Animal-Genome cDNA 20110601C-000964

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-000964
         (1211 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_001012698.2| major histocompatibility complex, class II, ...   416   e-116
Alignment   gi|XP_001253929.2| PREDICTED: major histocompatibility complex,...   394   e-109
Alignment   gi|XP_002697362.1| PREDICTED: histocompatibility complex, class...   352   5e-97
Alignment   gi|XP_582099.3| PREDICTED: histocompatibility complex, class II...   352   5e-97
Alignment   gi|NP_001074392.1| MHC cell surface glycoprotein [Bos taurus].       319   4e-87
Alignment   gi|NP_001029840.2| boLa class II histocompatibility antigen, DQ...   308   5e-84
Alignment   gi|NP_001077254.1| MHC class II antigen DS beta [Bos taurus].        300   2e-81
Alignment   gi|NP_001012694.2| major histocompatibility complex, class II, ...   296   2e-80
Alignment   gi|NP_001012697.1| major histocompatibility complex, class II, ...   264   1e-70
Alignment   gi|NP_001013618.1| major histocompatibility complex, class II, ...   260   2e-69

>ref|NP_001012698.2| major histocompatibility complex, class II, DRB3 [Bos taurus].
          Length = 266

 Score =  416 bits (1068), Expect = e-116
 Identities = 199/266 (74%), Positives = 219/266 (82%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L FS G WMAAL +ML+VL PPLA AR+  PHFL   K ECHFFNGTERVRFLDR+F
Sbjct: 1   MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YNG+E+VRFDSD GEFR VTE GRP A++WNSQKDF+EQKRAEVD VCRHNY  +E+F V
Sbjct: 61  YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQTMVMLETVPQSGEVYTC+V+HP  TSP+TVEWRARS+SAQ KMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKGRP LQPTGLLS
Sbjct: 241 FLAVGLFIYFRNQKGRPTLQPTGLLS 266


>ref|XP_001253929.2| PREDICTED: major histocompatibility complex, class II, DR beta
           3-like [Bos taurus].
          Length = 266

 Score =  394 bits (1011), Expect = e-109
 Identities = 190/263 (72%), Positives = 212/263 (80%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L FS G WMAAL +ML+VL PPLA AR+  PHFL   K ECHFFNGTERVRFLDRYF
Sbjct: 1   MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKRECHFFNGTERVRFLDRYF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           +NG+EYVRFDSD GE+R VTE G+  A+Y NSQKDF+E+ RA VDT CRHNY + E+F V
Sbjct: 61  HNGEEYVRFDSDWGEYRAVTELGQRVAEYCNSQKDFLERARAAVDTYCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPIVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQTMVMLETVPQSGEVYTC+VEHPS TSP+TVEWRA+S+SAQ KMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPITVEWRAQSDSAQSKMMSGVRVFALGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTG 856
                   +F+NQKG PALQPTG
Sbjct: 241 FLVVGLFTHFRNQKGHPALQPTG 263


>ref|XP_002697362.1| PREDICTED: histocompatibility complex, class II, DR beta 2 [Bos
           taurus].
          Length = 365

 Score =  352 bits (902), Expect = 5e-97
 Identities = 170/253 (67%), Positives = 193/253 (76%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           MAAL ++L+VLS P + AR+T PHF+   K EC F NG ER+RF  RY YN  E V FDS
Sbjct: 1   MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60

Query: 281 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVY 460
           DVGEF  +TE GR DA+YWN QKDFMEQ RA+VDT+CR NY+ + +FL  RR EP VTVY
Sbjct: 61  DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120

Query: 461 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 640
           PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N  EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180

Query: 641 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 820
           TVPQSGEVYTC+VEHPS TSP+TVEWRA+S+SAQ KMMSG                 +F+
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240

Query: 821 NQKGRPALQPTGL 859
           NQKG   LQPTG+
Sbjct: 241 NQKGHSGLQPTGI 253


>ref|XP_582099.3| PREDICTED: histocompatibility complex, class II, DR beta 2 [Bos
           taurus].
          Length = 365

 Score =  352 bits (902), Expect = 5e-97
 Identities = 170/253 (67%), Positives = 193/253 (76%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           MAAL ++L+VLS P + AR+T PHF+   K EC F NG ER+RF  RY YN  E V FDS
Sbjct: 1   MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60

Query: 281 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVY 460
           DVGEF  +TE GR DA+YWN QKDFMEQ RA+VDT+CR NY+ + +FL  RR EP VTVY
Sbjct: 61  DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120

Query: 461 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 640
           PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N  EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180

Query: 641 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 820
           TVPQSGEVYTC+VEHPS TSP+TVEWRA+S+SAQ KMMSG                 +F+
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240

Query: 821 NQKGRPALQPTGL 859
           NQKG   LQPTG+
Sbjct: 241 NQKGHSGLQPTGI 253


>ref|NP_001074392.1| MHC cell surface glycoprotein [Bos taurus].
          Length = 261

 Score =  319 bits (817), Expect = 4e-87
 Identities = 153/257 (59%), Positives = 187/257 (72%)
 Frame = +2

Query: 62  SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 241
           S M+ L   RG W+AA+ ++LVVLS P A  RD+P  FL     +C+F NGTERVR + R
Sbjct: 2   SGMVALWIPRGLWIAAVMVILVVLSTPGAEGRDSPQDFLVQFLGQCYFTNGTERVRSVTR 61

Query: 242 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 421
           Y YN +EYVRFDSDV E+R VT  GRP A+YWNSQ+D +E+ RAEVDTVCRHNY++    
Sbjct: 62  YIYNREEYVRFDSDVNEYRAVTPLGRPSAEYWNSQEDILERVRAEVDTVCRHNYQLELIT 121

Query: 422 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 601
            + RR EP VT+ P++T+ L HHNLLVCSVT FYPG ++VRWFRN QEE AGVVST LI 
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPGQIKVRWFRNDQEETAGVVSTPLIR 181

Query: 602 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 781
           NGDWTFQ +VMLE  PQ G+VYTC VEHPSL SP+TVEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 782 XXXXXXXXXIYFKNQKG 832
                    ++ ++QKG
Sbjct: 242 LIFLGLGLIVHHRSQKG 258


>ref|NP_001029840.2| boLa class II histocompatibility antigen, DQB*0101 beta chain
           precursor [Bos taurus].
          Length = 261

 Score =  308 bits (790), Expect = 5e-84
 Identities = 149/257 (57%), Positives = 181/257 (70%)
 Frame = +2

Query: 62  SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 241
           S M+ L   RG W A + + LV+LS P A  RD+P  F+   K  C+F NGTERVR++ R
Sbjct: 2   SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61

Query: 242 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 421
           Y YN +EYVRFDSD   +R +T  GRPDA+YWNSQKDF+EQ RAE DTVCRHNY+     
Sbjct: 62  YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121

Query: 422 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 601
            + RR EP VT+ P++T+ L HHNLLVCSVT FYP  ++VRWFRN +EE AGVVST LI 
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181

Query: 602 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 781
           NGDWTFQ +VMLE  PQ G+VYTC VEHPSL SP+ VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 782 XXXXXXXXXIYFKNQKG 832
                    I+ ++QKG
Sbjct: 242 LIFLGLGLIIHHRSQKG 258


>ref|NP_001077254.1| MHC class II antigen DS beta [Bos taurus].
          Length = 260

 Score =  300 bits (768), Expect = 2e-81
 Identities = 145/232 (62%), Positives = 172/232 (74%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L F  G W   L ++L+VLSP LA A +T   F+  GK+ECHF NGT++VRFLDRY 
Sbjct: 1   MVCLWFPPGSWTVILPVILMVLSPLLAWAGNTRTFFMVQGKSECHFSNGTQQVRFLDRYI 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E V+FDS VGE+R  TE GRP A+ WN     +++ RA V   C  NYE   +  V
Sbjct: 61  YNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAFCASNYEFFASRTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVRWFRNGQE+ AGVVSTGLIPNG
Sbjct: 121 QRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEKEAGVVSTGLIPNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 763
           DWTFQ MVMLE VPQ GEVY C VEHPS  SPV+VEWRA+ +S+Q KM+SGI
Sbjct: 181 DWTFQIMVMLEIVPQGGEVYACHVEHPSRMSPVSVEWRAQDKSSQEKMLSGI 232


>ref|NP_001012694.2| major histocompatibility complex, class II, DQ beta [Bos taurus].
          Length = 261

 Score =  296 bits (759), Expect = 2e-80
 Identities = 142/257 (55%), Positives = 182/257 (70%)
 Frame = +2

Query: 62  SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 241
           S M+ L   RG W AA+ + L VLS P A  RD+P   +     +C+F NGTERVR++ R
Sbjct: 2   SGMVALWIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMCQCYFTNGTERVRYVTR 61

Query: 242 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 421
           Y YN +E   +DSDVGE+R VT+ GR  A+YWNSQKD +EQ RAE+DTVCRHNY++    
Sbjct: 62  YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121

Query: 422 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 601
            + R+ EP VT+  ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI 
Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181

Query: 602 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 781
           NGDWTFQ +VMLE  P+ G+VYTCRVEHPSL SP++VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCRVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 782 XXXXXXXXXIYFKNQKG 832
                    +  ++QKG
Sbjct: 242 LIFLGLGLIVRRRSQKG 258


>ref|NP_001012697.1| major histocompatibility complex, class II, DY beta [Bos taurus].
          Length = 259

