLRSSGASRHQGPL 254


>ref|NP_001012699.1| major histocompatibility complex, class II, DQ alpha 2 [Bos
           taurus].
          Length = 268

 Score =  344 bits (882), Expect = 1e-94
 Identities = 161/204 (78%), Positives = 177/204 (86%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MV  R L+ GALALT +MS+ GGEDI ADHV SYG  +YQS+GPSG YT EFDGDE FYV
Sbjct: 1   MVLNRALILGALALTTMMSSSGGEDIVADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DLGKKETVW+LP+FS+F  FDPQ AL  IATAKHNL++L KRSN T  +N+VPEVTVF K
Sbjct: 61  DLGKKETVWRLPMFSQFAGFDPQAALSEIATAKHNLDVLTKRSNFTPVINEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPVMLGQPNTLICHVDNIFPPVINITWLKNGH+VTEG SETSFL K+DHSFLKI YLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHAVTEGVSETSFLPKDDHSFLKIGYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHW 681
           PSD+D YDCKVEHWGLD+PLLKHW
Sbjct: 181 PSDNDIYDCKVEHWGLDEPLLKHW 204


>ref|NP_001012696.1| major histocompatibility complex, class II, DY alpha [Bos taurus].
          Length = 253

 Score =  312 bits (799), Expect = 4e-85
 Identities = 146/214 (68%), Positives = 171/214 (79%)
 Frame = +1

Query: 82  RVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGK 261
           + L+  AL L  +MS  GGEDI ADHV +YG NVYQ+YG SG +T EFDGDE FYVDLGK
Sbjct: 3   KALILRALTLATMMSPYGGEDIVADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGK 62

Query: 262 KETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVM 441
           KETVW+LP FS    F+ Q ALRNI  +K NL+ILIK S+ T A +++PEV VFPKS V+
Sbjct: 63  KETVWRLPEFSNITKFEVQSALRNIVMSKRNLDILIKNSSFTPATSEIPEVAVFPKSSVV 122

Query: 442 LGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDD 621
           LG PNTLIC VDNIFPPVINITW  NGH V EG +ET+F  K+DHSFLK SYLTFLP+++
Sbjct: 123 LGIPNTLICQVDNIFPPVINITWFYNGHFVAEGIAETTFYPKSDHSFLKFSYLTFLPTNE 182

Query: 622 DFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 723
           DFYDC+VEHWGL++PL+KHWEPEIP P SELTET
Sbjct: 183 DFYDCRVEHWGLEEPLVKHWEPEIPTPTSELTET 216


>ref|NP_001192849.1| HLA class II histocompatibility antigen, DO alpha chain [Bos
           taurus].
          Length = 250

 Score =  242 bits (618), Expect = 4e-64
 Identities = 116/212 (54%), Positives = 146/212 (68%)
 Frame = +1

Query: 88  LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 267
           L+ G   L  ++S      I ADH+ SYG   YQSY  +G +T++FDG++ F VDL K+E
Sbjct: 7   LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66

Query: 268 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 447
            VW+LP F  F  FDPQ  L +IA  K +L  L+KRSN T A N  P V V PKS V LG
Sbjct: 67  AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126

Query: 448 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 627
           +PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K  YLTF+P  DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186

Query: 628 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 723
           YDCKVEHWGLD+PL +HWEP++P  + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218


>ref|XP_002697222.1| PREDICTED: MHC class II antigen-like [Bos taurus].
          Length = 250

 Score =  242 bits (618), Expect = 4e-64
 Identities = 116/212 (54%), Positives = 146/212 (68%)
 Frame = +1

Query: 88  LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 267
           L+ G   L  ++S      I ADH+ SYG   YQSY  +G +T++FDG++ F VDL K+E
Sbjct: 7   LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66

Query: 268 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 447
            VW+LP F  F  FDPQ  L +IA  K +L  L+KRSN T A N  P V V PKS V LG
Sbjct: 67  AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126

Query: 448 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 627
           +PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K  YLTF+P  DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186

Query: 628 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 723
           YDCKVEHWGLD+PL +HWEP++P  + + T T
Sbjct: 187 YDCKVEHWGLDQPLFQHWEPQVPTALPDTTGT 218


>ref|XP_002702869.1| PREDICTED: MHC class II antigen-like [Bos taurus].
          Length = 224

 Score =  229 bits (585), Expect = 3e-60
 Identities = 111/198 (56%), Positives = 137/198 (69%)
 Frame = +1

Query: 88  LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 267
           L+ G   L  ++S      I ADH+ SYG   YQSY  +G +T++FDG++ F VDL K+E
Sbjct: 7   LVLGLHTLMTLLSLQEVGAIKADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKRE 66

Query: 268 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 447
            VW+LP F  F  FDPQ  L +IA  K +L  L+KRSN T A N  P V V PKS V LG
Sbjct: 67  AVWRLPEFGNFAYFDPQSGLVSIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPKSHVQLG 126

Query: 448 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 627
           +PN LIC VD IFPPVINITWL+NGH VT+G +++SF ++ DH F K  YLTF+P  DDF
Sbjct: 127 EPNVLICIVDKIFPPVINITWLRNGHPVTQGVTQSSFYAQPDHLFRKFHYLTFVPLVDDF 186

Query: 628 YDCKVEHWGLDKPLLKHW 681
           YDCKVEHWGLD+PL +HW
Sbjct: 187 YDCKVEHWGLDQPLFQHW 204


>ref|NP_001012695.1| major histocompatibility complex, class II, DR alpha [Bos taurus].
          Length = 253

 Score =  228 bits (581), Expect = 8e-60
 Identities = 106/173 (61%), Positives = 129/173 (74%)
 Frame = +1

Query: 202 SGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSN 381
           S  +  +FDGDE F+VD+GKKETVW+LP F  F SF+ QGAL N+A  K NL+I+IKRSN
Sbjct: 43  SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102

Query: 382 NTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFL 561
           NT   N  PEVT+ P  PV LG+PNTLIC +D   PPVI++TWL+NG  VT+G S+T FL
Sbjct: 103 NTPNTNVPPEVTLLPNKPVELGEPNTLICFIDKFSPPVISVTWLRNGKPVTDGVSQTVFL 162

