Animal-Genome cDNA 20110601C-001244

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-001244
         (1094 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, ...   401   e-112
Alignment   gi|XP_001253929.2| PREDICTED: major histocompatibility complex,...   385   e-107
Alignment   gi|XP_002697362.1| PREDICTED: histocompatibility complex, class...   334   7e-92
Alignment   gi|XP_582099.3| PREDICTED: histocompatibility complex, class II...   334   7e-92
Alignment   gi|NP_001074392.1| MHC cell surface glycoprotein [Bos taurus].       309   3e-84
Alignment   gi|NP_001077254.1| MHC class II antigen DS beta [Bos taurus].        295   4e-80
Alignment   gi|NP_001029840.2| boLa class II histocompatibility antigen, DQ...   295   4e-80
Alignment   gi|NP_001012694.2| major histocompatibility complex, class II, ...   287   1e-77
Alignment   gi|NP_001012697.1| major histocompatibility complex, class II, ...   268   5e-72
Alignment   gi|NP_001013618.1| major histocompatibility complex, class II, ...   250   1e-66

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

 Score =  401 bits (1031), Expect = e-112
 Identities = 194/266 (72%), Positives = 216/266 (81%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L FS G WMAAL VML+VL PPLA AR+  PHFL   K ECHFFNGTE+VR L+R +
Sbjct: 1   MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKGECHFFNGTERVRFLDRHF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YNGEEFVRFDSD GE+RAVTELGRP A+++NSQKD LEQ+RAEVD  CRHNY   ++F V
Sbjct: 61  YNGEEFVRFDSDWGEFRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQTMVMLETVPQSGEVY+C+V+HP  TSP+TVEWRARS+SAQ KMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  385 bits (988), Expect = e-107
 Identities = 187/263 (71%), Positives = 210/263 (79%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L FS G WMAAL VML+VL PPLA AR+  PHFL   K ECHFFNGTE+VR L+R +
Sbjct: 1   MVCLYFSGGSWMAALIVMLMVLCPPLAWAREIQPHFLEYYKRECHFFNGTERVRFLDRYF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           +NGEE+VRFDSD GEYRAVTELG+  A+  NSQKD LE+ RA VDTYCRHNY   ++F V
Sbjct: 61  HNGEEYVRFDSDWGEYRAVTELGQRVAEYCNSQKDFLERARAAVDTYCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR EP VTVYPAKTQPLQHHNLLVCSV GFYPGH+EVRWFRNG EE AGV+STGLI NG
Sbjct: 121 QRRVEPIVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQTMVMLETVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ KMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPITVEWRAQSDSAQSKMMSGVRVFALGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTG 852
                   +F+NQKG PALQPTG
Sbjct: 241 FLVVGLFTHFRNQKGHPALQPTG 263


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

 Score =  334 bits (857), Expect = 7e-92
 Identities = 164/253 (64%), Positives = 190/253 (75%)
 Frame = +1

Query: 97  MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276
           MAAL V+L+VLS P + AR+T PHF+   K EC F NG E++R   R  YN +E V FDS
Sbjct: 1   MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60

Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVY 456
           DVGE+ A+TELGR DA+ +N QKD +EQ RA+VDT CR NY+   +FL  RR EP VTVY
Sbjct: 61  DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120

Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
           PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N  EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180

Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816
           TVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ KMMSG                 +F+
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240

Query: 817 NQKGRPALQPTGL 855
           NQKG   LQPTG+
Sbjct: 241 NQKGHSGLQPTGI 253


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

 Score =  334 bits (857), Expect = 7e-92
 Identities = 164/253 (64%), Positives = 190/253 (75%)
 Frame = +1

Query: 97  MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276
           MAAL V+L+VLS P + AR+T PHF+   K EC F NG E++R   R  YN +E V FDS
Sbjct: 1   MAALAVLLMVLSLPFSWARETQPHFIHQFKGECRFSNGLERMRFFARYIYNTQEDVHFDS 60

Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVY 456
           DVGE+ A+TELGR DA+ +N QKD +EQ RA+VDT CR NY+   +FL  RR EP VTVY
Sbjct: 61  DVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDTLCRSNYQGIGSFLRQRRVEPTVTVY 120

Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
           PAKTQPLQHHNLLVCSV GFYPGH+EVRWF N  EE AGV+STGLI NGDWTFQTMVMLE
Sbjct: 121 PAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHEEEAGVISTGLIQNGDWTFQTMVMLE 180

Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816
           TVPQSGEVY+C+VEHPS TSP+TVEWRA+S+SAQ KMMSG                 +F+
Sbjct: 181 TVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQSKMMSGTGGFALGLLFLVVGLFTHFR 240

Query: 817 NQKGRPALQPTGL 855
           NQKG   LQPTG+
Sbjct: 241 NQKGHSGLQPTGI 253


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

 Score =  309 bits (791), Expect = 3e-84
 Identities = 155/259 (59%), Positives = 189/259 (72%), Gaps = 2/259 (0%)
 Frame = +1

Query: 58  SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFL--FLGKFECHFFNGTEQVRLL 231
           S M+ L   RG W+AA+ V+LVVLS P A  RD+P  FL  FLG  +C+F NGTE+VR +
Sbjct: 2   SGMVALWIPRGLWIAAVMVILVVLSTPGAEGRDSPQDFLVQFLG--QCYFTNGTERVRSV 59

Query: 232 ERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSD 411
            R  YN EE+VRFDSDV EYRAVT LGRP A+ +NSQ+D+LE+ RAEVDT CRHNY+   
Sbjct: 60  TRYIYNREEYVRFDSDVNEYRAVTPLGRPSAEYWNSQEDILERVRAEVDTVCRHNYQLEL 119

Query: 412 TFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGL 591
              + RR EP VT+ P++T+ L HHNLLVCSVT FYPG ++VRWFRN QEE AGVVST L
Sbjct: 120 ITSLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPGQIKVRWFRNDQEETAGVVSTPL 179

Query: 592 IPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXX 771
           I NGDWTFQ +VMLE  PQ G+VY+C VEHPSL SP+TVEWRA+SESAQ KM+SG+    
Sbjct: 180 IRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLSGVGGFV 239

Query: 772 XXXXXXXXXXXIYFKNQKG 828
                      ++ ++QKG
Sbjct: 240 LGLIFLGLGLIVHHRSQKG 258


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

 Score =  295 bits (756), Expect = 4e-80
 Identities = 146/232 (62%), Positives = 172/232 (74%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L F  G W   L V+L+VLSP LA A +T   F+  GK ECHF NGT+QVR L+R  
Sbjct: 1   MVCLWFPPGSWTVILPVILMVLSPLLAWAGNTRTFFMVQGKSECHFSNGTQQVRFLDRYI 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EE V+FDS VGEYRA TE+GRP A+ +N     L++ RA V  +C  NY    +  V
Sbjct: 61  YNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAFCASNYEFFASRTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR +P VTVYP K++PL HHNLLVCSV GFYPGH+EVRWFRNGQE+ AGVVSTGLIPNG
Sbjct: 121 QRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEKEAGVVSTGLIPNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
           DWTFQ MVMLE VPQ GEVY+C VEHPS  SPV+VEWRA+ +S+Q KM+SGI
Sbjct: 181 DWTFQIMVMLEIVPQGGEVYACHVEHPSRMSPVSVEWRAQDKSSQEKMLSGI 232


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

 Score =  295 bits (756), Expect = 4e-80
 Identities = 147/257 (57%), Positives = 178/257 (69%)
 Frame = +1