 Score =  264 bits (674), Expect = 1e-70
 Identities = 129/215 (60%), Positives = 154/215 (71%)
 Frame = +2

Query: 119 MLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFR 298
           + +VL  P A  RD P +F++  K  C+F NGTE VR + R  YN +E + FDSD+GEF 
Sbjct: 19  VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78

Query: 299 EVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQP 478
            VTE GR  A+ WN+QKD + + RA VDT+CRHNY+    F V RR EP VTV PA T+ 
Sbjct: 79  AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138

Query: 479 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 658
           L HHNLLVCSVT FYP  V+V+WFRN QE+ AGV  T L  NGDWT+Q  VMLETVPQ G
Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198

Query: 659 EVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 763
           +VY C V+HPSL SP+TVEWRA+SESAQ KM SGI
Sbjct: 199 DVYVCHVDHPSLQSPITVEWRAQSESAQSKMQSGI 233


>ref|NP_001013618.1| major histocompatibility complex, class II, DO beta [Bos taurus].
          Length = 271

 Score =  260 bits (664), Expect = 2e-69
 Identities = 122/246 (49%), Positives = 162/246 (65%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           W+       + L   +   RD+P  F+   KA+C+F NGTE+VRF+ R+ +N ++Y RFD
Sbjct: 8   WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           SD+G F  +TE G+PDA+ WN++ D + + RA VD +CR NY +   F V RR +P VTV
Sbjct: 68  SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           YP KT  LQH NLL+C VTGFYPG ++V WFRNGQE+  G++STGLI NGDWTFQ  VML
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
              P+ GEVYTC V+HPSL SPV+VEWRA+SE +  K++SG                ++ 
Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247

Query: 818 KNQKGR 835
           +  KGR
Sbjct: 248 RAWKGR 253


  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: 49,447,045
Number of extensions: 1479949
Number of successful extensions: 6109
Number of sequences better than 1.0e-05: 69
Number of HSP's gapped: 6051
Number of HSP's successfully gapped: 69
Length of query: 403
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 298
Effective length of database: 14,207,134
Effective search space: 4233725932
Effective search space used: 4233725932
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)

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-000964
         (1211 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_001014768.1| DLA class II histocompatibility antigen, DR-...   392   e-109
Alignment   gi|NP_001014403.1| major histocompatibility complex, class II, ...   339   3e-93
Alignment   gi|NP_001041592.1| major histocompatibility complex, class II, ...   285   6e-77
Alignment   gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein...    74   4e-13
Alignment   gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati...    73   5e-13
Alignment   gi|NP_001018646.1| MHC class Ib [Canis lupus familiaris].             70   5e-12
Alignment   gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam...    68   2e-11
Alignment   gi|NP_001014767.1| MHC class I DLA-88 [Canis lupus familiaris].       68   2e-11
Alignment   gi|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris].           67   3e-11
Alignment   gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati...    66   8e-11

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

 Score =  392 bits (1007), Expect = e-109
 Identities = 186/266 (69%), Positives = 213/266 (80%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ LCF  G WM AL ++L+VL+PP A ARDTPPHFL + K+EC+F NGTERVRF++RY 
Sbjct: 1   MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           +N +E+VRFDSDVGEFR VTE GRP A+ WN QK+ +EQ+RA VDT CRHNY ++E+F V
Sbjct: 61  HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQ +VMLE VPQSGEVYTC+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI        
Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTGLLS
Sbjct: 241 FLAVGLFIYFRNQKGHSGLQPTGLLS 266


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

 Score =  339 bits (870), Expect = 3e-93
 Identities = 165/267 (61%), Positives = 195/267 (73%)
 Frame = +2

Query: 62  SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 241
           S  + LC  RGFW AA+ M+LVVLS P+A  RD+P  F+F  KAEC+F NGTERVR L +
Sbjct: 2   SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61

Query: 242 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 421
           Y YN +E+VRFDSDVGEFR VTE GRPDA+YWN QKD M++ RAE+DTVCRHNY   E  
Sbjct: 62  YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121

Query: 422 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 601
            + RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI 
Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181

Query: 602 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 781
           NGDWTFQ +VMLE  PQ G+VYTC VEH SL SP+TV+WRA+SESAQ KM+SGI      
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241

Query: 782 XXXXXXXXXIYFKNQKGRPALQPTGLL 862
                    I  ++QKG     P GLL
Sbjct: 242 LIFLGLGLIIRHRSQKGSRGSPPAGLL 268


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

 Score =  285 bits (729), Expect = 6e-77
 Identities = 135/253 (53%), Positives = 173/253 (68%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           WM AL + +  L   +   RD+P  F+   KA+C+F NGTE+V+F+ R+ +N +EY RFD
Sbjct: 8   WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           S VG F  +TE G+PDA+ WNSQ   +E+ RA VD +CRHNYE+   F V R+ +P VTV
Sbjct: 68  SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           YP +T  +QHHNLL+CSVTGFYPG ++++WFRNGQEE  GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
           E  P+ G+VYTC V HPSL SPV+VEWRA+S  +  KM+SGI               I  
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247

Query: 818 KNQKGRPALQPTG 856
           + QKG    Q +G
Sbjct: 248 RAQKGYVETQFSG 260


>ref|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein precursor
           (Zn-alpha-2-glycoprotein) (Zn-alpha-2-GP) [Canis
           familiaris].
          Length = 315

 Score = 73.6 bits (179), Expect = 4e-13
 Identities = 54/219 (24%), Positives = 103/219 (47%), Gaps = 8/219 (3%)
 Frame = +2

Query: 116 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEF 295
           + +V L   +   +D      F G   C   N      F  RY Y+G  ++ F+ ++  +
Sbjct: 96  IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154

Query: 296 REVTEFGRPDAKYWNSQKDFMEQKRAEVDTVC----RHNYEILETFLVPRRAEPRVTVYP 463
                      K W +++ ++++ +A ++  C    +   E  +T+L  R+  P V++  
Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYL-DRQEPPSVSITS 213

Query: 464 AKTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGVVSTGLIPNGDWTFQTMVML 637
             T   +    L C V+GFYP  +++ W +  + QE  +G     L+P+G+ T+Q  V++
Sbjct: 214 HGTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVM 268

Query: 638 ETVPQ--SGEVYTCRVEHPSLTSPVTVEWRARSESAQGK 748
              PQ  +   Y+C V+H SL+ P+TV W  R  + + +
Sbjct: 269 SASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307


>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 = 73.2 bits (178), Expect = 5e-13
 Identities = 40/127 (31%), Positives = 61/127 (48%), Gaps = 1/127 (0%)
 Frame = +2

Query: 341 SQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGF 520
           +Q++++ Q+ +     C  + +     L  R   P V V  +     +   +L C V GF
Sbjct: 81  NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140

Query: 521 YPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLT 697
           YP  V + W +NGQ   +   +  +  PNGDWT+QT+  L T P   + YTC VEH    
Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200

Query: 698 SPVTVEW 718
            PV  +W
Sbjct: 201 EPVCEDW 207


>ref|NP_001018646.1| MHC class Ib [Canis lupus familiaris].
          Length = 381

 Score = 69.7 bits (169), Expect = 5e-12
 Identities = 47/178 (26%), Positives = 80/178 (44%), Gaps = 7/178 (3%)
 Frame = +2

Query: 224 VRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS------QKDFMEQKRAEVDT 385
           +R   R+ Y+G +Y+    D+  +       +   + W++      +K+F+E +  E   
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197

Query: 386 VCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 562
           + RH     ET    +RA+P  T      +P+  H + L C   GFYP  + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252

Query: 563 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 736
           ++          P GD TFQ    +       + YTC + H SLT P+T+ W    +S
Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQS 310


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

 Score = 68.2 bits (165), Expect = 2e-11
 Identities = 45/158 (28%), Positives = 67/158 (42%), Gaps = 1/158 (0%)
 Frame = +2

Query: 248 YNGDEYVRFDSDVGE-FREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFL 424
           ++GDE    D +  E    + EFGR  +         +   +A +DT+ + +     T  
Sbjct: 51  FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108

Query: 425 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 604
                 P VTV       L   N+L+C +  F P  + V W RNG     GV  T  +P 
Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165

Query: 605 GDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
            D  F+    L  +P + +VY C+VEH  L  P+   W
Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203


>ref|NP_001014767.1| MHC class I DLA-88 [Canis lupus familiaris].
          Length = 361

 Score = 67.8 bits (164), Expect = 2e-11
 Identities = 49/181 (27%), Positives = 75/181 (41%), Gaps = 7/181 (3%)
 Frame = +2

Query: 197 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAE 376
           C    G   +R   +  Y+G +Y+  + D+  +       +   + W +     E  R  
Sbjct: 125 CDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAAGT-AEHDRNY 183

Query: 377 VDTVC----RHNYEILETFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYPGHV 535
           ++T C    R   E+ +  L+  RAEP   RVT +P       H   L C   GFYP  +
Sbjct: 184 LETTCVEWLRRYLEMGKETLL--RAEPPSTRVTRHPIS----DHEVTLRCWALGFYPAEI 237

Query: 536 EVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVE 715
            + W R+G+++          P GD TFQ    +       + YTC V+H  L  PVT  
Sbjct: 238 TLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPVTRR 297

Query: 716 W 718
           W
Sbjct: 298 W 298


>ref|XP_855624.1| PREDICTED: MHC class Ib [Canis familiaris].
          Length = 381