Query: 562 SKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
            +NDH F K  YL FLP+ +D YDCKVEH GL++PLLKHWE E PAP+ E TE
Sbjct: 163 PRNDHLFRKFHYLPFLPTTEDVYDCKVEHLGLNEPLLKHWEYEAPAPLPETTE 215


  Database: RefSeq49_BP.fasta
    Posted date:  Oct 17, 2011  1:42 PM
  Number of letters in database: 17,681,374
  Number of sequences in database:  33,088
  
Lambda     K      H
   0.318    0.134    0.401 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 41,487,055
Number of extensions: 1053867
Number of successful extensions: 3011
Number of sequences better than 1.0e-05: 52
Number of HSP's gapped: 2992
Number of HSP's successfully gapped: 52
Length of query: 399
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 295
Effective length of database: 14,240,222
Effective search space: 4200865490
Effective search space used: 4200865490
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)
Animal-Genome cDNA LNG01_0073_F10

Animal-Genome cDNA LNG01_0073_F10


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= LNG01_0073_F10
         (1199 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, ...   386   e-107
Alignment   gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati...   233   2e-61
Alignment   gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam...   227   1e-59
Alignment   gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati...   100   5e-21
Alignment   gi|NP_001014403.1| major histocompatibility complex, class II, ...    68   2e-11
Alignment   gi|NP_001041564.1| major histocompatibility complex, class II, ...    68   2e-11
Alignment   gi|NP_001014768.1| DLA class II histocompatibility antigen, DR-...    68   2e-11
Alignment   gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec...    65   1e-10
Alignment   gi|XP_850148.1| PREDICTED: similar to beta-2-microglobulin prec...    65   1e-10
Alignment   gi|NP_001041592.1| major histocompatibility complex, class II, ...    60   3e-09

>ref|NP_001011726.1| major histocompatibility complex, class II, DQ alpha [Canis lupus
           familiaris].
          Length = 255

 Score =  386 bits (991), Expect = e-107
 Identities = 187/255 (73%), Positives = 203/255 (79%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  RVL+ G L LT +MS  GGE+I ADHVA+YG+NVYQSYGPSG YTHEFDGDEEFYV
Sbjct: 1   MILNRVLILGTLILTIMMSPSGGEEIVADHVANYGINVYQSYGPSGQYTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL KKETVW+LP+FS FRSFDPQGALRN+A  K NLNI+ KRSN TAA N+VPEVTVF K
Sbjct: 61  DLEKKETVWRLPVFSTFRSFDPQGALRNLAIIKQNLNIMTKRSNQTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPVMLGQPNTLIC VDNIFPPVIN+TWLKN HSVTEG SETSF +K DHSF KISYLTFL
Sbjct: 121 SPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFSKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS +D YDCKVEHWGLD+PLLKHWEPE+P PMSELTET                      
Sbjct: 181 PSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSELTETVVCALGLAVGLVGIVMGTVFII 240

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRSGG SRHQG L
Sbjct: 241 QGLRSGGTSRHQGPL 255


>ref|XP_850803.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           alpha chain precursor (MHC class II antigen DOA) (MHC DZ
           alpha) (MHC DN-alpha) isoform 11 [Canis familiaris].
          Length = 227

 Score =  233 bits (595), Expect = 2e-61
 Identities = 108/195 (55%), Positives = 138/195 (70%), Gaps = 7/195 (3%)
 Frame = +1

Query: 160 VASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIA 339
           + SYG   YQSYG SG + HEFDG++ F V+L K++ VW+LP F     FDPQ  L +IA
Sbjct: 1   MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60

Query: 340 TAKHNLNILIKRSNNTAAVNQV-------PEVTVFPKSPVMLGQPNTLICHVDNIFPPVI 498
             K +L++L++RSN T A+N         P V V PK  V LGQPN LIC VDNIFPPVI
Sbjct: 61  VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVI 120

Query: 499 NITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKH 678
           NITWL+NG  ++EG ++TSF S+ DH F K  YLTF+PS +D YDCKVEHWGL++PLL+H
Sbjct: 121 NITWLRNGQIISEGVAQTSFYSQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRH 180

Query: 679 WEPEIPAPMSELTET 723
           WEP++P P+ +  ET
Sbjct: 181 WEPQVPIPVPDTIET 195


>ref|NP_001011723.1| MHC class II DR alpha chain [Canis lupus familiaris].
          Length = 254

 Score =  227 bits (579), Expect = 1e-59
 Identities = 108/179 (60%), Positives = 129/179 (72%)
 Frame = +1

Query: 184 YQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNI 363
           Y +  PSG +  +FDGDE F+VD+ KKETVW+L  F +F SF+ QGAL NIA  K NL+ 
Sbjct: 38  YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97

Query: 364 LIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGF 543
           +IKRSN+T   N  PEVTV   +PV LG+PN LIC +D   PPVIN+TWL+NG+ VT G 
Sbjct: 98  MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGV 157

Query: 544 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
           SET FL + DH F K  YL FLPS +D YDCKVEHWGLD+PLLKHWE E P P+ E TE
Sbjct: 158 SETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHWEFEPPTPLPETTE 216


>ref|XP_532104.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           alpha chain precursor (MHC class II antigen DOA) (MHC DZ
           alpha) (MHC DN-alpha) isoform 10 [Canis familiaris].
          Length = 142

 Score = 99.8 bits (247), Expect = 5e-21
 Identities = 50/108 (46%), Positives = 69/108 (63%)
 Frame = +1

Query: 145 IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGA 324
           I ADH+ SYG   YQSYG SG + HEFDG++ F V+L K++ VW+LP F     FDPQ  
Sbjct: 12  IEADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNG 71

Query: 325 LRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLIC 468
           L +IA  K +L++L++RSN T A+N+ P+V +     +      TLIC
Sbjct: 72  LASIAVIKAHLDVLVERSNRTRAINE-PQVPIPVPDTI-----ETLIC 113


>ref|NP_001014403.1| major histocompatibility complex, class II, DQ beta 1 [Canis lupus
           familiaris].
          Length = 269

 Score = 68.2 bits (165), Expect = 2e-11
 Identities = 31/103 (30%), Positives = 46/103 (44%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           P VT+FP    +L   N L+C V + +P  I + W +N    T G   T  +   D +F 
Sbjct: 129 PTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIRNGDWTFQ 188

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 714
            +  L   P   D Y C VEH  L  P+   W  +  +  S++
Sbjct: 189 ILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKM 231