Query: 58  SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237
           S M+ L   RG W A + V LV+LS P A  RD+P  F+   K  C+F NGTE+VR + R
Sbjct: 2   SGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERVRYVTR 61

Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417
             YN EE+VRFDSD   YRA+T LGRPDA+ +NSQKD LEQ RAE DT CRHNY+     
Sbjct: 62  YIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAELIT 121

Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
            + RR EP VT+ P++T+ L HHNLLVCSVT FYP  ++VRWFRN +EE AGVVST LI 
Sbjct: 122 SLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTPLIR 181

Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
           NGDWTFQ +VMLE  PQ G+VY+C VEHPSL SP+ VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 778 XXXXXXXXXIYFKNQKG 828
                    I+ ++QKG
Sbjct: 242 LIFLGLGLIIHHRSQKG 258


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

 Score =  287 bits (734), Expect = 1e-77
 Identities = 142/257 (55%), Positives = 180/257 (70%)
 Frame = +1

Query: 58  SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237
           S M+ L   RG W AA+ V L VLS P A  RD+P   +     +C+F NGTE+VR + R
Sbjct: 2   SGMVALWIPRGLWTAAVMVTLAVLSTPGAEGRDSPQDTVVHFMCQCYFTNGTERVRYVTR 61

Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417
             YN EE   +DSDVGEYRAVT+LGR  A+ +NSQKD+LEQ RAE+DT CRHNY+     
Sbjct: 62  YIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEVIT 121

Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
            + R+ EP VT+  ++T+ L HHNLLVCSVT FYPG ++VRWF+NG+EE AG+VST LI 
Sbjct: 122 SLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPLIR 181

Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
           NGDWTFQ +VMLE  P+ G+VY+CRVEHPSL SP++VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTFQILVMLEMTPKRGDVYTCRVEHPSLQSPISVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 778 XXXXXXXXXIYFKNQKG 828
                    +  ++QKG
Sbjct: 242 LIFLGLGLIVRRRSQKG 258


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

 Score =  268 bits (686), Expect = 5e-72
 Identities = 134/215 (62%), Positives = 159/215 (73%)
 Frame = +1

Query: 115 MLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYR 294
           + +VL  P A  RD P +F++  K  C+F NGTE VRL+ RQ YN EE + FDSD+GE+ 
Sbjct: 19  VFLVLRIPEAHCRDAPKNFVYQFKGMCYFTNGTEHVRLVARQIYNKEEILHFDSDLGEFV 78

Query: 295 AVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQP 474
           AVTELGR  A+ +N+QKDLL + RA VDT CRHNY+ +  F V RR EP VTV PA T+ 
Sbjct: 79  AVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYKETAGFTVQRRVEPTVTVSPASTEA 138

Query: 475 LQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSG 654
           L HHNLLVCSVT FYP  V+V+WFRN QE+ AGV  T L  NGDWT+Q  VMLETVPQ G
Sbjct: 139 LNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGFTPLTQNGDWTYQIHVMLETVPQLG 198

Query: 655 EVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
           +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 =  250 bits (639), Expect = 1e-66
 Identities = 120/246 (48%), Positives = 160/246 (65%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           W+       + L   +   RD+P  F+   K +C+F NGTE+VR + R  +N E++ RFD
Sbjct: 8   WVVTFLSTALRLDASVTQGRDSPEDFVTQAKADCYFTNGTEKVRFVVRFIFNLEDYARFD 67

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           SD+G + A+TELG+PDA+ +N++ D+L + RA VD  CR NY     F V RR +P VTV
Sbjct: 68  SDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYYLGAPFTVGRRVQPEVTV 127

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           YP KT  LQH NLL+C VTGFYPG ++V WFRNGQE+  G++STGLI NGDWTFQ  VML
Sbjct: 128 YPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMSTGLIRNGDWTFQMTVML 187

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
              P+ GEVY+C V+HPSL SPV+VEWRA+SE +  K++SG                ++ 
Sbjct: 188 AMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILSGAAAFLVGLVFFLVEIVVHI 247

Query: 814 KNQKGR 831
           +  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: 48,584,819
Number of extensions: 1530688
Number of successful extensions: 6606
Number of sequences better than 1.0e-05: 70
Number of HSP's gapped: 6554
Number of HSP's successfully gapped: 70
Length of query: 364
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 260
Effective length of database: 14,240,222
Effective search space: 3702457720
Effective search space used: 3702457720
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-001244
         (1094 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-...   385   e-107
Alignment   gi|NP_001014403.1| major histocompatibility complex, class II, ...   325   4e-89
Alignment   gi|NP_001041592.1| major histocompatibility complex, class II, ...   273   2e-73
Alignment   gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati...    74   3e-13
Alignment   gi|XP_536867.2| PREDICTED: similar to Zinc-alpha-2-glycoprotein...    71   2e-12
Alignment   gi|NP_001011723.1| MHC class II DR alpha chain [Canis lupus fam...    69   1e-11
Alignment   gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati...    66   5e-11
Alignment   gi|NP_001014401.1| MHC class I DLA-12 [Canis lupus familiaris].       66   7e-11
Alignment   gi|NP_001014767.1| MHC class I DLA-88 [Canis lupus familiaris].       66   7e-11
Alignment   gi|NP_001018646.1| MHC class Ib [Canis lupus familiaris].             65   1e-10

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

 Score =  385 bits (990), Expect = e-107
 Identities = 186/266 (69%), Positives = 212/266 (79%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ LCF  G WM AL ++L+VL+PP A ARDTPPHFL + K EC+F NGTE+VR +ER  
Sbjct: 1   MVCLCFLGGSWMTALMLILMVLNPPFAWARDTPPHFLEVAKSECYFTNGTERVRFVERYI 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           +N EEFVRFDSDVGE+RAVTELGRP A+++N QK++LEQ RA VDTYCRHNY   ++F V
Sbjct: 61  HNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYGVIESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR EP VTVYP KTQ LQHHNLLVCSV GFYPGH+EVRW RNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVSTGLIRNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQ +VMLE VPQSGEVY+C+VEHPSLTSPVTVEWRA+S+SAQ KM+SGI        
Sbjct: 181 DWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLSGIGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  325 bits (834), Expect = 4e-89
 Identities = 159/267 (59%), Positives = 194/267 (72%)
 Frame = +1

Query: 58  SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237
           S  + LC  RGFW AA+ ++LVVLS P+A  RD+P  F+F  K EC+F NGTE+VRLL +
Sbjct: 2   SGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQYKAECYFTNGTERVRLLTK 61

Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417
             YN EEFVRFDSDVGE+RAVTELGRPDA+ +N QKD +++ RAE+DT CRHNY   +  
Sbjct: 62  YIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREELT 121

Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
            + RR EP VT++P+KT+ L HHNLLVCSVT FYPG ++VRWFRN QE+ AGVVST LI 
Sbjct: 122 TLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPLIR 181

Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
           NGDWTFQ +VMLE  PQ G+VY+C VEH SL SP+TV+WRA+SESAQ KM+SGI      
Sbjct: 182 NGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLSGIGGFVLG 241

Query: 778 XXXXXXXXXIYFKNQKGRPALQPTGLL 858
                    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 =  273 bits (699), Expect = 2e-73
 Identities = 133/253 (52%), Positives = 170/253 (67%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           WM AL V +  L   +   RD+P  F+   K +C+F NGTE+V+ + R  +N EE+ RFD
Sbjct: 8   WMLALLVNVTGLDSSMTQGRDSPEDFVIQAKADCYFINGTEKVQFVVRFIFNLEEYARFD 67