 Score = 67.4 bits (163), Expect = 3e-11
 Identities = 46/178 (25%), Positives = 79/178 (44%), Gaps = 7/178 (3%)
 Frame = +2

Query: 224 VRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS------QKDFMEQKRAEVDT 385
           +R   R+ Y+G +Y+    D+  +       +   + W++      +K+F+E +  E   
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAATVAENRKNFLEGRCLE--W 197

Query: 386 VCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQ 562
           + RH     ET    +RA+P  T      +P+  H + L C   GFYP  + + W R+G+
Sbjct: 198 LRRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGE 252

Query: 563 EEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSES 736
           ++          P GD TFQ    +       + YTC + H SL  P+T+ W    +S
Sbjct: 253 DQTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLPKPITLRWEPPPQS 310


>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 = 65.9 bits (159), Expect = 8e-11
 Identities = 32/92 (34%), Positives = 44/92 (47%)
 Frame = +2

Query: 443 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 622
           PRV V P     L   N+L+C V   +P  + + W RNGQ  + GV  T      D  F+
Sbjct: 90  PRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPDHLFR 149

Query: 623 TMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
               L  VP + ++Y C+VEH  L  P+   W
Sbjct: 150 KFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHW 181


  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: 51,539,435
Number of extensions: 1519299
Number of successful extensions: 5757
Number of sequences better than 1.0e-05: 24
Number of HSP's gapped: 5725
Number of HSP's successfully gapped: 24
Length of query: 403
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 298
Effective length of database: 15,374,224
Effective search space: 4581518752
Effective search space used: 4581518752
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)

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-000964
         (1211 letters)

Database: RefSeq49_HP.fasta 
           32,964 sequences; 18,297,164 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_002115.2| major histocompatibility complex, class II, DR ...   392   e-109
Alignment   gi|NP_001230894.1| major histocompatibility complex, class II, ...   386   e-107
Alignment   gi|XP_003119340.1| PREDICTED: HLA class II histocompatibility a...   384   e-107
Alignment   gi|XP_003119339.1| PREDICTED: HLA class II histocompatibility a...   384   e-107
Alignment   gi|XP_003119308.1| PREDICTED: HLA class II histocompatibility a...   384   e-107
Alignment   gi|XP_003119307.1| PREDICTED: HLA class II histocompatibility a...   384   e-107
Alignment   gi|NP_002116.2| major histocompatibility complex, class II, DR ...   378   e-105
Alignment   gi|NP_072049.2| major histocompatibility complex, class II, DR ...   377   e-105
Alignment   gi|NP_068818.4| major histocompatibility complex, class II, DR ...   374   e-103
Alignment   gi|XP_003119341.1| PREDICTED: HLA class II histocompatibility a...   353   1e-97

>ref|NP_002115.2| major histocompatibility complex, class II, DR beta 1 precursor
           [Homo sapiens].
          Length = 266

 Score =  392 bits (1007), Expect = e-109
 Identities = 189/266 (71%), Positives = 214/266 (80%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  M ALT+ L+VLS PLAL+ DT P FL+  K ECHFFNGTERVRFLDRYF
Sbjct: 1   MVCLKLPGGSCMTALTVTLMVLSSPLALSGDTRPRFLWQPKRECHFFNGTERVRFLDRYF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E VRFDSDVGEFR VTE GRPDA+YWNSQKD +EQ RA VDT CRHNY ++E+F V
Sbjct: 61  YNQEESVRFDSDVGEFRAVTELGRPDAEYWNSQKDILEQARAAVDTYCRHNYGVVESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR +P+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWF NGQEE AG+VSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFLNGQEEKAGMVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|NP_001230894.1| major histocompatibility complex, class II, DR beta 1 precursor
           [Homo sapiens].
          Length = 266

 Score =  386 bits (992), Expect = e-107
 Identities = 186/266 (69%), Positives = 210/266 (78%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MA LT+ L+VLS PLALA DT P FL    +ECHFFNGTERVR+LDRYF
Sbjct: 1   MVCLRLPGGSCMAVLTVTLMVLSSPLALAGDTRPRFLEYSTSECHFFNGTERVRYLDRYF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           +N +E VRFDSDVGEFR VTE GRPDA+YWNSQKD +EQKR  VD  CRHNY ++E+F V
Sbjct: 61  HNQEENVRFDSDVGEFRAVTELGRPDAEYWNSQKDLLEQKRGRVDNYCRHNYGVVESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE  GVVSTGLI NG
Sbjct: 121 QRRVHPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKTGVVSTGLIHNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQP G LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPRGFLS 266


>ref|XP_003119340.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
           chain-like isoform 2 [Homo sapiens].
          Length = 266

 Score =  384 bits (986), Expect = e-107
 Identities = 186/266 (69%), Positives = 212/266 (79%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MAALT+ L+VLS PLALA DT P FL+ GK +CHFFNGTERV+FL+R F
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E+VRFDSDVGE+R VTE GRP A+ WNSQKD +E +R +VDTVCRHNY + E+F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|XP_003119339.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
           chain-like isoform 1 [Homo sapiens].
          Length = 266

 Score =  384 bits (986), Expect = e-107
 Identities = 186/266 (69%), Positives = 212/266 (79%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MAALT+ L+VLS PLALA DT P FL+ GK +CHFFNGTERV+FL+R F
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E+VRFDSDVGE+R VTE GRP A+ WNSQKD +E +R +VDTVCRHNY + E+F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|XP_003119308.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
           chain-like isoform 2 [Homo sapiens].
          Length = 266

 Score =  384 bits (986), Expect = e-107
 Identities = 186/266 (69%), Positives = 212/266 (79%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MAALT+ L+VLS PLALA DT P FL+ GK +CHFFNGTERV+FL+R F
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E+VRFDSDVGE+R VTE GRP A+ WNSQKD +E +R +VDTVCRHNY + E+F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|XP_003119307.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
           chain-like isoform 1 [Homo sapiens].
          Length = 266

 Score =  384 bits (986), Expect = e-107
 Identities = 186/266 (69%), Positives = 212/266 (79%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MAALT+ L+VLS PLALA DT P FL+ GK +CHFFNGTERV+FL+R F
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E+VRFDSDVGE+R VTE GRP A+ WNSQKD +E +R +VDTVCRHNY + E+F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|NP_002116.2| major histocompatibility complex, class II, DR beta 5 precursor
           [Homo sapiens].
          Length = 266

 Score =  378 bits (971), Expect = e-105
 Identities = 185/266 (69%), Positives = 209/266 (78%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G +MA LT+ L+VLS PLALA DT P FL   K ECHFFNGTERVRFL R  
Sbjct: 1   MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E +RFDSDVGE+R VTE GRPDA+YWNSQKDF+E +RA VDT CRHNY + E+F V
Sbjct: 61  YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+TSP+TVEWRA+SESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYFKNQKG   L PTGL+S
Sbjct: 241 FLGAGLFIYFKNQKGHSGLHPTGLVS 266


>ref|NP_072049.2| major histocompatibility complex, class II, DR beta 3 precursor
           [Homo sapiens].
          Length = 266

 Score =  377 bits (969), Expect = e-105
 Identities = 184/266 (69%), Positives = 210/266 (78%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  +AALT+ L+VLS  LA A DT P FL L K+ECHFFNGTERVR+LDRYF
Sbjct: 1   MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           +N +E++RFDSDVGE+R VTE GRP A+ WNSQKD +EQKR  VD  CRHNY + E+F V
Sbjct: 61  HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR  P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+TS +TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


>ref|NP_068818.4| major histocompatibility complex, class II, DR beta 4 precursor
           [Homo sapiens].
          Length = 266

 Score =  374 bits (960), Expect = e-103
 Identities = 180/266 (67%), Positives = 209/266 (78%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L    G  MAALT+ L VLS PLALA DT P FL   K ECHF NGTERV  L RY 
Sbjct: 1   MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +EY R++SD+GE++ VTE GRPDA+YWNSQKD +E++RAEVDT CR+NY ++E+F V
Sbjct: 61  YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
            RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV+W ARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYF+NQKG   LQPTGLLS
Sbjct: 241 FLGTGLFIYFRNQKGHSGLQPTGLLS 266


>ref|XP_003119341.1| PREDICTED: HLA class II histocompatibility antigen, DRB1-7 beta
           chain-like isoform 3 [Homo sapiens].
          Length = 264

 Score =  353 bits (907), Expect = 1e-97
 Identities = 166/231 (71%), Positives = 189/231 (81%)
 Frame = +2

Query: 173 FLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKD 352
           FL+ GK +CHFFNGTERV+FL+R FYN +E+VRFDSDVGE+R VTE GRP A+ WNSQKD
Sbjct: 34  FLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKD 93

Query: 353 FMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 532
            +E +R +VDTVCRHNY + E+F V RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG 
Sbjct: 94  ILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 153

Query: 533 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTV 712
           +EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVYTC+VEHPS+ SP+TV
Sbjct: 154 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 213

Query: 713 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 865
           EWRARSESAQ KM+SG+               IYF+NQKG   LQPTG LS
Sbjct: 214 EWRARSESAQSKMLSGVGGFVLGLLFLGAGLFIYFRNQKGHSGLQPTGFLS 264


  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: 50,642,462
Number of extensions: 1499007
Number of successful extensions: 5736
Number of sequences better than 1.0e-05: 75
Number of HSP's gapped: 5686
Number of HSP's successfully gapped: 75
Length of query: 403
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 298
Effective length of database: 14,835,944
Effective search space: 4421111312
Effective search space used: 4421111312
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)