>ref|NP_001041564.1| major histocompatibility complex, class II, DM alpha [Canis lupus
           familiaris].
          Length = 170

 Score = 67.8 bits (164), Expect = 2e-11
 Identities = 36/105 (34%), Positives = 52/105 (49%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           P V VF   P+  G+PN L+C + N+FPP + + W  +   V EG   T   + +  SF 
Sbjct: 38  PMVDVFTLKPLEFGKPNMLVCFISNLFPPTLTVNWWHHLDPV-EGIGPTFVSAVDGFSFQ 96

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
             SYL F P+  D + C V H   +   + +W P    P S+L E
Sbjct: 97  AFSYLNFTPAPSDLFSCVVTHEIDNYTAIAYWVPHDALP-SDLLE 140


>ref|NP_001014768.1| DLA class II histocompatibility antigen, DR-1 beta chain precursor
           [Canis lupus familiaris].
          Length = 266

 Score = 67.8 bits (164), Expect = 2e-11
 Identities = 34/123 (27%), Positives = 55/123 (44%)
 Frame = +1

Query: 346 KHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGH 525
           +HN  ++    + T      P VTV+P     L   N L+C V+  +P  I + WL+NG 
Sbjct: 109 RHNYGVI---ESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQ 165

Query: 526 SVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 705
               G   T  +   D +F  +  L  +P   + Y C+VEH  L  P+   W  +  +  
Sbjct: 166 EEEAGVVSTGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQ 225

Query: 706 SEL 714
           S++
Sbjct: 226 SKM 228


>ref|XP_535458.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 2
           [Canis familiaris].
          Length = 125

 Score = 65.5 bits (158), Expect = 1e-10
 Identities = 32/98 (32%), Positives = 52/98 (53%)
 Frame = +1

Query: 391 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 570
           AV   P++ V+ + P   G+PN L C+V    PP I I  LKNG  +    ++ SF    
Sbjct: 27  AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84

Query: 571 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 684
           D +F  + +  F P++ D + C+V+H  L +P +  W+
Sbjct: 85  DWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122


>ref|XP_850148.1| PREDICTED: similar to beta-2-microglobulin precursor isoform 3
           [Canis familiaris].
          Length = 125

 Score = 65.5 bits (158), Expect = 1e-10
 Identities = 32/98 (32%), Positives = 52/98 (53%)
 Frame = +1

Query: 391 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 570
           AV   P++ V+ + P   G+PN L C+V    PP I I  LKNG  +    ++ SF    
Sbjct: 27  AVQHPPKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAEQTDLSF--SK 84

Query: 571 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 684
           D +F  + +  F P++ D + C+V+H  L +P +  W+
Sbjct: 85  DWTFYLLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKWD 122


>ref|NP_001041592.1| major histocompatibility complex, class II, DO beta [Canis lupus
           familiaris].
          Length = 270

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 30/95 (31%), Positives = 41/95 (43%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           PEVTV+P+    +   N L+C V   +P  I I W +NG     G   T  +   D +F 
Sbjct: 123 PEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQ 182

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 690
            +  L   P   D Y C V H  L  P+   W  +
Sbjct: 183 TMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQ 217


  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: 43,193,069
Number of extensions: 1067298
Number of successful extensions: 3224
Number of sequences better than 1.0e-05: 21
Number of HSP's gapped: 3210
Number of HSP's successfully gapped: 21
Length of query: 399
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 294
Effective length of database: 15,374,224
Effective search space: 4520021856
Effective search space used: 4520021856
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= LNG01_0073_F10
         (1199 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...   394   e-109
Alignment   gi|XP_003119374.1| PREDICTED: HLA class II histocompatibility a...   394   e-109
Alignment   gi|XP_003120319.1| PREDICTED: HLA class II histocompatibility a...   385   e-107
Alignment   gi|XP_003120317.1| PREDICTED: HLA class II histocompatibility a...   385   e-107
Alignment   gi|NP_064440.1| HLA class II histocompatibility antigen, DQ alp...   383   e-106
Alignment   gi|NP_002113.2| HLA class II histocompatibility antigen, DQ alp...   381   e-106
Alignment   gi|XP_003119376.1| PREDICTED: HLA class II histocompatibility a...   379   e-105
Alignment   gi|XP_003120318.1| PREDICTED: HLA class II histocompatibility a...   371   e-103
Alignment   gi|XP_003119377.1| PREDICTED: HLA class II histocompatibility a...   355   4e-98
Alignment   gi|XP_003120320.1| PREDICTED: HLA class II histocompatibility a...   345   4e-95

>ref|XP_003119375.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 2 [Homo sapiens].
          Length = 255

 Score =  394 bits (1011), Expect = e-109
 Identities = 191/255 (74%), Positives = 206/255 (80%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVWQLPLF +FR FDPQ AL NIA  KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET                      
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255


>ref|XP_003119374.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 1 [Homo sapiens].
          Length = 255

 Score =  394 bits (1011), Expect = e-109
 Identities = 191/255 (74%), Positives = 206/255 (80%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVWQLPLF +FR FDPQ AL NIA  KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET                      
Sbjct: 181 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 240

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 241 RGLRSVGASRHQGPL 255


>ref|XP_003120319.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 3 [Homo sapiens].
          Length = 254

 Score =  385 bits (989), Expect = e-107
 Identities = 190/255 (74%), Positives = 205/255 (80%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVW+LPLF + R FDPQ AL NIA  KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254


>ref|XP_003120317.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 1 [Homo sapiens].
          Length = 254

 Score =  385 bits (989), Expect = e-107
 Identities = 190/255 (74%), Positives = 205/255 (80%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVW+LPLF + R FDPQ AL NIA  KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 180 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 239

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 240 RGLRSVGASRHQGPL 254


>ref|NP_064440.1| HLA class II histocompatibility antigen, DQ alpha 2 chain precursor
           [Homo sapiens].
          Length = 255

 Score =  383 bits (984), Expect = e-106
 Identities = 186/255 (72%), Positives = 203/255 (79%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + L+ GALALTAVMS CGGEDI ADHVASYG+N YQS+GPSG YTHEFDGDEEFYV
Sbjct: 1   MILNKALLLGALALTAVMSPCGGEDIVADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL  KETVWQLP+FSKF SFDPQ ALRN+A  KH L  ++++SN+TAA N+VPEVTVF K
Sbjct: 61  DLETKETVWQLPMFSKFISFDPQSALRNMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
            PV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 FPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 181 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETLVCALGLSVGLMGIVVGTVFII 240