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           S VG + A+TELG+PDA+ +NSQ  +LE+ RA VD  CRHNY     F V R+ +P VTV
Sbjct: 68  SHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYELGAPFTVGRKVQPEVTV 127

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           YP +T  +QHHNLL+CSVTGFYPG ++++WFRNGQEE  GV+STGLI NGDWTFQTMVML
Sbjct: 128 YPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMSTGLIRNGDWTFQTMVML 187

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
           E  P+ G+VY+C V HPSL SPV+VEWRA+S  +  KM+SGI               I  
Sbjct: 188 EMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLSGIAAFLLGLIFLLVGTVICL 247

Query: 814 KNQKGRPALQPTG 852
           + QKG    Q +G
Sbjct: 248 RAQKGYVETQFSG 260


>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 = 73.6 bits (179), Expect = 3e-13
 Identities = 42/130 (32%), Positives = 63/130 (48%), Gaps = 1/130 (0%)
 Frame = +1

Query: 328 NYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSV 507
           +Y +Q++ L QR +     C  + ++    L  R   P V V  +     +   +L C V
Sbjct: 78  DYLNQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYV 137

Query: 508 TGFYPGHVEVRWFRNGQEEAAGVVSTGLI-PNGDWTFQTMVMLETVPQSGEVYSCRVEHP 684
            GFYP  V + W +NGQ   +   +  +  PNGDWT+QT+  L T P   + Y+C VEH 
Sbjct: 138 WGFYPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHI 197

Query: 685 SLTSPVTVEW 714
               PV  +W
Sbjct: 198 GAPEPVCEDW 207


>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 = 71.2 bits (173), Expect = 2e-12
 Identities = 52/218 (23%), Positives = 97/218 (44%), Gaps = 7/218 (3%)
 Frame = +1

Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291
           + +V L   +   +D      F G F C   N         R  Y+G  F+ F+ ++  +
Sbjct: 96  IFMVTLKDIMEYYKDKEGSHTFQGMFGCELQNNKNSGAFW-RYAYDGRNFIEFNKEIPAW 154

Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCR---HNYRTSDTFLVPRRAEPRVTVYPA 462
                      K + +++  +++ +A ++  C      Y       + R+  P V++   
Sbjct: 155 VPQDPAALNTKKKWEAEEVYVQRAKAYLEEECPVMLQRYLEYGKTYLDRQEPPSVSITSH 214

Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFR--NGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
            T   +    L C V+GFYP  +++ W +  + QE  +G     L+P+G+ T+Q  V++ 
Sbjct: 215 GTP--EGIQTLKCWVSGFYPQEIDLHWIQADDTQETKSG---GALLPSGNNTYQAWVVMS 269

Query: 637 TVPQ--SGEVYSCRVEHPSLTSPVTVEWRARSESAQGK 744
             PQ  +   YSC V+H SL+ P+TV W  R  + + +
Sbjct: 270 ASPQDLASFSYSCLVKHSSLSQPLTVLWDKRQGAVRAE 307


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

 Score = 68.6 bits (166), Expect = 1e-11
 Identities = 44/158 (27%), Positives = 67/158 (42%), Gaps = 1/158 (0%)
 Frame = +1

Query: 244 YNGEEFVRFDSDVGE-YRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFL 420
           ++G+E    D +  E    + E GR  +         +   +A +DT  + +  T +T  
Sbjct: 51  FDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDTMIKRSNHTPNT-- 108

Query: 421 VPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPN 600
                 P VTV       L   N+L+C +  F P  + V W RNG     GV  T  +P 
Sbjct: 109 ---NVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINVTWLRNGNPVTTGVSETIFLPR 165

Query: 601 GDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
            D  F+    L  +P + +VY C+VEH  L  P+   W
Sbjct: 166 EDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203


>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 = 66.2 bits (160), Expect = 5e-11
 Identities = 32/92 (34%), Positives = 44/92 (47%)
 Frame = +1

Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618
           PRV V P     L   N+L+C V   +P  + + W RNGQ  + GV  T      D  F+
Sbjct: 90  PRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFYSQPDHLFR 149

Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
               L  VP + ++Y C+VEH  L  P+   W
Sbjct: 150 KFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHW 181


>ref|NP_001014401.1| MHC class I DLA-12 [Canis lupus familiaris].
          Length = 358

 Score = 65.9 bits (159), Expect = 7e-11
 Identities = 49/188 (26%), Positives = 76/188 (40%), Gaps = 8/188 (4%)
 Frame = +1

Query: 175 FLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLL 354
           F   F C    G   +R   +  Y+G +++  + D+  + A     +   +   +  D  
Sbjct: 116 FQWMFGCDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADAAAQITRRKREAAGDAG 175

Query: 355 EQRRAEVDTYC-----RHNYRTSDTFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVT 510
             R   ++T C     R+     +T L   RAEP   RVT +P       H   L C   
Sbjct: 176 HLRNY-LETTCVEWLRRYLEMGKETLL---RAEPPSTRVTRHPVS----DHEVTLRCWAL 227

Query: 511 GFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSL 690
           GFYP  + + W R+G+++          P GD TFQ    +       + Y+C V+H  L
Sbjct: 228 GFYPAEITLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGL 287

Query: 691 TSPVTVEW 714
             PVT  W
Sbjct: 288 VEPVTRRW 295


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

 Score = 65.9 bits (159), Expect = 7e-11
 Identities = 47/184 (25%), Positives = 76/184 (41%), Gaps = 8/184 (4%)
 Frame = +1

Query: 187 FECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRR 366
           + C    G   +R   +  Y+G +++  + D+  + A     +   + + +     E  R
Sbjct: 123 YGCDLGPGGRLLRGYSQDAYDGADYIALNEDLRSWTAADTAAQITRRKWEAA-GTAEHDR 181

Query: 367 AEVDTYC-----RHNYRTSDTFLVPRRAEP---RVTVYPAKTQPLQHHNLLVCSVTGFYP 522
             ++T C     R+     +T L   RAEP   RVT +P       H   L C   GFYP
Sbjct: 182 NYLETTCVEWLRRYLEMGKETLL---RAEPPSTRVTRHPIS----DHEVTLRCWALGFYP 234

Query: 523 GHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPV 702
             + + W R+G+++          P GD TFQ    +       + Y+C V+H  L  PV
Sbjct: 235 AEITLTWQRDGEDQTQDTEVVDTRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLAEPV 294

Query: 703 TVEW 714
           T  W
Sbjct: 295 TRRW 298


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

 Score = 65.1 bits (157), Expect = 1e-10
 Identities = 42/177 (23%), Positives = 79/177 (44%), Gaps = 6/177 (3%)
 Frame = +1

Query: 220 VRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYC---- 387
           +R  +R  Y+G +++    D+  +     + +   + +++   + E R+  ++  C    
Sbjct: 140 LRGYQRHAYDGLDYITLSEDLRSWIVEDPVAQITRRKWDAAT-VAENRKNFLEGRCLEWL 198

Query: 388 -RHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNL-LVCSVTGFYPGHVEVRWFRNGQE 561
            RH     +T    +RA+P  T      +P+  H + L C   GFYP  + + W R+G++
Sbjct: 199 RRHLENGRETL---QRADPPKT--SVTRRPISEHEVTLKCWALGFYPAEITLTWQRDGED 253