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-000964
         (1211 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_034512.2| H-2 class II histocompatibility antigen, I-E be...   380   e-105
Alignment   gi|NP_001029150.1| histocompatibility 2, class II antigen E bet...   305   4e-83
Alignment   gi|NP_996988.2| histocompatibility 2, class II antigen A, beta ...   292   3e-79
Alignment   gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ...   258   5e-69
Alignment   gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ...    79   9e-15
Alignment   gi|NP_034517.2| class II histocompatibility antigen, M beta 1 c...    77   4e-14
Alignment   gi|XP_003086107.1| PREDICTED: class II histocompatibility antig...    77   4e-14
Alignment   gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha...    72   7e-13
Alignment   gi|NP_032235.1| major histocompatibility complex class I-relate...    71   1e-12
Alignment   gi|NP_038506.2| zinc-alpha-2-glycoprotein precursor [Mus muscul...    67   3e-11

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

 Score =  380 bits (976), Expect = e-105
 Identities = 179/255 (70%), Positives = 210/255 (82%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           +AA+ ++L VLSPP+AL RD+ P FL   K+ECHF+NGT+RVR L+RYFYN +E +RFDS
Sbjct: 10  VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRLLERYFYNLEENLRFDS 69

Query: 281 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVY 460
           DVGEFR VTE GRPDA+ WNSQ +F+EQKRAEVDTVCRHNYEI + FLV RR EP VTVY
Sbjct: 70  DVGEFRAVTELGRPDAENWNSQPEFLEQKRAEVDTVCRHNYEISDKFLVRRRVEPTVTVY 129

Query: 461 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 640
           P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE  G+VSTGL+ NGDWTFQT+VMLE
Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189

Query: 641 TVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 820
           TVPQSGEVYTC+VEHPSLT PVTVEW+A+S SAQ KM+SG+               IYF+
Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLGAGLFIYFR 249

Query: 821 NQKGRPALQPTGLLS 865
           NQKG+  LQPTGLLS
Sbjct: 250 NQKGQSGLQPTGLLS 264


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

 Score =  305 bits (782), Expect = 4e-83
 Identities = 144/232 (62%), Positives = 182/232 (78%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           M+ L   RG  +AA+ + L++L+PP+ L RD  P FL   KAECH+FNG ERV  + R+ 
Sbjct: 1   MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YN +E+ RF+SD G+F  VTE GRP  +Y N+QKD ++  RA VD  CR+NY++++ F++
Sbjct: 61  YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
             +AEP+VTVYPAKTQPL+HHNLLVCSV  FYPG +EVRWFRNG+EE  GVVSTGLI N 
Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 763
           DWT+QT+VMLE VP+ GEVYTC+VEHPSLTSPVTVEWRARS SAQ K++SG+
Sbjct: 180 DWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLSGV 231


>ref|NP_996988.2| histocompatibility 2, class II antigen A, beta 1 precursor [Mus
           musculus].
          Length = 265

 Score =  292 bits (748), Expect = 3e-79
 Identities = 144/255 (56%), Positives = 177/255 (69%), Gaps = 1/255 (0%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           ++A  ++L+VLS P     D+  HF++    EC+F NGT+R+R++ RY YN +EYVR+DS
Sbjct: 10  LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69

Query: 281 DVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAE-PRVTV 457
           DVGE R VTE GRPDA+YWNSQ + +E+ RAE+DTVCRHNYE  ET    RR E P V +
Sbjct: 70  DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
             ++T+ L HHN LVCSVT FYP  ++VRWFRNGQEE  GV ST LI NGDWTFQ +VML
Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
           E  P+ GEVYTC VEHPSL SP+TVEWRA+SESA  KM+SGI               I  
Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249

Query: 818 KNQKGRPALQPTGLL 862
           ++QKG     P GLL
Sbjct: 250 RSQKGPRGPPPAGLL 264


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

 Score =  258 bits (660), Expect = 5e-69
 Identities = 124/254 (48%), Positives = 163/254 (64%)
 Frame = +2

Query: 89  RGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYV 268
           R  W+ AL + L+ L   +   RD+P +F+   KA+C+F NGTE+V  L R+ +N +EY+
Sbjct: 5   RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64

Query: 269 RFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPR 448
            FDSD+G F  +TE G PDA  WN + D +E  RA V+ VCR  Y++   F V R   P 
Sbjct: 65  HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124

Query: 449 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 628
           VTVYP +T  LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT 
Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184

Query: 629 VMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 808
           VMLE +P+ G++Y+C VEHP L  PV+V W A+SE +  K++SG                
Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244

Query: 809 IYFKNQKGRPALQP 850
           I+ K QK     QP
Sbjct: 245 IHLKAQKASVETQP 258


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

 Score = 78.6 bits (192), Expect = 9e-15
 Identities = 63/215 (29%), Positives = 92/215 (42%), Gaps = 9/215 (4%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           MAAL ++L+VLS     A     H     ++ C   +      F     +N D    +D 
Sbjct: 1   MAALWLLLLVLSLHCMGAGGFVAHV----ESTCVLNDAGTPQDFTYCVSFNKDLLACWDP 56

Query: 281 DVG-----EFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEP 445
           DVG     EF  ++      +   N Q+  + + +  +     H     +  L  R   P
Sbjct: 57  DVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFWDV-LTHRTRAP 115

Query: 446 RVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVVSTGLIPNGDW 613
            V V  A+T P       +L C V GFYP  V + W +NGQ     +    T   PNGDW
Sbjct: 116 SVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQ-PNGDW 172

Query: 614 TFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
           T+QT+  L   P  G+VYTC V+H   + P+  +W
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


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

 Score = 76.6 bits (187), Expect = 4e-14
 Identities = 62/215 (28%), Positives = 93/215 (43%), Gaps = 9/215 (4%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           MAAL ++L+VLS     A     H     ++ C   +      F     +N D    +D 
Sbjct: 1   MAALWLLLLVLSLDCMGAGGFVAHV----ESTCVLDDAGTPQDFTYCVSFNKDLLACWDP 56

Query: 281 DVG-----EFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEP 445
           DVG     EF  +  +    ++  N ++  +++ +  +     H        L  R   P
Sbjct: 57  DVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFWNA-LTHRTRAP 115

Query: 446 RVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVVSTGLIPNGDW 613
            V V  A+T P       +L C V GFYP  V + W +NGQ     +    T   PNGDW
Sbjct: 116 SVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQ-PNGDW 172

Query: 614 TFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
           T+QT+  L   P  G+VYTC V+H   + P+  +W
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


>ref|XP_003086107.1| PREDICTED: class II histocompatibility antigen, M beta 1 chain-like
           [Mus musculus].
          Length = 261

 Score = 76.6 bits (187), Expect = 4e-14
 Identities = 62/215 (28%), Positives = 93/215 (43%), Gaps = 9/215 (4%)
 Frame = +2

Query: 101 MAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDS 280
           MAAL ++L+VLS     A     H     ++ C   +      F     +N D    +D 
Sbjct: 1   MAALWLLLLVLSLDCMGAGGFVAHV----ESTCVLDDAGTPQDFTYCVSFNKDLLACWDP 56

Query: 281 DVG-----EFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEP 445
           DVG     EF  +  +    ++  N ++  +++ +  +     H        L  R   P
Sbjct: 57  DVGKIVPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPFWNA-LTHRTRPP 115

Query: 446 RVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVVSTGLIPNGDW 613
            V V  A+T P       +L C V GFYP  V + W +NGQ     +    T   PNGDW
Sbjct: 116 SVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQ-PNGDW 172

Query: 614 TFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
           T+QT+  L   P  G+VYTC V+H   + P+  +W
Sbjct: 173 TYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


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

 Score = 72.4 bits (176), Expect = 7e-13
 Identities = 48/161 (29%), Positives = 70/161 (43%), Gaps = 4/161 (2%)
 Frame = +2

Query: 248 YNGDEYVRFDSDVGE-FREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEIL--ET 418
           ++GDE    D D  E    + EFG+           F  Q   +   V +HN  +L   +
Sbjct: 53  FDGDELFYVDLDKKETVWMLPEFGQ--------LASFDPQGGLQNIAVVKHNLGVLTKRS 104

Query: 419 FLVPRRAE-PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 595
              P   E P+ TV+P     L   N L+C V   +P  + + W RN +  A GV  T  
Sbjct: 105 NSTPATNEAPQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSF 164

Query: 596 IPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
             N D++F  +  L  +P   ++Y C+VEH  L  PV   W
Sbjct: 165 FVNRDYSFHKLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205


>ref|NP_032235.1| major histocompatibility complex class I-related gene protein
           precursor [Mus musculus].
          Length = 341

 Score = 71.2 bits (173), Expect = 1e-12
 Identities = 46/171 (26%), Positives = 77/171 (45%), Gaps = 8/171 (4%)
 Frame = +2

Query: 197 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNS-------QKDF 355
           C          FL +Y Y+G +++ F+ D   +  +        + W +       QK++
Sbjct: 116 CELLEDGSTTGFL-QYAYDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNW 174

Query: 356 MEQKR-AEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 532
           +E++  A +     +  + LE    P     R   +P  T          C   GFYP  
Sbjct: 175 LEEECIAWLKRFLEYGRDTLERTEHPVVRTTRKETFPGITT-------FFCRAHGFYPPE 227