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGLL 255


>ref|NP_002113.2| HLA class II histocompatibility antigen, DQ alpha 1 chain precursor
           [Homo sapiens].
          Length = 255

 Score =  381 bits (979), Expect = e-106
 Identities = 186/255 (72%), Positives = 202/255 (79%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + L+ GALALT VMS CGGEDI ADHVAS G+N+YQ YGPSG YTHEFDGDE+FYV
Sbjct: 1   MILNKALLLGALALTTVMSPCGGEDIVADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KET W+ P FSKF  FDPQGALRN+A AKHNLNI+IKR N+TAA N+VPEVTVF K
Sbjct: 61  DLERKETAWRWPEFSKFGGFDPQGALRNMAVAKHNLNIMIKRYNSTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NG SVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSVTEGVSETSFLSKSDHSFFKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 181 PSADEIYDCKVEHWGLDQPLLKHWEPEIPAPMSELTETVVCALGLSVGLMGIVVGTVFII 240

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRS G SRHQG L
Sbjct: 241 QGLRSVGASRHQGPL 255


>ref|XP_003119376.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 3 [Homo sapiens].
          Length = 250

 Score =  379 bits (974), Expect = e-105
 Identities = 187/255 (73%), Positives = 202/255 (79%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CG     ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 55

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVWQLPLF +FR FDPQ AL NIA  KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 56  DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 115

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 116 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 175

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDD+ YDCKVEHWGLD+PLLKHWEPEIP PMSELTET                      
Sbjct: 176 PSDDEIYDCKVEHWGLDEPLLKHWEPEIPTPMSELTETVVCALGLSVGLVGIVVGTVLII 235

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 236 RGLRSVGASRHQGPL 250


>ref|XP_003120318.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 2 [Homo sapiens].
          Length = 249

 Score =  371 bits (952), Expect = e-103
 Identities = 186/255 (72%), Positives = 201/255 (78%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CG     ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCG-----ADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 55

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVW+LPLF + R FDPQ AL NIA  KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 56  DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 114

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 115 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 174

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PS D+ YDCKVEHWGLD+PLLKHWEPEIPAPMSELTET                      
Sbjct: 175 PSADEIYDCKVEHWGLDEPLLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTVLII 234

Query: 790 QGLRSGGPSRHQGSL 834
           +GLRS G SRHQG L
Sbjct: 235 RGLRSVGASRHQGPL 249


>ref|XP_003119377.1| PREDICTED: HLA class II histocompatibility antigen, DQ alpha 1
           chain-like isoform 4 [Homo sapiens].
          Length = 208

 Score =  355 bits (912), Expect = 4e-98
 Identities = 167/204 (81%), Positives = 181/204 (88%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG Y+HEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVWQLPLF +FR FDPQ AL NIA  KHNLNI+IKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWQLPLFRRFRRFDPQFALTNIAVLKHNLNIVIKRSNSTAATNEVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 121 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHW 681
           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 =  345 bits (886), Expect = 4e-95
 Identities = 165/204 (80%), Positives = 179/204 (87%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           M+  + LM GALALT VMS CGGEDI ADHVASYG+N+YQSYGPSG +THEFDGDEEFYV
Sbjct: 1   MILNKALMLGALALTTVMSPCGGEDIVADHVASYGVNLYQSYGPSGQFTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL +KETVW+LPLF + R FDPQ AL NIA  KHNLNILIKRSN+TAA N+VPEVTVF K
Sbjct: 61  DLERKETVWKLPLFHRLR-FDPQFALTNIAVLKHNLNILIKRSNSTAATNEVPEVTVFSK 119

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV LGQPNTLIC VDNIFPPV+NITWL NGHSVTEG SETSFLSK+DHSF KISYLTFL
Sbjct: 120 SPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSVTEGVSETSFLSKSDHSFFKISYLTFL 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHW 681
           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: 42,454,053
Number of extensions: 1055448
Number of successful extensions: 3003
Number of sequences better than 1.0e-05: 52
Number of HSP's gapped: 2979
Number of HSP's successfully gapped: 52
Length of query: 399
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 294
Effective length of database: 14,835,944
Effective search space: 4361767536
Effective search space used: 4361767536
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= LNG01_0073_F10
         (1199 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...   340   1e-93
Alignment   gi|NP_032232.2| histocompatibility 2, O region alpha locus [Mus...   232   4e-61
Alignment   gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ...   217   1e-56
Alignment   gi|NP_034516.3| class II histocompatibility antigen, M alpha ch...    79   7e-15
Alignment   gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ...    71   2e-12
Alignment   gi|NP_033865.2| beta-2-microglobulin precursor [Mus musculus].        67   2e-11
Alignment   gi|NP_034512.2| H-2 class II histocompatibility antigen, I-E be...    64   2e-10
Alignment   gi|NP_034517.2| class II histocompatibility antigen, M beta 1 c...    64   3e-10
Alignment   gi|NP_001029150.1| histocompatibility 2, class II antigen E bet...    64   3e-10
Alignment   gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ...    64   3e-10

>ref|NP_034508.2| histocompatibility 2, class II antigen A, alpha precursor [Mus
           musculus].
          Length = 256

 Score =  340 bits (872), Expect = 1e-93
 Identities = 166/256 (64%), Positives = 187/256 (73%), Gaps = 1/256 (0%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGED-IAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFY 246
           M   R L+ G LALT ++S CGGED I ADHV +YG++VYQS G  G YT EFDGDE FY
Sbjct: 1   MPRSRALILGVLALTTMLSLCGGEDDIEADHVGTYGISVYQSPGDIGQYTFEFDGDELFY 60

Query: 247 VDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFP 426
           VDL KKETVW LP F +  SFDPQG L+NIA  KHNL +L KRSN+T A N+ P+ TVFP
Sbjct: 61  VDLDKKETVWMLPEFGQLASFDPQGGLQNIAVVKHNLGVLTKRSNSTPATNEAPQATVFP 120

Query: 427 KSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTF 606
           KSPV+LGQPNTLIC VDNIFPPVINITWL+N  SV +G  ETSF    D+SF K+SYLTF
Sbjct: 121 KSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFHKLSYLTF 180