Query: 562 EAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSES 732
           +          P GD TFQ    +       + Y+C + H SLT P+T+ W    +S
Sbjct: 254 QTQDTELVETRPGGDGTFQKWAAVVVPSGEEQRYTCHILHKSLTKPITLRWEPPPQS 310


  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: 50,714,038
Number of extensions: 1570872
Number of successful extensions: 6336
Number of sequences better than 1.0e-05: 24
Number of HSP's gapped: 6310
Number of HSP's successfully gapped: 24
Length of query: 364
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 260
Effective length of database: 15,407,560
Effective search space: 4005965600
Effective search space used: 4005965600
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-001244
         (1094 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_003119340.1| PREDICTED: HLA class II histocompatibility a...   386   e-107
Alignment   gi|XP_003119339.1| PREDICTED: HLA class II histocompatibility a...   386   e-107
Alignment   gi|XP_003119308.1| PREDICTED: HLA class II histocompatibility a...   386   e-107
Alignment   gi|XP_003119307.1| PREDICTED: HLA class II histocompatibility a...   386   e-107
Alignment   gi|NP_002115.2| major histocompatibility complex, class II, DR ...   379   e-105
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 ...   375   e-104
Alignment   gi|NP_001230894.1| major histocompatibility complex, class II, ...   373   e-103
Alignment   gi|NP_068818.4| major histocompatibility complex, class II, DR ...   369   e-102
Alignment   gi|XP_003119341.1| PREDICTED: HLA class II histocompatibility a...   355   5e-98

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

 Score =  386 bits (992), Expect = e-107
 Identities = 188/266 (70%), Positives = 214/266 (80%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MAALTV L+VLS PLALA DT P FL+ GK++CHFFNGTE+V+ LER +
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EEFVRFDSDVGEYRAVTELGRP A+++NSQKD+LE RR +VDT CRHNY   ++F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  386 bits (992), Expect = e-107
 Identities = 188/266 (70%), Positives = 214/266 (80%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MAALTV L+VLS PLALA DT P FL+ GK++CHFFNGTE+V+ LER +
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EEFVRFDSDVGEYRAVTELGRP A+++NSQKD+LE RR +VDT CRHNY   ++F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  386 bits (992), Expect = e-107
 Identities = 188/266 (70%), Positives = 214/266 (80%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MAALTV L+VLS PLALA DT P FL+ GK++CHFFNGTE+V+ LER +
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EEFVRFDSDVGEYRAVTELGRP A+++NSQKD+LE RR +VDT CRHNY   ++F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  386 bits (992), Expect = e-107
 Identities = 188/266 (70%), Positives = 214/266 (80%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MAALTV L+VLS PLALA DT P FL+ GK++CHFFNGTE+V+ LER +
Sbjct: 1   MVCLKLPGGSCMAALTVTLMVLSSPLALAGDTQPRFLWQGKYKCHFFNGTERVQFLERLF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EEFVRFDSDVGEYRAVTELGRP A+++NSQKD+LE RR +VDT CRHNY   ++F V
Sbjct: 61  YNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKDILEDRRGQVDTVCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  IYF+NQKG   LQPTG LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPTGFLS 266


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

 Score =  379 bits (973), Expect = e-105
 Identities = 185/266 (69%), Positives = 213/266 (80%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  M ALTV L+VLS PLAL+ DT P FL+  K ECHFFNGTE+VR L+R +
Sbjct: 1   MVCLKLPGGSCMTALTVTLMVLSSPLALSGDTRPRFLWQPKRECHFFNGTERVRFLDRYF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EE VRFDSDVGE+RAVTELGRPDA+ +NSQKD+LEQ RA VDTYCRHNY   ++F V
Sbjct: 61  YNQEESVRFDSDVGEFRAVTELGRPDAEYWNSQKDILEQARAAVDTYCRHNYGVVESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR +P+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWF NGQEE AG+VSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFLNGQEEKAGMVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 = 186/266 (69%), Positives = 209/266 (78%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G +MA LTV L+VLS PLALA DT P FL   K+ECHFFNGTE+VR L R  
Sbjct: 1   MVCLKLPGGSYMAKLTVTLMVLSSPLALAGDTRPRFLQQDKYECHFFNGTERVRFLHRDI 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EE +RFDSDVGEYRAVTELGRPDA+ +NSQKD LE RRA VDTYCRHNY   ++F V
Sbjct: 61  YNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR EP+VTVYPA+TQ LQHHNLLVCSV GFYPG +EVRWFRN QEE AGVVSTGLI NG
Sbjct: 121 QRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRA+SESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  375 bits (964), Expect = e-104
 Identities = 185/266 (69%), Positives = 211/266 (79%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  +AALTV L+VLS  LA A DT P FL L K ECHFFNGTE+VR L+R +
Sbjct: 1   MVCLKLPGGSSLAALTVTLMVLSSRLAFAGDTRPRFLELRKSECHFFNGTERVRYLDRYF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           +N EEF+RFDSDVGEYRAVTELGRP A+++NSQKDLLEQ+R  VD YCRHNY   ++F V
Sbjct: 61  HNQEEFLRFDSDVGEYRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P+VTVYPAKTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVHPQVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+TS +TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  373 bits (957), Expect = e-103
 Identities = 183/266 (68%), Positives = 208/266 (78%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MA LTV L+VLS PLALA DT P FL     ECHFFNGTE+VR L+R +
Sbjct: 1   MVCLRLPGGSCMAVLTVTLMVLSSPLALAGDTRPRFLEYSTSECHFFNGTERVRYLDRYF 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           +N EE VRFDSDVGE+RAVTELGRPDA+ +NSQKDLLEQ+R  VD YCRHNY   ++F V
Sbjct: 61  HNQEENVRFDSDVGEFRAVTELGRPDAEYWNSQKDLLEQKRGRVDNYCRHNYGVVESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR  P+VTVYP+KTQPLQHHNLLVCSV+GFYPG +EVRWFRNGQEE  GVVSTGLI NG
Sbjct: 121 QRRVHPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKTGVVSTGLIHNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+TSP+TVEWRARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  IYF+NQKG   LQP G LS
Sbjct: 241 FLGAGLFIYFRNQKGHSGLQPRGFLS 266


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

 Score =  369 bits (946), Expect = e-102
 Identities = 182/266 (68%), Positives = 209/266 (78%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L    G  MAALTV L VLS PLALA DT P FL   K ECHF NGTE+V  L R  
Sbjct: 1   MVCLKLPGGSCMAALTVTLTVLSSPLALAGDTQPRFLEQAKCECHFLNGTERVWNLIRYI 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EE+ R++SD+GEY+AVTELGRPDA+ +NSQKDLLE+RRAEVDTYCR+NY   ++F V
Sbjct: 61  YNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVESFTV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
            RR +P+VTVYP+KTQPLQHHNLLVCSV GFYPG +EVRWFRNGQEE AGVVSTGLI NG
Sbjct: 121 QRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV+W ARSESAQ KM+SG+        
Sbjct: 181 DWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  355 bits (910), Expect = 5e-98
 Identities = 167/231 (72%), Positives = 191/231 (82%)
 Frame = +1

Query: 169 FLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKD 348
           FL+ GK++CHFFNGTE+V+ LER +YN EEFVRFDSDVGEYRAVTELGRP A+++NSQKD
Sbjct: 34  FLWQGKYKCHFFNGTERVQFLERLFYNQEEFVRFDSDVGEYRAVTELGRPVAESWNSQKD 93