Query: 533 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEH 685
           + + W +NG+E A  V   G++P+GD T+QT + +   PQS +VY+C VEH
Sbjct: 228 ISMTWMKNGEEIAQEVDYGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278


>ref|NP_038506.2| zinc-alpha-2-glycoprotein precursor [Mus musculus].
          Length = 307

 Score = 67.0 bits (162), Expect = 3e-11
 Identities = 43/206 (20%), Positives = 91/206 (44%), Gaps = 5/206 (2%)
 Frame = +2

Query: 116 MMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEF 295
           + LV L   +   +DT     F G   C   N         RY Y+G++++ F+ ++  +
Sbjct: 91  IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149

Query: 296 REVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRA-----EPRVTVY 460
             +          W ++K ++++ +A ++  C    E+L+ +L   R+     +P     
Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECP---EMLKRYLNYSRSHLDRIDPPTVTI 206

Query: 461 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 640
            ++  P   + +  C   GFYP  + + W     ++ A     G+ PNG+ T+ +   +E
Sbjct: 207 TSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEVE 264

Query: 641 TVPQSGEVYTCRVEHPSLTSPVTVEW 718
             PQ  + + C ++H   +  ++V+W
Sbjct: 265 VSPQDIDPFFCLIDHRGFSQSLSVQW 290


  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: 42,860,478
Number of extensions: 1252254
Number of successful extensions: 5059
Number of sequences better than 1.0e-05: 113
Number of HSP's gapped: 4999
Number of HSP's successfully gapped: 113
Length of query: 403
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 299
Effective length of database: 12,493,815
Effective search space: 3735650685
Effective search space used: 3735650685
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)

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-000964
         (1211 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_001107167.1| MHC class II histocompatibility antigen SLA-...   476   e-135
Alignment   gi|XP_003128372.1| PREDICTED: DLA class II histocompatibility a...   375   e-104
Alignment   gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a...   364   e-101
Alignment   gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ...   313   9e-86
Alignment   gi|XP_003128376.1| PREDICTED: HLA class II histocompatibility a...   272   3e-73
Alignment   gi|NP_001107536.2| MHC class II, DO beta [Sus scrofa].               269   2e-72
Alignment   gi|XP_003362269.1| PREDICTED: h-2 class II histocompatibility a...    87   2e-17
Alignment   gi|NP_001107179.1| MHC class II, DM beta [Sus scrofa].                77   3e-14
Alignment   gi|NP_001107175.1| MHC class I antigen 8 [Sus scrofa].                75   7e-14
Alignment   gi|NP_998933.1| MHC class I antigen 7 [Sus scrofa].                   73   3e-13

>ref|NP_001107167.1| MHC class II histocompatibility antigen SLA-DRB1 [Sus scrofa].
          Length = 266

 Score =  476 bits (1226), Expect = e-135
 Identities = 228/266 (85%), Positives = 238/266 (89%)
 Frame = +2

Query: 68  MLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYF 247
           MLHLCFSRGFWMAALT+MLVVLSPPLALARDTPPHFLFL K ECHFFNGTERVR L + +
Sbjct: 1   MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLVKDECHFFNGTERVRLLQKQY 60

Query: 248 YNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLV 427
           YNG+E+VRFDSDVGE+R VTE GRPDAKYWNSQKD +EQ RA VDT CRHNY IL+TFLV
Sbjct: 61  YNGEEHVRFDSDVGEYRAVTELGRPDAKYWNSQKDLLEQMRAAVDTYCRHNYRILDTFLV 120

Query: 428 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 607
           PRRAEP VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG
Sbjct: 121 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 180

Query: 608 DWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 787
           DWTFQTMVMLETVPQSGEVY+CRVEHPSLTSPVTVEWRARSESAQGKMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGVGGFVLGLL 240

Query: 788 XXXXXXXIYFKNQKGRPALQPTGLLS 865
                  IYFKNQKGRPALQPTGLLS
Sbjct: 241 FVAVGLFIYFKNQKGRPALQPTGLLS 266


>ref|XP_003128372.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
           chain-like [Sus scrofa].
          Length = 261

 Score =  375 bits (964), Expect = e-104
 Identities = 184/256 (71%), Positives = 203/256 (79%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           WMAALT+ L++ SPPLA ARD PP F+   K EC F NGTERVRFL RY YN +E V FD
Sbjct: 6   WMAALTVTLMLWSPPLACARDIPPVFMHQFKCECQFSNGTERVRFLARYIYNTEEDVHFD 65

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           SD+GEFR +TE GRPDA+YWN QK F+EQ R +VDT+CR NY  + + ++ RR +PRVTV
Sbjct: 66  SDLGEFRALTELGRPDAEYWNQQKGFLEQMRTKVDTMCRSNYLGIGSLMMQRRVKPRVTV 125

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML
Sbjct: 126 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 185

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
           ETVPQSGEVY+CRVEHPSLTSPVTVEWRA SESAQGKM+SGI               I  
Sbjct: 186 ETVPQSGEVYSCRVEHPSLTSPVTVEWRAWSESAQGKMLSGIGGCVLGLLVLAVGLFISC 245

Query: 818 KNQKGRPALQPTGLLS 865
           + QK     QPTGLLS
Sbjct: 246 RRQKEHSGRQPTGLLS 261


>ref|XP_003128397.1| PREDICTED: DLA class II histocompatibility antigen, DR-1 beta
           chain-like [Sus scrofa].
          Length = 321

 Score =  364 bits (934), Expect = e-101
 Identities = 172/222 (77%), Positives = 191/222 (86%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           W   LT++L+VLSPPLA A DT P F+  GK+ECHF NGT++VRFLDRY YN DE VRFD
Sbjct: 11  WTVFLTVILMVLSPPLAWAGDTRPVFMIQGKSECHFSNGTQQVRFLDRYIYNRDELVRFD 70

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           SDVGE+R VT  G+P AKYWNSQKD +++ RA VDT CR NYE  E+  V RR +P VTV
Sbjct: 71  SDVGEYRAVTPMGQPAAKYWNSQKDILKRVRAAVDTFCRSNYEFFESCTVQRRVKPTVTV 130

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML
Sbjct: 131 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 190

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 763
           ETVPQSGEVY+CRVEHPSLTSPVTVEWRA+ +S+QGKM+ GI
Sbjct: 191 ETVPQSGEVYSCRVEHPSLTSPVTVEWRAQHDSSQGKMLCGI 232


>ref|NP_001107166.1| SLA class II histocompatibility antigen, DQ haplotype C beta chain
           precursor [Sus scrofa].
          Length = 261

 Score =  313 bits (803), Expect = 9e-86
 Identities = 152/257 (59%), Positives = 186/257 (72%)
 Frame = +2

Query: 62  SSMLHLCFSRGFWMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDR 241
           S M+ L   RG W AALT+MLVVL  P+A  RD+P  F+F  K EC+F+NGT+RVR + R
Sbjct: 2   SGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVFQFKGECYFYNGTQRVRGVAR 61

Query: 242 YFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETF 421
           Y YN +E++RFDSDVGEFR VT  GRP+A  WNSQKD +EQ RAEVD VC+HNY+I E  
Sbjct: 62  YIYNQEEHLRFDSDVGEFRAVTPLGRPEADSWNSQKDVLEQMRAEVDRVCKHNYQIEEGT 121

Query: 422 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 601
            + RR +P VT+ P+K + L HHNLLVC+VT FYP  V+V+WFRNGQEE AGVVST LI 
Sbjct: 122 TLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIR 181

Query: 602 NGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 781
           NGDWT+Q +VMLE   Q G+VYTCRVEH SL +P+ VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 782 XXXXXXXXXIYFKNQKG 832
                    I  ++QKG
Sbjct: 242 LIFLGLGLFIRHRSQKG 258


>ref|XP_003128376.1| PREDICTED: HLA class II histocompatibility antigen, DO beta
           chain-like [Sus scrofa].
          Length = 277

 Score =  272 bits (695), Expect = 3e-73
 Identities = 125/253 (49%), Positives = 175/253 (69%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           W+ AL +M++ L   +   RD P  F+   KA+C+F NGT+RV+F+ R+ +N +E+VRFD
Sbjct: 21  WVVALLVMVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 80

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           SD+G+F  +TE G+PDA+ WNS+ D +E  RA VD +CR NY +     V R+ +P VTV
Sbjct: 81  SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 140

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           +P +T  LQ  NLL+CSVTGFYPG +E+RWFRNGQE+  GV++TGL+ NGDWTFQT+VML
Sbjct: 141 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 200

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
           E  P+ G+VYTC V+HPSL SPV+VEWRA+S+ +  K++ G+               I+ 
Sbjct: 201 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 260

Query: 818 KNQKGRPALQPTG 856
           + +KGR   Q +G
Sbjct: 261 RARKGRVETQLSG 273


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

 Score =  269 bits (688), Expect = 2e-72
 Identities = 125/253 (49%), Positives = 174/253 (68%)
 Frame = +2

Query: 98  WMAALTMMLVVLSPPLALARDTPPHFLFLGKAECHFFNGTERVRFLDRYFYNGDEYVRFD 277
           W+ AL + ++ L   +   RD+P  F+   KA+C+F NGT+RV+F+ R+ +N +E VRFD
Sbjct: 21  WVVALLVTVIRLDSSMTQGRDSPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEELVRFD 80