Query: 607 LPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXX 786
           +PSDDD YDCKVEHWGL++P+LKHWEPEIPAPMSELTET                     
Sbjct: 181 IPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSELTETVVCALGLSVGLVGIVVGTIFI 240

Query: 787 XQGLRSGGPSRHQGSL 834
            QGLRSGG SRH G L
Sbjct: 241 IQGLRSGGTSRHPGPL 256


>ref|NP_032232.2| histocompatibility 2, O region alpha locus [Mus musculus].
          Length = 250

 Score =  232 bits (592), Expect = 4e-61
 Identities = 111/207 (53%), Positives = 143/207 (69%)
 Frame = +1

Query: 103 LALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQL 282
           L   + +S  G   I ADH+ SYG   YQSY  SG +THEFDG++ F VDL  +E VW+L
Sbjct: 12  LTAMSFLSPRGVRAIKADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRL 71

Query: 283 PLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTL 462
           P F  F   D Q  L +I+  K +L+IL++RSN T AV+  P VTV PK+ V LG+PN L
Sbjct: 72  PEFGDFAHSDFQSGLMSISMIKAHLDILVERSNRTRAVSVPPRVTVLPKTRVELGKPNVL 131

Query: 463 ICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKV 642
           IC VD+IFPPVIN+TWL+N   +T+G ++TSF S+ +H F K  YLTF+PS +D YDCKV
Sbjct: 132 ICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHRFRKFHYLTFVPSAEDVYDCKV 191

Query: 643 EHWGLDKPLLKHWEPEIPAPMSELTET 723
           EHWGLD PLL+HWEP++  P  +  ET
Sbjct: 192 EHWGLDTPLLQHWEPQVLTPPPDTIET 218


>ref|NP_034511.2| histocompatibility 2, class II antigen E alpha precursor [Mus
           musculus].
          Length = 255

 Score =  217 bits (553), Expect = 1e-56
 Identities = 100/172 (58%), Positives = 125/172 (72%)
 Frame = +1

Query: 205 GYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNN 384
           G +  +FDGDE F+VD+ K ET+W+L  F+KF SF+ QGAL NIA  K NL+++ +RSNN
Sbjct: 45  GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 104

Query: 385 TAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLS 564
           T   N  PEVTV  +SPV LG+PN LIC +D   PPV+N+TW +NG  VTEG SET FL 
Sbjct: 105 TPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRNGRPVTEGVSETVFLP 164

Query: 565 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
           ++DH F K  YLTFLPS DDFYDC+V+HWGL++PL KHWE E    + E TE
Sbjct: 165 RDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKTLLPETTE 216


>ref|NP_034516.3| class II histocompatibility antigen, M alpha chain precursor [Mus
           musculus].
          Length = 261

 Score = 79.0 bits (193), Expect = 7e-15
 Identities = 54/171 (31%), Positives = 78/171 (45%), Gaps = 5/171 (2%)
 Frame = +1

Query: 223 FDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILI-----KRSNNT 387
           +D DE F  D  +   V +LP F+++     QG    IA  K    +L+     K     
Sbjct: 63  YDEDELFSFDFSQNTRVPRLPDFAEWAQ--GQGDASAIAFDKSFCEMLMREVSPKLEGQI 120

Query: 388 AAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSK 567
                +P   VF   P+  G+PNTL+C + N+FPP + + W  +   V EG S TS  + 
Sbjct: 121 PVSRGLPVAEVFTLKPLEFGKPNTLVCFISNLFPPTLTVNWQLHSAPV-EGASPTSISAV 179

Query: 568 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
           +  +F   SYL F P   D Y C V H       + +W P+   P S+L E
Sbjct: 180 DGLTFQAFSYLNFTPEPFDLYSCTVTHEIDRYTAIAYWVPQNALP-SDLLE 229


>ref|NP_034519.2| histocompatibility 2, O region beta locus [Mus musculus].
          Length = 271

 Score = 70.9 bits (172), Expect = 2e-12
 Identities = 35/99 (35%), Positives = 48/99 (48%)
 Frame = +1

Query: 385 TAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLS 564
           T   N  PEVTV+P+   +L Q N L+C V   +P  I++ W +NG     G   T  + 
Sbjct: 116 TVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVR 175

Query: 565 KNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHW 681
             D +F     L  +P   D Y C VEH GL +P+   W
Sbjct: 176 NGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAW 214


>ref|NP_033865.2| beta-2-microglobulin precursor [Mus musculus].
          Length = 119

 Score = 67.4 bits (163), Expect = 2e-11
 Identities = 33/102 (32%), Positives = 57/102 (55%), Gaps = 1/102 (0%)
 Frame = +1

Query: 391 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTE-GFSETSFLSK 567
           A+ + P++ V+ + P   G+PN L C+V    PP I I  LKNG  + +   S+ SF   
Sbjct: 20  AIQKTPQIQVYSRHPPENGKPNILNCYVTQFHPPHIEIQMLKNGKKIPKVEMSDMSF--S 77

Query: 568 NDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEI 693
            D SF  +++  F P++ D Y C+V+H  + +P   +W+ ++
Sbjct: 78  KDWSFYILAHTEFTPTETDTYACRVKHASMAEPKTVYWDRDM 119


>ref|NP_034512.2| H-2 class II histocompatibility antigen, I-E beta chain precursor
           [Mus musculus].
          Length = 264

 Score = 63.9 bits (154), Expect = 2e-10
 Identities = 29/103 (28%), Positives = 48/103 (46%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           P VTV+P     L   N L+C V + +P  I + W +NG     G   T  +   D +F 
Sbjct: 124 PTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQ 183

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 714
            +  L  +P   + Y C+VEH  L  P+   W+ +  +  +++
Sbjct: 184 TLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKM 226


>ref|NP_034517.2| class II histocompatibility antigen, M beta 1 chain precursor [Mus
           musculus].
          Length = 261

 Score = 63.5 bits (153), Expect = 3e-10
 Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
 Frame = +1

Query: 400 QVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN-DH 576
           + P V V   +P    +P  L C+V   +P  + ITW+KNG  V    ++      N D 
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172

Query: 577 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 687
           ++  +SYL   PS  D Y C V+H G  +P+   W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209


>ref|NP_001029150.1| histocompatibility 2, class II antigen E beta2 [Mus musculus].
          Length = 287