Query: 349 LLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGH 528
           +LE RR +VDT CRHNY   ++F V RR  P VTVYPAKTQPLQHHNLLVCSV+GFYPG 
Sbjct: 94  ILEDRRGQVDTVCRHNYGVGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGS 153

Query: 529 VEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTV 708
           +EVRWFRNGQEE AGVVSTGLI NGDWTFQT+VMLETVP+SGEVY+C+VEHPS+ SP+TV
Sbjct: 154 IEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTV 213

Query: 709 EWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFKNQKGRPALQPTGLLS 861
           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: 49,680,039
Number of extensions: 1546261
Number of successful extensions: 6210
Number of sequences better than 1.0e-05: 75
Number of HSP's gapped: 6166
Number of HSP's successfully gapped: 75
Length of query: 364
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 260
Effective length of database: 14,868,908
Effective search space: 3865916080
Effective search space used: 3865916080
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-001244
         (1094 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...   372   e-103
Alignment   gi|NP_001029150.1| histocompatibility 2, class II antigen E bet...   298   7e-81
Alignment   gi|NP_996988.2| histocompatibility 2, class II antigen A, beta ...   280   2e-75
Alignment   gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ...   256   2e-68
Alignment   gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ...    77   3e-14
Alignment   gi|NP_034517.2| class II histocompatibility antigen, M beta 1 c...    73   4e-13
Alignment   gi|XP_003086107.1| PREDICTED: class II histocompatibility antig...    73   4e-13
Alignment   gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha...    71   2e-12
Alignment   gi|NP_032235.1| major histocompatibility complex class I-relate...    70   3e-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 =  372 bits (955), Expect = e-103
 Identities = 177/255 (69%), Positives = 209/255 (81%)
 Frame = +1

Query: 97  MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276
           +AA+ ++L VLSPP+AL RD+ P FL   K ECHF+NGT++VRLLER +YN EE +RFDS
Sbjct: 10  VAAVILLLTVLSPPVALVRDSRPWFLEYCKSECHFYNGTQRVRLLERYFYNLEENLRFDS 69

Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVY 456
           DVGE+RAVTELGRPDA+N+NSQ + LEQ+RAEVDT CRHNY  SD FLV RR EP VTVY
Sbjct: 70  DVGEFRAVTELGRPDAENWNSQPEFLEQKRAEVDTVCRHNYEISDKFLVRRRVEPTVTVY 129

Query: 457 PAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVMLE 636
           P KTQPL+HHNLLVCSV+ FYPG++EVRWFRNG+EE  G+VSTGL+ NGDWTFQT+VMLE
Sbjct: 130 PTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVSTGLVRNGDWTFQTLVMLE 189

Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYFK 816
           TVPQSGEVY+C+VEHPSLT PVTVEW+A+S SAQ KM+SG+               IYF+
Sbjct: 190 TVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLSGVGGFVLGLLFLGAGLFIYFR 249

Query: 817 NQKGRPALQPTGLLS 861
           NQKG+  LQPTGLLS
Sbjct: 250 NQKGQSGLQPTGLLS 264


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

 Score =  298 bits (762), Expect = 7e-81
 Identities = 145/232 (62%), Positives = 179/232 (77%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           M+ L   RG  +AA+ + L++L+PP+ L RD  P FL   K ECH+FNG E+V  + R  
Sbjct: 1   MVSLWLPRGLCVAAVILSLMMLTPPVILVRDPRPRFLEQLKAECHYFNGKERVWSVTRFI 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YN EEF RF+SD G++ AVTELGRP  +  N+QKD+L+  RA VD  CR+NY   D F++
Sbjct: 61  YNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLVDIFML 119

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
             +AEP+VTVYPAKTQPL+HHNLLVCSV  FYPG +EVRWFRNG+EE  GVVSTGLI N 
Sbjct: 120 NLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTGLIQNR 179

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
           DWT+QT+VMLE VP+ GEVY+C+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 =  280 bits (715), Expect = 2e-75
 Identities = 140/255 (54%), Positives = 176/255 (69%), Gaps = 1/255 (0%)
 Frame = +1

Query: 97  MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDS 276
           ++A  V+L+VLS P     D+  HF++    EC+F NGT+++R + R  YN EE+VR+DS
Sbjct: 10  LSAAVVVLMVLSSPGTEGGDSERHFVYQFMGECYFTNGTQRIRYVTRYIYNREEYVRYDS 69

Query: 277 DVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAE-PRVTV 453
           DVGE+RAVTELGRPDA+ +NSQ ++LE+ RAE+DT CRHNY   +T    RR E P V +
Sbjct: 70  DVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHTSLRRLEQPNVVI 129

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
             ++T+ L HHN LVCSVT FYP  ++VRWFRNGQEE  GV ST LI NGDWTFQ +VML
Sbjct: 130 SLSRTEALNHHNTLVCSVTDFYPAKIKVRWFRNGQEETVGVSSTQLIRNGDWTFQVLVML 189

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
           E  P+ GEVY+C VEHPSL SP+TVEWRA+SESA  KM+SGI               I  
Sbjct: 190 EMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLSGIGGCVLGVIFLGLGLFIRH 249

Query: 814 KNQKGRPALQPTGLL 858
           ++QKG     P GLL
Sbjct: 250 RSQKGPRGPPPAGLL 264


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

 Score =  256 bits (655), Expect = 2e-68
 Identities = 127/254 (50%), Positives = 163/254 (64%)
 Frame = +1

Query: 85  RGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFV 264
           R  W+ AL V L+ L   +   RD+P +F+   K +C+F NGTE+V LL R  +N EE++
Sbjct: 5   RAPWVVALLVNLMRLDSFMIEGRDSPENFVIQAKADCYFTNGTEKVHLLVRFIFNLEEYL 64

Query: 265 RFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPR 444
            FDSD+G + A+TELG PDA  +N + DLLE  RA V+  CR  Y+    F V R   P 
Sbjct: 65  HFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKLGAPFTVERNVPPE 124

Query: 445 VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTM 624
           VTVYP +T  LQ HNLL+CSVTGFYPG + V+WFRNGQEE +GV+STGL+ NGDWTFQT 
Sbjct: 125 VTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMSTGLVRNGDWTFQTT 184

Query: 625 VMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXX 804
           VMLE +P+ G++YSC VEHP L  PV+V W A+SE +  K++SG                
Sbjct: 185 VMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILSGAAVFLLGLIVFLVGVV 244

Query: 805 IYFKNQKGRPALQP 846
           I+ K QK     QP
Sbjct: 245 IHLKAQKASVETQP 258


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

 Score = 76.6 bits (187), Expect = 3e-14
 Identities = 67/225 (29%), Positives = 98/225 (43%), Gaps = 19/225 (8%)
 Frame = +1

Query: 97  MAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFN-------GTEQVRLLERQY---Y 246
           MAAL ++L+VLS           H +  G F  H  +       GT Q    +  Y   +
Sbjct: 1   MAALWLLLLVLSL----------HCMGAGGFVAHVESTCVLNDAGTPQ----DFTYCVSF 46

Query: 247 NGEEFVRFDSDVG-----EYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSD 411
           N +    +D DVG     E+  ++ L    +   N Q+ L+ + +  +     H     D
Sbjct: 47  NKDLLACWDPDVGKIVPCEFGVLSRLAEIISNILNEQESLIHRLQNGLQDCATHTQPFWD 106

Query: 412 TFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGVV 579
             L  R   P V V  A+T P       +L C V GFYP  V + W +NGQ     +   
Sbjct: 107 V-LTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKE 163