Query: 278 SDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTV 457
           SD+G+F  +TE G+PDA+ WNS+ D +E  RA VD +CR NY +     V R+ +P VTV
Sbjct: 81  SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 140

Query: 458 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 637
           +P +T  LQ  NLL+CSVTGFYPG +E+RWFRNGQE+  GV++TGLI NGDWTFQT+VML
Sbjct: 141 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLIRNGDWTFQTVVML 200

Query: 638 ETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 817
           E  P+ G+VYTC V+HPSL SPV+VEWRA+S+ +  K++ G+               I+ 
Sbjct: 201 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 260

Query: 818 KNQKGRPALQPTG 856
           + +KGR   Q +G
Sbjct: 261 RARKGRVETQLSG 273


>ref|XP_003362269.1| PREDICTED: h-2 class II histocompatibility antigen, E-S beta
           chain-like, partial [Sus scrofa].
          Length = 68

 Score = 86.7 bits (213), Expect = 2e-17
 Identities = 41/57 (71%), Positives = 45/57 (78%)
 Frame = +2

Query: 272 FDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAE 442
           FDSDVGE+R VTE GRPDAK WNSQKD +EQ+RAEVDT       IL+TFLVPRR E
Sbjct: 1   FDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYXXXXXRILDTFLVPRRGE 57


>ref|NP_001107179.1| MHC class II, DM beta [Sus scrofa].
          Length = 272

 Score = 76.6 bits (187), Expect = 3e-14
 Identities = 46/132 (34%), Positives = 62/132 (46%), Gaps = 3/132 (2%)
 Frame = +2

Query: 332 YWNSQKDFMEQKRAEVDTVCRHNYEILETFLVPRRAEPRVTVYPAKTQPLQHHN--LLVC 505
           Y N Q+  +++    +     H     ++ L  R   P V V  AKT P       +L C
Sbjct: 88  YLNQQEKLLQRLSNGLQNCATHTQPFWKS-LTHRTQPPSVQV--AKTTPFNTRESVMLAC 144

Query: 506 SVTGFYPGHVEVRWFRNGQEEAA-GVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVE 682
            V GFYP  V + W +NGQ     G       PNGDWT+QT+  L T P  G+ YTC VE
Sbjct: 145 YVWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVE 204

Query: 683 HPSLTSPVTVEW 718
           H  +  P+  +W
Sbjct: 205 HIGVPEPILQDW 216


>ref|NP_001107175.1| MHC class I antigen 8 [Sus scrofa].
          Length = 355

 Score = 75.1 bits (183), Expect = 7e-14
 Identities = 48/175 (27%), Positives = 81/175 (46%), Gaps = 8/175 (4%)
 Frame = +2

Query: 239 RYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAEVDTVCRHNYEILET 418
           +Y Y+G++Y+  + D+  +       R   + W+  +   E+ ++ ++  C    E L  
Sbjct: 134 QYAYDGEDYITLNEDLSSWTAADMAARVTQRKWDKSRAH-ERFKSYLEGTC---VEWLRR 189

Query: 419 FL-----VPRRAEPR---VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAA 574
           +L     + +RA+P    VT +P+    +     L C   GFYP  + + W R GQ+++ 
Sbjct: 190 YLENGREMLQRADPPKAYVTCHPSSDNKVT----LRCWALGFYPKEISLTWRREGQDQSQ 245

Query: 575 GVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEWRARSESA 739
            V      P+GD TFQ    L   P   + YTC V+H  L  P+T+ W     SA
Sbjct: 246 DVEVVETRPSGDGTFQKWAALVVPPGEEQSYTCHVKHEGLQEPLTLRWEPSRLSA 300


>ref|NP_998933.1| MHC class I antigen 7 [Sus scrofa].
          Length = 401

 Score = 73.2 bits (178), Expect = 3e-13
 Identities = 46/179 (25%), Positives = 79/179 (44%), Gaps = 5/179 (2%)
 Frame = +2

Query: 197 CHFFNGTERVRFLDRYFYNGDEYVRFDSDVGEFREVTEFGRPDAKYWNSQKDFMEQKRAE 376
           C+       +R   ++ Y+G +Y+  + D+  +  V    +   + W  ++   EQ RA 
Sbjct: 122 CYVARDGRLLRGYSQFAYDGADYIVLNEDLRSWTAVGMAAQITRRKWE-EETVAEQSRAY 180

Query: 377 VDTVC---RHNYEILETFLVPRRAEPR--VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEV 541
           ++  C    H Y       + R   P+  VT +P+    +     L C   GFYP  + +
Sbjct: 181 LEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSSDNKVT----LRCWALGFYPKEISL 236

Query: 542 RWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYTCRVEHPSLTSPVTVEW 718
            W + GQ+++  V      P+GD TF+    L   P   + YTC V+H  L  P+T+ W
Sbjct: 237 TWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHEGLQEPLTLRW 295


  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: 31,871,399
Number of extensions: 951176
Number of successful extensions: 3863
Number of sequences better than 1.0e-05: 34
Number of HSP's gapped: 3832
Number of HSP's successfully gapped: 34
Length of query: 403
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 302
Effective length of database: 8,829,335
Effective search space: 2666459170
Effective search space used: 2666459170
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)

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-000964
         (1211 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                                                         523   e-146
gb|GL896569.1| Sus scrofa unplaced genomic scaffold chrU_scaffol...   153   3e-34
gb|GL895823.1| Sus scrofa unplaced genomic scaffold chrU_scaffol...    74   2e-10

>Sscrofa_Chr07 
||          Length = 134764511

 Score =  523 bits (264), Expect = e-146
 Identities = 276/280 (98%)
 Strand = Plus / Minus

                                                                            
Query: 441      agcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 500
                ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29060020 agcccagagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 29059961

                                                                            
Query: 501      tctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaatggcc 560
                ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 29059960 tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 29059901

                                                                            
Query: 561      aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 620
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059900 aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 29059841

                                                                            
Query: 621      agaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccgagtgg 680
                |||||||||||||||||||||| ||||||||||||||||||||||||| |||||||||||
Sbjct: 29059840 agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 29059781

                                                        
Query: 681      agcaccccagcctgacgagccccgtcacagtggaatggag 720
                ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059780 agcaccccagcctgacgagccccgtcacagtggaatggag 29059741



 Score =  517 bits (261), Expect = e-144
 Identities = 279/285 (97%)
 Strand = Plus / Minus

                                                                            
Query: 436      agctgagcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacct 495
                ||||||||||| |||||| ||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29115435 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29115376

                                                                            
Query: 496      cctggtctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaa 555
                |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 29115375 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29115316

                                                                            
Query: 556      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 615
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115315 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29115256

                                                                            
Query: 616      cttccagaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccg 675
                ||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||
Sbjct: 29115255 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29115196

                                                             
Query: 676      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 720
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115195 agtggagcaccccagcctgacgagccccgtcacagtggaatggag 29115151



 Score =  517 bits (261), Expect = e-144
 Identities = 279/285 (97%)
 Strand = Plus / Plus

                                                                            
Query: 436      agctgagcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacct 495
                ||||||||||| |||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211757 agctgagcccacagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacct 29211816

                                                                            
Query: 496      cctggtctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaa 555
                |||||||||||||||||| ||||||||||||||||| |||||||||||||||||||||||
Sbjct: 29211817 cctggtctgctctgtgactgggttctacccaggccacgtggaggtcaggtggttccggaa 29211876

                                                                            
Query: 556      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 615
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211877 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29211936

                                                                            
Query: 616      cttccagaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccg 675
                ||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||
Sbjct: 29211937 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29211996

                                                             
Query: 676      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 720
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211997 agtggagcaccccagcctgacgagccccgtcacagtggaatggag 29212041



 Score =  515 bits (260), Expect = e-143
 Identities = 275/280 (98%)
 Strand = Plus / Plus

                                                                            
Query: 441      agcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 500
                |||||| |||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365216 agcccacagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 29365275

                                                                            
Query: 501      tctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaatggcc 560
                ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 29365276 tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 29365335

                                                                            
Query: 561      aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 620
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365336 aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 29365395

                                                                            
Query: 621      agaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccgagtgg 680
                |||||||||||||||||||||| ||||||||||||||||||||||||| |||||||||||
Sbjct: 29365396 agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 29365455

                                                        
Query: 681      agcaccccagcctgacgagccccgtcacagtggaatggag 720
                ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365456 agcaccccagcctgacgagccccgtcacagtggaatggag 29365495



 Score =  509 bits (257), Expect = e-141
 Identities = 278/285 (97%)
 Strand = Plus / Minus

                                                                            
Query: 436      agctgagcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacct 495
                ||||||||||| |||||| ||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29080687 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29080628

                                                                            
Query: 496      cctggtctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaa 555
                |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 29080627 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29080568

                                                                            
Query: 556      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 615
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29080567 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29080508

                                                                            
Query: 616      cttccagaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccg 675
                ||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||
Sbjct: 29080507 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29080448

                                                             
Query: 676      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 720
                ||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 29080447 agtggagcaccccagcctgacgagccctgtcacagtggaatggag 29080403



 Score =  509 bits (257), Expect = e-141
 Identities = 278/285 (97%)
 Strand = Plus / Minus

                                                                            
Query: 436      agctgagcccagagtgacagtgtaccctgcaaagacccagcccctgcagcaccacaacct 495
                ||||||||||| |||||| ||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29096277 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29096218