 Score = 63.5 bits (153), Expect = 3e-10
 Identities = 29/103 (28%), Positives = 47/103 (45%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           P+VTV+P     L   N L+C V + +P  I + W +NG     G   T  +   D ++ 
Sbjct: 125 PKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNRDWTYQ 184

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 714
            +  L  +P   + Y C+VEH  L  P+   W     +  ++L
Sbjct: 185 TLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKL 227


>ref|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus musculus].
          Length = 261

 Score = 63.5 bits (153), Expect = 3e-10
 Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
 Frame = +1

Query: 400 QVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN-DH 576
           + P V V   +P    +P  L C+V   +P  + ITW+KNG  V    ++      N D 
Sbjct: 113 RAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGDW 172

Query: 577 SFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEP 687
           ++  +SYL   PS  D Y C V+H G  +P+   W P
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDWTP 209


  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: 36,093,442
Number of extensions: 888169
Number of successful extensions: 2686
Number of sequences better than 1.0e-05: 23
Number of HSP's gapped: 2674
Number of HSP's successfully gapped: 23
Length of query: 399
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 295
Effective length of database: 12,493,815
Effective search space: 3685675425
Effective search space used: 3685675425
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= LNG01_0073_F10
         (1199 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 ...   474   e-134
Alignment   gi|NP_001107534.2| SLA class II histocompatibility antigen, DQ ...   446   e-125
Alignment   gi|NP_001172072.1| src-like-adapter [Sus scrofa].                    262   3e-70
Alignment   gi|NP_001107178.1| MHC class II DR-alpha [Sus scrofa].               226   3e-59
Alignment   gi|NP_001004039.1| SLA-DM alpha chain [Sus scrofa].                   76   4e-14
Alignment   gi|NP_001107177.1| major histocompatibility complex, class II, ...    76   4e-14
Alignment   gi|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa].          71   1e-12
Alignment   gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ...    66   4e-11
Alignment   gi|NP_001107536.2| MHC class II, DO beta [Sus scrofa].                64   2e-10
Alignment   gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a...    64   2e-10

>ref|NP_001123696.1| SLA class II histocompatibility antigen, DQ haplotype D alpha chain
           precursor [Sus scrofa].
          Length = 255

 Score =  474 bits (1220), Expect = e-134
 Identities = 231/255 (90%), Positives = 231/255 (90%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV
Sbjct: 1   MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL KKETVWQLPLFSKF SFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK
Sbjct: 61  DLEKKETVWQLPLFSKFTSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL
Sbjct: 121 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 180

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET                      
Sbjct: 181 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFII 240

Query: 790 QGLRSGGPSRHQGSL 834
           QGLRSGGPSRHQGSL
Sbjct: 241 QGLRSGGPSRHQGSL 255


>ref|NP_001107534.2| SLA class II histocompatibility antigen, DQ haplotype C alpha chain
           precursor [Sus scrofa].
          Length = 254

 Score =  446 bits (1146), Expect = e-125
 Identities = 218/255 (85%), Positives = 225/255 (88%)
 Frame = +1

Query: 70  MVPGRVLMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYV 249
           MVPGRVLMWGALALT VMSACGGEDIAADHVASYGLNVYQSYGPSGY+THEFDGDEEFYV
Sbjct: 1   MVPGRVLMWGALALTTVMSACGGEDIAADHVASYGLNVYQSYGPSGYFTHEFDGDEEFYV 60

Query: 250 DLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPK 429
           DL KKETVW+LPLFS+F SFDPQGALRNIAT KHNLNI+ KRSNNTAAVNQVPEVTVF K
Sbjct: 61  DLEKKETVWRLPLFSEFTSFDPQGALRNIATLKHNLNIVTKRSNNTAAVNQVPEVTVFSK 120

Query: 430 SPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFL 609
           SPV+LGQPNTLICHVD+IFPPVINITWLKNGHSV +GFSETSFLSKNDHSFLKISYLTFL
Sbjct: 121 SPVILGQPNTLICHVDSIFPPVINITWLKNGHSV-KGFSETSFLSKNDHSFLKISYLTFL 179

Query: 610 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETXXXXXXXXXXXXXXXXXXXXXX 789
           PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET                      
Sbjct: 180 PSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTETVVCALGLIVGLVGIVVGTVFII 239

Query: 790 QGLRSGGPSRHQGSL 834
           QGL SGGPSRHQGSL
Sbjct: 240 QGLLSGGPSRHQGSL 254


>ref|NP_001172072.1| src-like-adapter [Sus scrofa].
          Length = 250

 Score =  262 bits (669), Expect = 3e-70
 Identities = 124/212 (58%), Positives = 153/212 (72%)
 Frame = +1

Query: 88  LMWGALALTAVMSACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKE 267
           L+ G   L  ++S      I ADH+ SYG   YQSY  SG +T++FDG++ F VDL K+E
Sbjct: 7   LVLGLHILMTLLSPQKAGAIKADHMGSYGPAFYQSYDGSGQFTYDFDGEQLFSVDLKKRE 66

Query: 268 TVWQLPLFSKFRSFDPQGALRNIATAKHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLG 447
            VW+LP FS F  FDPQ  LR IA  + +L++L++RSN+T A N  P VTV PKSPV LG
Sbjct: 67  AVWRLPEFSNFADFDPQNGLRGIALIRAHLDVLVERSNHTRATNVPPRVTVLPKSPVALG 126

Query: 448 QPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDF 627
           QPN LIC VDNIFPPVINITWL NG +VTEG ++TSF ++ DHSF K  YLTF+PS  DF
Sbjct: 127 QPNVLICIVDNIFPPVINITWLHNGQTVTEGVTQTSFYAQPDHSFRKFHYLTFVPSAGDF 186

Query: 628 YDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 723
           YDCKVEHWGLD+PL  HWEP++  P+ + TET
Sbjct: 187 YDCKVEHWGLDEPLFTHWEPQVTMPLPDTTET 218


>ref|NP_001107178.1| MHC class II DR-alpha [Sus scrofa].
          Length = 252

 Score =  226 bits (575), Expect = 3e-59
 Identities = 112/217 (51%), Positives = 133/217 (61%)
 Frame = +1