Query: 580 STGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
            T   PNGDWT+QT+  L   P  G+VY+C V+H   + P+  +W
Sbjct: 164 KTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


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

 Score = 72.8 bits (177), Expect = 4e-13
 Identities = 53/166 (31%), Positives = 79/166 (47%), Gaps = 9/166 (5%)
 Frame = +1

Query: 244 YNGEEFVRFDSDVGEYRAVTELG--RPDAKNYN---SQKDLLEQRRAEVDTYCRHNYRTS 408
           +N +    +D DVG+     E G   P A+N++   ++++ L QR       C  + +  
Sbjct: 46  FNKDLLACWDPDVGKI-VPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPF 104

Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 576
              L  R   P V V  A+T P       +L C V GFYP  V + W +NGQ     +  
Sbjct: 105 WNALTHRTRAPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162

Query: 577 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
             T   PNGDWT+QT+  L   P  G+VY+C V+H   + P+  +W
Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


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

 Score = 72.8 bits (177), Expect = 4e-13
 Identities = 53/166 (31%), Positives = 79/166 (47%), Gaps = 9/166 (5%)
 Frame = +1

Query: 244 YNGEEFVRFDSDVGEYRAVTELG--RPDAKNYN---SQKDLLEQRRAEVDTYCRHNYRTS 408
           +N +    +D DVG+     E G   P A+N++   ++++ L QR       C  + +  
Sbjct: 46  FNKDLLACWDPDVGKI-VPCEFGVLYPWAENFSRILNKEESLLQRLQNGLLDCASHTQPF 104

Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCSVTGFYPGHVEVRWFRNGQ--EEAAGV 576
              L  R   P V V  A+T P       +L C V GFYP  V + W +NGQ     +  
Sbjct: 105 WNALTHRTRPPSVRV--AQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNK 162

Query: 577 VSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
             T   PNGDWT+QT+  L   P  G+VY+C V+H   + P+  +W
Sbjct: 163 EKTAQ-PNGDWTYQTVSYLALTPSYGDVYTCVVQHSGTSEPIRGDW 207


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

 Score = 70.9 bits (172), Expect = 2e-12
 Identities = 31/92 (33%), Positives = 45/92 (48%)
 Frame = +1

Query: 439 PRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQ 618
           P+ TV+P     L   N L+C V   +P  + + W RN +  A GV  T    N D++F 
Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173

Query: 619 TMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
            +  L  +P   ++Y C+VEH  L  PV   W
Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHW 205


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

 Score = 70.1 bits (170), Expect = 3e-12
 Identities = 44/151 (29%), Positives = 73/151 (48%), Gaps = 5/151 (3%)
 Frame = +1

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYC-----RHNYRTS 408
           Y+G++F+ F+ D   + A+  +     + + +    L+ ++  ++  C     R      
Sbjct: 132 YDGQDFIIFNKDTLSWLAMDYVAHITKQAWEANLHELQYQKNWLEEECIAWLKRFLEYGR 191

Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 588
           DT  + R   P V     +T P        C   GFYP  + + W +NG+E A  V   G
Sbjct: 192 DT--LERTEHPVVRTTRKETFP--GITTFFCRAHGFYPPEISMTWMKNGEEIAQEVDYGG 247

Query: 589 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEH 681
           ++P+GD T+QT + +   PQS +VYSC VEH
Sbjct: 248 VLPSGDGTYQTWLSVNLDPQSNDVYSCHVEH 278


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

 Score = 66.6 bits (161), Expect = 3e-11
 Identities = 44/207 (21%), Positives = 87/207 (42%), Gaps = 6/207 (2%)
 Frame = +1

Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291
           + LV L   +   +DT     F G F C   N      +  R  Y+GE+F+ F+ ++  +
Sbjct: 91  IFLVTLKDIMDYYKDTTGSHTFQGMFGCEITNNRSSGAVW-RYAYDGEDFIEFNKEIPAW 149

Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRH------NYRTSDTFLVPRRAEPRVTV 453
             +          + ++K  +++ +A ++  C        NY  S       R +P    
Sbjct: 150 IPLDPAAANTKLKWEAEKVYVQRAKAYLEEECPEMLKRYLNYSRSHL----DRIDPPTVT 205

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
             ++  P   + +  C   GFYP  + + W     ++ A     G+ PNG+ T+ +   +
Sbjct: 206 ITSRVIP-GGNRIFKCLAYGFYPQRISLHW-NKANKKLAFEPERGVFPNGNGTYLSWAEV 263

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEW 714
           E  PQ  + + C ++H   +  ++V+W
Sbjct: 264 EVSPQDIDPFFCLIDHRGFSQSLSVQW 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: 41,829,669
Number of extensions: 1276878
Number of successful extensions: 5230
Number of sequences better than 1.0e-05: 110
Number of HSP's gapped: 5171
Number of HSP's successfully gapped: 110
Length of query: 364
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 261
Effective length of database: 12,523,851
Effective search space: 3268725111
Effective search space used: 3268725111
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)

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-001244
         (1094 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-...   486   e-137
Alignment   gi|XP_003128372.1| PREDICTED: DLA class II histocompatibility a...   364   e-101
Alignment   gi|XP_003128397.1| PREDICTED: DLA class II histocompatibility a...   353   7e-98
Alignment   gi|NP_001107166.1| SLA class II histocompatibility antigen, DQ ...   304   5e-83
Alignment   gi|XP_003128376.1| PREDICTED: HLA class II histocompatibility a...   264   7e-71
Alignment   gi|NP_001107536.2| MHC class II, DO beta [Sus scrofa].               260   8e-70
Alignment   gi|XP_003362269.1| PREDICTED: h-2 class II histocompatibility a...    96   5e-20
Alignment   gi|NP_001107179.1| MHC class II, DM beta [Sus scrofa].                75   6e-14
Alignment   gi|NP_001172072.1| src-like-adapter [Sus scrofa].                     73   2e-13
Alignment   gi|XP_003124355.2| PREDICTED: zinc-alpha-2-glycoprotein-like [S...    73   2e-13

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

 Score =  486 bits (1250), Expect = e-137
 Identities = 237/266 (89%), Positives = 242/266 (90%)
 Frame = +1

Query: 64  MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQY 243
           MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFL K ECHFFNGTE+VRLL++QY
Sbjct: 1   MLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLVKDECHFFNGTERVRLLQKQY 60

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLV 423
           YNGEE VRFDSDVGEYRAVTELGRPDAK +NSQKDLLEQ RA VDTYCRHNYR  DTFLV
Sbjct: 61  YNGEEHVRFDSDVGEYRAVTELGRPDAKYWNSQKDLLEQMRAAVDTYCRHNYRILDTFLV 120

Query: 424 PRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 603
           PRRAEP VTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG
Sbjct: 121 PRRAEPTVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNG 180

Query: 604 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXX 783
           DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSG+        
Sbjct: 181 DWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGVGGFVLGLL 240

Query: 784 XXXXXXXIYFKNQKGRPALQPTGLLS 861
                  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 =  364 bits (935), Expect = e-101
 Identities = 183/256 (71%), Positives = 199/256 (77%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           WMAALTV L++ SPPLA ARD PP F+   K EC F NGTE+VR L R  YN EE V FD
Sbjct: 6   WMAALTVTLMLWSPPLACARDIPPVFMHQFKCECQFSNGTERVRFLARYIYNTEEDVHFD 65