                                                                            
Query: 496      cctggtctgctctgtgaccgggttctacccaggccatgtggaggtcaggtggttccggaa 555
                |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 29096217 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29096158

                                                                            
Query: 556      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 615
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29096157 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29096098

                                                                            
Query: 616      cttccagaccatggtgatgcttgaaactgttcctcagagtggagaggtctacacctgccg 675
                ||||||||||||||||||||||||||| ||||||||||||||||||||||||| ||||||
Sbjct: 29096097 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29096038

                                                             
Query: 676      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 720
                ||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 29096037 agtggagcaccccagcctgacgagccctgtcacagtggaatggag 29095993



 Score =  456 bits (230), Expect = e-125
 Identities = 330/365 (90%), Gaps = 6/365 (1%)
 Strand = Plus / Minus

                                                                            
Query: 852      caggcctcctgagctgaagtgcagatggtgacactccaagcaagcatcctctgtgccagc 911
                |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29113248 caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 29113189

                                                                            
Query: 912      gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 971
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29113188 gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 29113129

                                                                            
Query: 972      ctcagactctcctttgcttctggttcagggaccctgcagaaaaggtcttttgatggcttt 1031
                |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29113128 ctcagactctcctttgctcctggttcagggaccctgcagaaaaggtcttttgatggcttt 29113069

                                                                            
Query: 1032     ctcagcctcccccctttgacctgnaagttcctggcattgattgctatgcctatgttca-- 1089
                |||||||||||||||||||| || ||||||||||||||||||||| ||||||||||||  
Sbjct: 29113068 ctcagcctcccccctttgacttggaagttcctggcattgattgctgtgcctatgttcatt 29113009

                                                                            
Query: 1090     -nnnnnnnnnnnnnnnnnnctggttggtccctggtgttttcgacgttactgccctctgtg 1148
                                   |||||||||||||| |||||||||||||||||||  |||||
Sbjct: 29113008 tttctttcctttttttttcctggttggtccctgttgttttcgacgttactgcctcctgtg 29112949

                                                                            
Query: 1149     catctgacctcatccactgccccata-tacctttatatgtttttct-caataaatatgga 1206
                ||||||| ||||||||||| |||||| ||||||  ||||||||||| |||||||||||||
Sbjct: 29112948 catctgaactcatccactg-cccatattaccttattatgtttttctccaataaatatgga 29112890

                     
Query: 1207     gtgac 1211
                |||||
Sbjct: 29112889 gtgac 29112885



 Score =  398 bits (201), Expect = e-108
 Identities = 209/212 (98%)
 Strand = Plus / Minus

                                                                            
Query: 852      caggcctcctgagctgaagtgcagatggtgacactccaagcaagcatcctctgtgccagc 911
                |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29094070 caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 29094011

                                                                            
Query: 912      gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 971
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29094010 gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 29093951

                                                                            
Query: 972      ctcagactctcctttgcttctggttcagggaccctgcagaaaaggtcttttgatggcttt 1031
                |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29093950 ctcagactctcctttgctcctggttcagggaccctgcagaaaaggtcttttgatggcttt 29093891

                                                
Query: 1032     ctcagcctcccccctttgacctgnaagttcct 1063
                ||||||||||||||||||||||| ||||||||
Sbjct: 29093890 ctcagcctcccccctttgacctggaagttcct 29093859



 Score =  295 bits (149), Expect = 3e-77
 Identities = 161/165 (97%)
 Strand = Plus / Minus

                                                                            
Query: 3        cacagtacccatttgagtgggacttgcctgctcccctcacacactgtcctctcctgttct 62
                ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 29125487 cacagtacccatttgagtgggacttgcctgctcccttcacacactgtcctctcctgttct 29125428

                                                                            
Query: 63       ccagcatgttgcatctgtgtttctccagaggcttctggatggcagctctgaccatgatgc 122
                ||||||||||||||||||||||||||||||||||||||||||| ||||||||  ||||||
Sbjct: 29125427 ccagcatgttgcatctgtgtttctccagaggcttctggatggcggctctgactgtgatgc 29125368

                                                             
Query: 123      tggtggtgctgagccctcccttggctttggccagggacaccccac 167
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29125367 tggtggtgctgagccctcccttggctttggccagggacaccccac 29125323



 Score =  234 bits (118), Expect = 9e-59
 Identities = 217/250 (86%)
 Strand = Plus / Minus

                                                                            
Query: 194      gagtgtcatttcttcaacgggacggagcgggtgaggtttctggacagatacttctataat 253
                ||||||||||||||||| ||||| ||||||||||||||  |||| ||  | | |||||| 
Sbjct: 29118063 gagtgtcatttcttcaatgggaccgagcgggtgaggttattggagaggcaatactataac 29118004

                                                                            
Query: 254      ggagatgagtacgtgcgcttcgacagcgacgtgggcgagttccgggaagtgaccgaattt 313
                ||||| |||| | ||||||||||||||||||||||||||| |||||  ||||||||  | 
Sbjct: 29118003 ggagaggagttcctgcgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctg 29117944

                                                                            
Query: 314      gggcggccagacgccaagtactggaacagccagaaggacttcatggagcagaagcgggcg 373
                |||||||||||||||||| |||||||||||||||||||| || ||||||||| |||||||
Sbjct: 29117943 gggcggccagacgccaaggactggaacagccagaaggacctcctggagcagaggcgggcg 29117884

                                                                            
Query: 374      gaggtggacacggtgtgcagacacaactacgagatcttagagaccttcctcgtgccgcgg 433
                ||||||||||||   |||||||||||||||  |||||| || || ||||| |||||||||
Sbjct: 29117883 gaggtggacacgtactgcagacacaactaccggatcttggatacattcctggtgccgcgg 29117824

                          
Query: 434      cgagctgagc 443
                |||| |||||
Sbjct: 29117823 cgaggtgagc 29117814



 Score =  222 bits (112), Expect = 3e-55
 Identities = 112/112 (100%)
 Strand = Plus / Minus

                                                                            
Query: 720      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 779
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29114144 gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 29114085

                                                                    
Query: 780      gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 831
                ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29114084 gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 29114033



 Score =  206 bits (104), Expect = 2e-50
 Identities = 110/112 (98%)
 Strand = Plus / Minus

                                                                            
Query: 720      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 779
                ||||||||||||||||||||||||||||||||||||||||| | ||||||||||||||||
Sbjct: 29094966 gggcacggtctgaatctgctcagggcaagatgatgagtggggttgggggcttcgtcctgg 29094907

                                                                    
Query: 780      gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 831
                ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29094906 gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 29094855



 Score =  206 bits (104), Expect = 2e-50
 Identities = 174/196 (88%), Gaps = 1/196 (0%)
 Strand = Plus / Minus

                                                                            
Query: 168      cgcatttcttgtttctggggaaggctgagtgtcatttcttcaacgggacggagcgggtga 227
                ||||||||||| |||||| |||    ||||||||||||||||  ||||||||||||||||
Sbjct: 29098797 cgcatttcttgcttctggtgaaacacgagtgtcatttcttcactgggacggagcgggtga 29098738

                                                                            
Query: 228      ggtttctggacagatacttctataatggagatgagtacgtgcgcttcgacagcgacgtgg 287
                ||||||||||||||||||||||||||||| | ||||||||||||||||||||||||||||
Sbjct: 29098737 ggtttctggacagatacttctataatggaaaggagtacgtgcgcttcgacagcgacgtgg 29098678

                                                                            
Query: 288      gcgagttccgggaagtgaccgaatttgggcggccagacgccaagtactggaacagccaga 347
                ||||||||||||  ||||||  |  |||||||||    ||||||||||||||||||||||
Sbjct: 29098677 gcgagttccgggtggtgacc-tagctgggcggccttcagccaagtactggaacagccaga 29098619

                                
Query: 348      aggacttcatggagca 363
                ||||| || |||||||
Sbjct: 29098618 aggacatcctggagca 29098603



 Score =  137 bits (69), Expect = 2e-29
 Identities = 129/149 (86%), Gaps = 5/149 (3%)
 Strand = Plus / Minus

                                                                            
Query: 16       tgagtgggacttgcctgctcccctcacac-----actgtcctctcctgttctccagcatg 70
                ||||||||||||| |||||||||||||||      ||||||||| |||||||||||||||
Sbjct: 29105751 tgagtgggacttggctgctcccctcacaccctggcctgtcctctgctgttctccagcatg 29105692

                                                                            
Query: 71       ttgcatctgtgtttctccagaggcttctggatggcagctctgaccatgatgctggtggtg 130
                 ||  ||||||||||||  |||||| |||| ||||||||||||| ||||| |||| ||||
Sbjct: 29105691 gtgtgtctgtgtttctctggaggctcctggttggcagctctgacaatgatactgggggtg 29105632

                                             
Query: 131      ctgagccctcccttggctttggccaggga 159
                |||||||||||| | ||||||||||||||
Sbjct: 29105631 ctgagccctcccctagctttggccaggga 29105603



 Score =  137 bits (69), Expect = 2e-29
 Identities = 126/145 (86%)
 Strand = Plus / Minus

                                                                            
Query: 264      acgtgcgcttcgacagcgacgtgggcgagttccgggaagtgaccgaatttgggcggccag 323
                ||||||||||||||||||||||||| ||||||||||  ||||||    | ||||||||  
Sbjct: 29187134 acgtgcgcttcgacagcgacgtgggggagttccgggcggtgaccccgctggggcggccga 29187075