Query: 184 YQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRSFDPQGALRNIATAKHNLNI 363
           Y S   SG +  +FDGDE F+VD+ K+ETVW+L  F  F SF+ QGAL NIA  K NL I
Sbjct: 36  YLSPDKSGEFMFDFDGDEIFHVDMEKRETVWRLEEFGHFASFEAQGALANIAVDKANLEI 95

Query: 364 LIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGF 543
           LIKRSNNT   N  PEVTV    PV LG+PN LIC +D   PPV+N+TWL+NG  VT G 
Sbjct: 96  LIKRSNNTPNTNVPPEVTVLSDKPVELGEPNILICFIDKFSPPVVNVTWLRNGSPVTRGV 155

Query: 544 SETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSELTET 723
           SET FL + DH F K  YL F+PS +D YDC+VEHWGLDKPLLKHWE E   P+ E TE 
Sbjct: 156 SETVFLPREDHLFRKFHYLPFMPSTEDVYDCQVEHWGLDKPLLKHWEFEAQTPLPETTEN 215

Query: 724 XXXXXXXXXXXXXXXXXXXXXXQGLRSGGPSRHQGSL 834
                                 +G+R G  +  +G L
Sbjct: 216 TVCALGLIVALVGIIVGTVLIIKGVRKGNATERRGPL 252


>ref|NP_001004039.1| SLA-DM alpha chain [Sus scrofa].
          Length = 260

 Score = 75.9 bits (185), Expect = 4e-14
 Identities = 59/209 (28%), Positives = 90/209 (43%), Gaps = 11/209 (5%)
 Frame = +1

Query: 127 ACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRS 306
           A G  D   +H   Y +   Q   P    +  +DGD+ F  +  +   V +LP F+ +  
Sbjct: 32  APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90

Query: 307 --------FDPQGALRNIATAKHNL---NILIKRSNNTAAVNQVPEVTVFPKSPVMLGQP 453
                   F  +G  R +      L    I + R         +P   VF   P+  G+P
Sbjct: 91  QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRG--------LPIAEVFTLKPLEFGKP 142

Query: 454 NTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYD 633
           NTL+C V N+FPP + +TW ++  +  EG   T   + +D SF   SYL F P+  D + 
Sbjct: 143 NTLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFS 201

Query: 634 CKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
           C V H       + +W P+   P S+L E
Sbjct: 202 CVVTHELDGYVAISYWVPQNALP-SDLLE 229


>ref|NP_001107177.1| major histocompatibility complex, class II, DO alpha [Sus scrofa].
          Length = 260

 Score = 75.9 bits (185), Expect = 4e-14
 Identities = 59/209 (28%), Positives = 90/209 (43%), Gaps = 11/209 (5%)
 Frame = +1

Query: 127 ACGGEDIAADHVASYGLNVYQSYGPSGYYTHEFDGDEEFYVDLGKKETVWQLPLFSKFRS 306
           A G  D   +H   Y +   Q   P    +  +DGD+ F  +  +   V +LP F+ +  
Sbjct: 32  APGWRDELQNHTFQYTMYC-QDGNPEVGLSEVYDGDQLFSFNFSQNIRVPRLPEFADWAH 90

Query: 307 --------FDPQGALRNIATAKHNL---NILIKRSNNTAAVNQVPEVTVFPKSPVMLGQP 453
                   F  +G  R +      L    I + R         +P   VF   P+  G+P
Sbjct: 91  QIEDTPAIFFDKGFCREMIEKVGPLFEGKIPVSRG--------LPIAEVFTLKPLEFGKP 142

Query: 454 NTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYD 633
           NTL+C V N+FPP + +TW ++  +  EG   T   + +D SF   SYL F P+  D + 
Sbjct: 143 NTLVCFVSNLFPPALTVTW-EHHSAPVEGIGPTFVSATDDLSFQAFSYLNFTPTPSDLFS 201

Query: 634 CKVEHWGLDKPLLKHWEPEIPAPMSELTE 720
           C V H       + +W P+   P S+L E
Sbjct: 202 CVVTHELDGYVAISYWVPQNALP-SDLLE 229


>ref|NP_999143.1| beta-2-microglobulin precursor [Sus scrofa].
          Length = 118

 Score = 71.2 bits (173), Expect = 1e-12
 Identities = 38/98 (38%), Positives = 53/98 (54%)
 Frame = +1

Query: 391 AVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKN 570
           AV + P+V V+ + P   G+PN L C+V    PP I I  LKNG  +    S+ SF    
Sbjct: 20  AVARPPKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAEQSDLSF--SK 77

Query: 571 DHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWE 684
           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 = 65.9 bits (159), Expect = 4e-11
 Identities = 34/123 (27%), Positives = 51/123 (41%)
 Frame = +1

Query: 346 KHNLNILIKRSNNTAAVNQVPEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGH 525
           KHN  I       T      P VT+ P     L   N L+C V + +P  + + W +NG 
Sbjct: 112 KHNYQI---EEGTTLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQ 168

Query: 526 SVTEGFSETSFLSKNDHSFLKISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPM 705
             T G   T  +   D ++  +  L       D Y C+VEH  L  P+L  W  +  +  
Sbjct: 169 EETAGVVSTPLIRNGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQ 228

Query: 706 SEL 714
           S++
Sbjct: 229 SKM 231


>ref|NP_001107536.2| MHC class II, DO beta [Sus scrofa].
          Length = 277

 Score = 63.9 bits (154), Expect = 2e-10
 Identities = 33/103 (32%), Positives = 45/103 (43%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           PEVTV P+    L   N L+C V   +P  I I W +NG    EG   T  +   D +F 
Sbjct: 136 PEVTVHPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLIRNGDWTFQ 195

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPEIPAPMSEL 714
            +  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 = 63.5 bits (153), Expect = 2e-10
 Identities = 28/95 (29%), Positives = 42/95 (44%)
 Frame = +1

Query: 406 PEVTVFPKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHSVTEGFSETSFLSKNDHSFL 585
           P VTV+P     L   N L+C V   +P  + + W +NG     G   T  +   D +F 
Sbjct: 126 PTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 185

Query: 586 KISYLTFLPSDDDFYDCKVEHWGLDKPLLKHWEPE 690
            +  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: 26,886,009
Number of extensions: 705310
Number of successful extensions: 1859
Number of sequences better than 1.0e-05: 27
Number of HSP's gapped: 1845
Number of HSP's successfully gapped: 27
Length of query: 399
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 298
Effective length of database: 8,829,335
Effective search space: 2631141830
Effective search space used: 2631141830
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= LNG01_0073_F10
         (1199 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                                                         559   e-156