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           SD+GE+RA+TELGRPDA+ +N QK  LEQ R +VDT CR NY    + ++ RR +PRVTV
Sbjct: 66  SDLGEFRALTELGRPDAEYWNQQKGFLEQMRTKVDTMCRSNYLGIGSLMMQRRVKPRVTV 125

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML
Sbjct: 126 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 185

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
           ETVPQSGEVYSCRVEHPSLTSPVTVEWRA SESAQGKM+SGI               I  
Sbjct: 186 ETVPQSGEVYSCRVEHPSLTSPVTVEWRAWSESAQGKMLSGIGGCVLGLLVLAVGLFISC 245

Query: 814 KNQKGRPALQPTGLLS 861
           + 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 =  353 bits (907), Expect = 7e-98
 Identities = 170/222 (76%), Positives = 190/222 (85%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           W   LTV+L+VLSPPLA A DT P F+  GK ECHF NGT+QVR L+R  YN +E VRFD
Sbjct: 11  WTVFLTVILMVLSPPLAWAGDTRPVFMIQGKSECHFSNGTQQVRFLDRYIYNRDELVRFD 70

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           SDVGEYRAVT +G+P AK +NSQKD+L++ RA VDT+CR NY   ++  V RR +P VTV
Sbjct: 71  SDVGEYRAVTPMGQPAAKYWNSQKDILKRVRAAVDTFCRSNYEFFESCTVQRRVKPTVTV 130

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML
Sbjct: 131 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 190

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGI 759
           ETVPQSGEVYSCRVEHPSLTSPVTVEWRA+ +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 =  304 bits (779), Expect = 5e-83
 Identities = 149/257 (57%), Positives = 186/257 (72%)
 Frame = +1

Query: 58  SSMLHLCFSRGFWMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLER 237
           S M+ L   RG W AALTVMLVVL  P+A  RD+P  F+F  K EC+F+NGT++VR + R
Sbjct: 2   SGMVALRLPRGLWTAALTVMLVVLGAPVAEGRDSPQDFVFQFKGECYFYNGTQRVRGVAR 61

Query: 238 QYYNGEEFVRFDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTF 417
             YN EE +RFDSDVGE+RAVT LGRP+A ++NSQKD+LEQ RAEVD  C+HNY+  +  
Sbjct: 62  YIYNQEEHLRFDSDVGEFRAVTPLGRPEADSWNSQKDVLEQMRAEVDRVCKHNYQIEEGT 121

Query: 418 LVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIP 597
            + RR +P VT+ P+K + L HHNLLVC+VT FYP  V+V+WFRNGQEE AGVVST LI 
Sbjct: 122 TLQRRVQPTVTISPSKAEALNHHNLLVCAVTDFYPSQVKVQWFRNGQEETAGVVSTPLIR 181

Query: 598 NGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXX 777
           NGDWT+Q +VMLE   Q G+VY+CRVEH SL +P+ VEWRA+SESAQ KM+SG+      
Sbjct: 182 NGDWTYQVLVMLEMNLQRGDVYTCRVEHSSLQNPILVEWRAQSESAQSKMLSGVGGFVLG 241

Query: 778 XXXXXXXXXIYFKNQKG 828
                    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 =  264 bits (674), Expect = 7e-71
 Identities = 125/253 (49%), Positives = 173/253 (68%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           W+ AL VM++ L   +   RD P  F+   K +C+F NGT++V+ + R  +N EEFVRFD
Sbjct: 21  WVVALLVMVIRLDSSMTQGRDPPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEEFVRFD 80

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           SD+G++ A+TELG+PDA+ +NS+ D+LE  RA VD  CR NY       V R+ +P VTV
Sbjct: 81  SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 140

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           +P +T  LQ  NLL+CSVTGFYPG +E+RWFRNGQE+  GV++TGL+ NGDWTFQT+VML
Sbjct: 141 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLVRNGDWTFQTVVML 200

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
           E  P+ G+VY+C V+HPSL SPV+VEWRA+S+ +  K++ G+               I+ 
Sbjct: 201 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 260

Query: 814 KNQKGRPALQPTG 852
           + +KGR   Q +G
Sbjct: 261 RARKGRVETQLSG 273


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

 Score =  260 bits (665), Expect = 8e-70
 Identities = 124/253 (49%), Positives = 172/253 (67%)
 Frame = +1

Query: 94  WMAALTVMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFD 273
           W+ AL V ++ L   +   RD+P  F+   K +C+F NGT++V+ + R  +N EE VRFD
Sbjct: 21  WVVALLVTVIRLDSSMTQGRDSPEDFVIQAKADCYFTNGTQRVQFVVRFIFNLEELVRFD 80

Query: 274 SDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTV 453
           SD+G++ A+TELG+PDA+ +NS+ D+LE  RA VD  CR NY       V R+ +P VTV
Sbjct: 81  SDLGKFVALTELGQPDAELWNSRPDILESSRASVDVLCRRNYWLGAPLTVERKVQPEVTV 140

Query: 454 YPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTGLIPNGDWTFQTMVML 633
           +P +T  LQ  NLL+CSVTGFYPG +E+RWFRNGQE+  GV++TGLI NGDWTFQT+VML
Sbjct: 141 HPERTPSLQLRNLLLCSVTGFYPGAIEIRWFRNGQEQREGVLATGLIRNGDWTFQTVVML 200

Query: 634 ETVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQGKMMSGIXXXXXXXXXXXXXXXIYF 813
           E  P+ G+VY+C V+HPSL SPV+VEWRA+S+ +  K++ G+               I+ 
Sbjct: 201 EMTPELGDVYTCLVDHPSLLSPVSVEWRAQSDCSWTKLLIGVAAFLGGLTFLLVGIIIHV 260

Query: 814 KNQKGRPALQPTG 852
           + +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 = 95.5 bits (236), Expect = 5e-20
 Identities = 47/57 (82%), Positives = 49/57 (85%)
 Frame = +1

Query: 268 FDSDVGEYRAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAE 438
           FDSDVGEYRAVTELGRPDAK++NSQKDLLEQRRAEVDTY     R  DTFLVPRR E
Sbjct: 1   FDSDVGEYRAVTELGRPDAKDWNSQKDLLEQRRAEVDTYXXXXXRILDTFLVPRRGE 57


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

 Score = 75.1 bits (183), Expect = 6e-14
 Identities = 47/131 (35%), Positives = 63/131 (48%), Gaps = 3/131 (2%)
 Frame = +1

Query: 331 YNSQKDLLEQRRAEVDTYCRHNYRTSDTFLVPRRAEPRVTVYPAKTQPLQHHN--LLVCS 504
           Y +Q++ L QR +     C  + +     L  R   P V V  AKT P       +L C 
Sbjct: 88  YLNQQEKLLQRLSNGLQNCATHTQPFWKSLTHRTQPPSVQV--AKTTPFNTRESVMLACY 145

Query: 505 VTGFYPGHVEVRWFRNGQEEAA-GVVSTGLIPNGDWTFQTMVMLETVPQSGEVYSCRVEH 681
           V GFYP  V + W +NGQ     G       PNGDWT+QT+  L T P  G+ Y+C VEH
Sbjct: 146 VWGFYPADVIITWRKNGQPVLPHGKAHMITQPNGDWTYQTVSHLATTPSYGDTYTCVVEH 205

Query: 682 PSLTSPVTVEW 714
             +  P+  +W
Sbjct: 206 IGVPEPILQDW 216


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

 Score = 73.2 bits (178), Expect = 2e-13
 Identities = 49/162 (30%), Positives = 71/162 (43%), Gaps = 5/162 (3%)
 Frame = +1