                                                                            
Query: 324      acgccaagtactggaacagccagaaggacttcatggagcagaagcgggcggaggtggaca 383
                 |||| | ||||||||| ||||||||||| || |||||||||||||||| ||||||||||
Sbjct: 29187074 ccgccgactactggaacggccagaaggacgtcctggagcagaagcgggccgaggtggaca 29187015

                                         
Query: 384      cggtgtgcagacacaactacgagat 408
                ||||||||| |||||||||| ||||
Sbjct: 29187014 cggtgtgcaaacacaactaccagat 29186990



 Score =  115 bits (58), Expect = 6e-23
 Identities = 97/106 (91%), Gaps = 3/106 (2%)
 Strand = Plus / Minus

                                                                            
Query: 1108     ctggttggtccctggtgttttcgacgttactgccctctgtgcatctgacctcatccactg 1167
                |||||||||||||| |||||||||||||||||||  |||||||||||| |||||||||||
Sbjct: 29093816 ctggttggtccctgttgttttcgacgttactgcctcctgtgcatctgaactcatccactg 29093757

                                                              
Query: 1168     ccccata-tacctttatatgtttttct-caataaatatggagtgac 1211
                 |||||| ||||||  ||||||||||| ||||||||||||||||||
Sbjct: 29093756 -cccatattaccttattatgtttttctccaataaatatggagtgac 29093712



 Score =  107 bits (54), Expect = 1e-20
 Identities = 171/210 (81%)
 Strand = Plus / Minus

                                                                            
Query: 194      gagtgtcatttcttcaacgggacggagcgggtgaggtttctggacagatacttctataat 253
                |||||||| |||| ||||||||||||||||||||||||  ||| ||||||| |||| || 
Sbjct: 29062682 gagtgtcaattctccaacgggacggagcgggtgaggttcttggccagatacatctacaac 29062623

                                                                            
Query: 254      ggagatgagtacgtgcgcttcgacagcgacgtgggcgagttccgggaagtgaccgaattt 313
                   || ||| | |||| ||||||||||||| |||| |||||| |||   |||| ||  | 
Sbjct: 29062622 acggaggaggatgtgcacttcgacagcgacttgggggagttcagggccctgactgagctg 29062563

                                                                            
Query: 314      gggcggccagacgccaagtactggaacagccagaaggacttcatggagcagaagcgggcg 373
                ||||||||||||||  |||||||||||   ||||||| |||| ||||||||| |||| | 
Sbjct: 29062562 gggcggccagacgctgagtactggaaccagcagaagggcttcttggagcagatgcggacc 29062503

                                              
Query: 374      gaggtggacacggtgtgcagacacaactac 403
                 ||||||||||| ||||||||  |||||||
Sbjct: 29062502 aaggtggacacgatgtgcagatccaactac 29062473



 Score =  103 bits (52), Expect = 2e-19
 Identities = 112/132 (84%)
 Strand = Plus / Minus

                                                                            
Query: 168      cgcatttcttgtttctggggaaggctgagtgtcatttcttcaacgggacggagcgggtga 227
                |||||||||||||||||||||||   |||| ||| |  |||||| ||||| |||||||| 
Sbjct: 29083091 cgcatttcttgtttctggggaagctcgagtatcactagttcaactggacgcagcgggtgc 29083032

                                                                            
Query: 228      ggtttctggacagatacttctataatggagatgagtacgtgcgcttcgacagcgacgtgg 287
                 ||| |||||||||| |||||| || ||||| |||| ||||||||||||||||||| |||
Sbjct: 29083031 tgttgctggacagattcttctacaacggagaggagttcgtgcgcttcgacagcgacttgg 29082972

                            
Query: 288      gcgagttccggg 299
                | |||| |||||
Sbjct: 29082971 gtgagtaccggg 29082960



 Score =  101 bits (51), Expect = 9e-19
 Identities = 132/159 (83%)
 Strand = Plus / Plus

                                                                            
Query: 194      gagtgtcatttcttcaacgggacggagcgggtgaggtttctggacagatacttctataat 253
                ||||||||||||| |||||| ||| ||| |||| |||| |||||||||||| |||| || 
Sbjct: 29363779 gagtgtcatttctccaacggaacgcagcaggtgcggttcctggacagatacatctacaac 29363838

                                                                            
Query: 254      ggagatgagtacgtgcgcttcgacagcgacgtgggcgagttccgggaagtgaccgaattt 313
                 | || ||||  ||||||||||||||||||||||| |||| | |||  ||||||  | | 
Sbjct: 29363839 cgggacgagttggtgcgcttcgacagcgacgtgggggagtacagggcggtgaccccaatg 29363898

                                                       
Query: 314      gggcggccagacgccaagtactggaacagccagaaggac 352
                |||| ||| |  |||||||||||||||||||||||||||
Sbjct: 29363899 gggcagccggctgccaagtactggaacagccagaaggac 29363937



 Score = 93.7 bits (47), Expect = 2e-16
 Identities = 80/91 (87%)
 Strand = Plus / Minus

                                                                            
Query: 720      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 779
                ||||| |||||||||||||||||||||| ||| ||||||| ||||||||||  |||||||
Sbjct: 29058730 gggcatggtctgaatctgctcagggcaaaatgctgagtggaatcgggggctgtgtcctgg 29058671

                                               
Query: 780      gtctgctctttgttgctgtggggctgttcat 810
                |||||||| |  | || ||||||||||||||
Sbjct: 29058670 gtctgctcgtcctggccgtggggctgttcat 29058640



 Score = 93.7 bits (47), Expect = 2e-16
 Identities = 131/159 (82%)
 Strand = Plus / Plus

                                                                            
Query: 194      gagtgtcatttcttcaacgggacggagcgggtgaggtttctggacagatacttctataat 253
                ||||||||||||| |||||| | | ||| |||| |||| |||||||||||| |||| || 
Sbjct: 29210328 gagtgtcatttctccaacggaaggcagcaggtgcggttcctggacagatacatctacaac 29210387

                                                                            
Query: 254      ggagatgagtacgtgcgcttcgacagcgacgtgggcgagttccgggaagtgaccgaattt 313
                 | || ||||  ||||||||||||||||||||||| |||| | |||  ||||||  | | 
Sbjct: 29210388 cgggacgagttggtgcgcttcgacagcgacgtgggggagtacagggcggtgaccccaatg 29210447

                                                       
Query: 314      gggcggccagacgccaagtactggaacagccagaaggac 352
                |||| ||| |  |||||||||||||||||||||||||||
Sbjct: 29210448 gggcagccggctgccaagtactggaacagccagaaggac 29210486



 Score = 60.0 bits (30), Expect = 3e-06
 Identities = 60/70 (85%)
 Strand = Plus / Minus

                                                                            
Query: 720      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 779
                |||||| |||||||||||| ||| |||||||| |||| ||  ||||||||||||| ||||
Sbjct: 29182204 gggcacagtctgaatctgcccagagcaagatgctgagcggtgtcgggggcttcgtgctgg 29182145

                          
Query: 780      gtctgctctt 789
                | ||| ||||
Sbjct: 29182144 ggctgatctt 29182135


>gb|GL896569.1| Sus scrofa unplaced genomic scaffold chrU_scaffold897
          Length = 986

 Score =  153 bits (77), Expect = 3e-34
 Identities = 107/117 (91%)
 Strand = Plus / Plus

                                                                       
Query: 269 cgcttcgacagcgacgtgggcgagttccgggaagtgaccgaatttgggcggccagacgcc 328
           ||||||||||||||||||||||||| |||||  ||||||||  | |||||||||||||||
Sbjct: 1   cgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcggccagacgcc 60

                                                                    
Query: 329 aagtactggaacagccagaaggacttcatggagcagaagcgggcggaggtggacacg 385
           ||| |||||||||||||||||||| || ||||||||| |||||||||||||||||||
Sbjct: 61  aaggactggaacagccagaaggacctcctggagcagaggcgggcggaggtggacacg 117


>gb|GL895823.1| Sus scrofa unplaced genomic scaffold chrU_scaffold435
          Length = 2580

 Score = 73.8 bits (37), Expect = 2e-10
 Identities = 70/81 (86%)
 Strand = Plus / Plus

                                                                       
Query: 219 agcgggtgaggtttctggacagatacttctataatggagatgagtacgtgcgcttcgaca 278
           ||||||||  ||| |||||||||| |||||| || ||||| |||| ||||||||||||||
Sbjct: 561 agcgggtgctgttgctggacagattcttctacaacggagaggagttcgtgcgcttcgaca 620

                                
Query: 279 gcgacgtgggcgagttccggg 299
           ||||| |||| |||| |||||
Sbjct: 621 gcgacttgggtgagtaccggg 641



 Score = 71.9 bits (36), Expect = 8e-10
 Identities = 54/60 (90%)
 Strand = Plus / Plus

                                                                       
Query: 343 ccagaaggacttcatggagcagaagcgggcggaggtggacacggtgtgcagacacaacta 402
           ||||||||| ||| ||||||||||||||| ||||||||||| |||||| |||| ||||||
Sbjct: 671 ccagaaggatttcctggagcagaagcgggtggaggtggacagggtgtgtagactcaacta 730


  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: 34,849,232
Number of extensions: 282
Number of successful extensions: 282
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 275
Number of HSP's successfully gapped: 30
Length of query: 1211
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1190
Effective length of database: 2,808,413,156
Effective search space: 3342011655640
Effective search space used: 3342011655640
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)