>Sscrofa_Chr07 
||          Length = 134764511

 Score =  559 bits (282), Expect = e-156
 Identities = 282/282 (100%)
 Strand = Plus / Plus

                                                                            
Query: 401      aggttcctgaggtgactgtgtttcccaagtctccagtgatgctgggtcagcccaacaccc 460
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169480 aggttcctgaggtgactgtgtttcccaagtctccagtgatgctgggtcagcccaacaccc 29169539

                                                                            
Query: 461      tcatctgtcatgtggacaacatctttcctcctgtgatcaacatcacgtggttgaagaacg 520
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169540 tcatctgtcatgtggacaacatctttcctcctgtgatcaacatcacgtggttgaagaacg 29169599

                                                                            
Query: 521      ggcactctgtcacagaaggtttttctgagaccagcttcctctccaaaaatgatcattcct 580
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169600 ggcactctgtcacagaaggtttttctgagaccagcttcctctccaaaaatgatcattcct 29169659

                                                                            
Query: 581      tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 640
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169660 tcctcaagatcagttatctcaccttcctcccttctgatgatgatttttatgactgcaaag 29169719

                                                          
Query: 641      tggagcactggggcctggataagccacttctgaaacactggg 682
                ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29169720 tggagcactggggcctggataagccacttctgaaacactggg 29169761



 Score =  496 bits (250), Expect = e-137
 Identities = 250/250 (100%)
 Strand = Plus / Plus

                                                                            
Query: 151      gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggtcccagcggctat 210
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29168779 gccgaccatgttgcctcctatggcttaaatgtctaccagtcttacggtcccagcggctat 29168838

                                                                            
Query: 211      tatacccatgaatttgatggcgacgaggaattctacgtggacctggggaagaaggagact 270
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29168839 tatacccatgaatttgatggcgacgaggaattctacgtggacctggggaagaaggagact 29168898

                                                                            
Query: 271      gtctggcagctgcctctgtttagcaaatttagaagttttgacccacagggtgcactgagg 330
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29168899 gtctggcagctgcctctgtttagcaaatttagaagttttgacccacagggtgcactgagg 29168958

                                                                            
Query: 331      aacatagctacggcaaaacataatttgaacatcctgattaaacgttccaacaacaccgcg 390
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29168959 aacatagctacggcaaaacataatttgaacatcctgattaaacgttccaacaacaccgcg 29169018

                          
Query: 391      gctgtcaatc 400
                ||||||||||
Sbjct: 29169019 gctgtcaatc 29169028



 Score =  353 bits (178), Expect = 1e-94
 Identities = 178/178 (100%)
 Strand = Plus / Plus

                                                                            
Query: 682      gaacctgagattccagcccccatgtcagagctgacagagacagtggtctgcgccctggga 741
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170000 gaacctgagattccagcccccatgtcagagctgacagagacagtggtctgcgccctggga 29170059

                                                                            
Query: 742      ttgatcgtgggccttgtgggcatcgtggtgggcactgtcttcatcattcaaggcctacgc 801
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170060 ttgatcgtgggccttgtgggcatcgtggtgggcactgtcttcatcattcaaggcctacgc 29170119

                                                                          
Query: 802      tcaggtggtccctctagacaccaagggtccttgtgagtcacactccagaagggaaggt 859
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170120 tcaggtggtccctctagacaccaagggtccttgtgagtcacactccagaagggaaggt 29170177



 Score =  339 bits (171), Expect = 2e-90
 Identities = 187/195 (95%)
 Strand = Plus / Plus

                                                                            
Query: 977      ggaacttaaggtgctgtgtcatctcagaattcatatgcccttggaatcctcttcctgacc 1036
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170461 ggaacttaaggtgctgtgtcatctcagaattcatatgcccttggaatcctcttcctgacc 29170520

                                                                            
Query: 1037     ttctaggnnnnnnnncttttctcagttgttacctgttatgggatctctgagatatcccac 1096
                |||||||        |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170521 ttctaggttttttttcttttctcagttgttacctgttatgggatctctgagatatcccac 29170580

                                                                            
Query: 1097     tcggctacctgatccctcagtgaccctaaactaatatgtacatggaaacaataaatcact 1156
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170581 tcggctacctgatccctcagtgaccctaaactaatatgtacatggaaacaataaatcact 29170640

                               
Query: 1157     tcatgaggtttttgt 1171
                |||||||||||||||
Sbjct: 29170641 tcatgaggtttttgt 29170655



 Score =  260 bits (131), Expect = 2e-66
 Identities = 134/135 (99%)
 Strand = Plus / Plus

                                                                            
Query: 17       atcattgctctacaactccgaagagcaacagctgagaccaccttgagaagagcatggtcc 76
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29164977 atcattgctctacaactccgaagagcaacagctgagaccaccttgagaagagcatggtcc 29165036

                                                                            
Query: 77       caggccgagttctgatgtggggggccctcgccctgaccgccgtgatgagcgcctgtggag 136
                ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 29165037 caggccgagttctgatgtggggggccctcgccctgaccgccttgatgagcgcctgtggag 29165096

                               
Query: 137      gtgaagacattgcgg 151
                |||||||||||||||
Sbjct: 29165097 gtgaagacattgcgg 29165111



 Score =  165 bits (83), Expect = 7e-38
 Identities = 83/83 (100%)
 Strand = Plus / Plus

                                                                            
Query: 856      aggtgcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactatt 915
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29170340 aggtgcactgcccgcctacaagagctgaagagtggatgtgctcaacgacctagaactatt 29170399

                                       
Query: 916      ttctggccaaattcatcatatac 938
                |||||||||||||||||||||||
Sbjct: 29170400 ttctggccaaattcatcatatac 29170422



 Score = 63.9 bits (32), Expect = 2e-07
 Identities = 32/32 (100%)
 Strand = Plus / Minus

                                                
Query: 628      tatgactgcaaagtggagcactggggcctgga 659
                ||||||||||||||||||||||||||||||||
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: 32,906,777
Number of extensions: 206
Number of successful extensions: 206
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 206
Number of HSP's successfully gapped: 8
Length of query: 1199
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1178
Effective length of database: 2,808,413,156
Effective search space: 3308310697768
Effective search space used: 3308310697768
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)