Query: 244 YNGEEFVRFDSDVGEYRAVTELGRPDAKNY---NSQKDL--LEQRRAEVDTYCRHNYRTS 408
           ++GE+   F  D+ +  AV  L  P+  N+   + Q  L  +   RA +D     +  T 
Sbjct: 52  FDGEQL--FSVDLKKREAVWRL--PEFSNFADFDPQNGLRGIALIRAHLDVLVERSNHTR 107

Query: 409 DTFLVPRRAEPRVTVYPAKTQPLQHHNLLVCSVTGFYPGHVEVRWFRNGQEEAAGVVSTG 588
            T        PRVTV P     L   N+L+C V   +P  + + W  NGQ    GV  T 
Sbjct: 108 AT-----NVPPRVTVLPKSPVALGQPNVLICIVDNIFPPVINITWLHNGQTVTEGVTQTS 162

Query: 589 LIPNGDWTFQTMVMLETVPQSGEVYSCRVEHPSLTSPVTVEW 714
                D +F+    L  VP +G+ Y C+VEH  L  P+   W
Sbjct: 163 FYAQPDHSFRKFHYLTFVPSAGDFYDCKVEHWGLDEPLFTHW 204


>ref|XP_003124355.2| PREDICTED: zinc-alpha-2-glycoprotein-like [Sus scrofa].
          Length = 309

 Score = 73.2 bits (178), Expect = 2e-13
 Identities = 53/215 (24%), Positives = 95/215 (44%), Gaps = 5/215 (2%)
 Frame = +1

Query: 112 VMLVVLSPPLALARDTPPHFLFLGKFECHFFNGTEQVRLLERQYYNGEEFVRFDSDVGEY 291
           + +  L   +   +D      F G+F C   N   Q     R  Y+G +F+ F+ ++  +
Sbjct: 93  IFMATLRDIMDYYKDREGSHTFQGRFGCELRNDQRQAAFW-RYAYDGRDFIEFNKEIPAW 151

Query: 292 RAVTELGRPDAKNYNSQKDLLEQRRAEVDTYCR---HNYRTSDTFLVPRRAEPRVTVYPA 462
            A+          + ++   +++ +A ++  C      Y       + ++A P V++   
Sbjct: 152 VALDPAAVNTKLKWEAEAVYVQRAKAYLEEECPGMLRRYLEHGRGHLDQQAPPSVSI-TR 210

Query: 463 KTQPLQHHNLLVCSVTGFYPGHVEVRWFRNG--QEEAAGVVSTGLIPNGDWTFQTMVMLE 636
              P Q+   L C    FYPG + +RW   G  QE  +G     ++P+G+ ++Q+ V++ 
Sbjct: 211 HVAPGQN-GTLKCLAYDFYPGRIGLRWTGAGGAQEAESG---GDVLPSGNGSYQSWVVVG 266

Query: 637 TVPQSGEVYSCRVEHPSLTSPVTVEWRARSESAQG 741
             PQ    +SC VEH SL  P+TV W    E   G
Sbjct: 267 VPPQDRAPHSCHVEHSSLAQPLTVPWAGLQELRVG 301


  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: 31,364,979
Number of extensions: 984870
Number of successful extensions: 4116
Number of sequences better than 1.0e-05: 37
Number of HSP's gapped: 4090
Number of HSP's successfully gapped: 37
Length of query: 364
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 264
Effective length of database: 8,854,232
Effective search space: 2337517248
Effective search space used: 2337517248
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-001244
         (1094 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                                                         557   e-156
gb|GL896569.1| Sus scrofa unplaced genomic scaffold chrU_scaffol...   214   8e-53
gb|GL895823.1| Sus scrofa unplaced genomic scaffold chrU_scaffol...    96   5e-17

>Sscrofa_Chr07 
||          Length = 134764511

 Score =  557 bits (281), Expect = e-156
 Identities = 284/285 (99%)
 Strand = Plus / Minus

                                                                            
Query: 432      agctgagcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 491
                ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115435 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29115376

                                                                            
Query: 492      cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 551
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115375 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29115316

                                                                            
Query: 552      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 611
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115315 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29115256

                                                                            
Query: 612      cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 671
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115255 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29115196

                                                             
Query: 672      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 716
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29115195 agtggagcaccccagcctgacgagccccgtcacagtggaatggag 29115151



 Score =  549 bits (277), Expect = e-153
 Identities = 283/285 (99%)
 Strand = Plus / Minus

                                                                            
Query: 432      agctgagcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 491
                ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29080687 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29080628

                                                                            
Query: 492      cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 551
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29080627 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29080568

                                                                            
Query: 552      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 611
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29080567 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29080508

                                                                            
Query: 612      cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 671
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29080507 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29080448

                                                             
Query: 672      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 716
                ||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 29080447 agtggagcaccccagcctgacgagccctgtcacagtggaatggag 29080403



 Score =  549 bits (277), Expect = e-153
 Identities = 283/285 (99%)
 Strand = Plus / Minus

                                                                            
Query: 432      agctgagcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 491
                ||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29096277 agctgagcccacagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 29096218

                                                                            
Query: 492      cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 551
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29096217 cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 29096158

                                                                            
Query: 552      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 611
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29096157 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29096098

                                                                            
Query: 612      cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 671
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29096097 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29096038

                                                             
Query: 672      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 716
                ||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 29096037 agtggagcaccccagcctgacgagccctgtcacagtggaatggag 29095993



 Score =  547 bits (276), Expect = e-153
 Identities = 279/280 (99%)
 Strand = Plus / Minus

                                                                            
Query: 437      agcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacctcctgg 496
                ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29060020 agcccagagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 29059961

                                                                            
Query: 497      tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 556
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059960 tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 29059901

                                                                            
Query: 557      aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 616
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059900 aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 29059841

                                                                            
Query: 617      agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 676
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059840 agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 29059781

                                                        
Query: 677      agcaccccagcctgacgagccccgtcacagtggaatggag 716
                ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29059780 agcaccccagcctgacgagccccgtcacagtggaatggag 29059741



 Score =  541 bits (273), Expect = e-151
 Identities = 282/285 (98%)
 Strand = Plus / Plus

                                                                            
Query: 432      agctgagcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacct 491
                ||||||||||| |||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 29211757 agctgagcccacagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacct 29211816

                                                                            
Query: 492      cctggtctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaa 551
                |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211817 cctggtctgctctgtgactgggttctacccaggccacgtggaggtcaggtggttccggaa 29211876

                                                                            
Query: 552      tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 611
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211877 tggccaggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggac 29211936

                                                                            
Query: 612      cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 671
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211937 cttccagaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccg 29211996

                                                             
Query: 672      agtggagcaccccagcctgacgagccccgtcacagtggaatggag 716
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29211997 agtggagcaccccagcctgacgagccccgtcacagtggaatggag 29212041



 Score =  539 bits (272), Expect = e-150
 Identities = 278/280 (99%)
 Strand = Plus / Plus

                                                                            
Query: 437      agcccagagtgacggtgtatcctgcaaagacccagcccctgcagcaccacaacctcctgg 496
                |||||| |||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365216 agcccacagtgacggtgtaccctgcaaagacccagcccctgcagcaccacaacctcctgg 29365275

                                                                            
Query: 497      tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 556
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365276 tctgctctgtgaccgggttctacccaggccacgtggaggtcaggtggttccggaatggcc 29365335

                                                                            
Query: 557      aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 616
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365336 aggaagaggcggcgggggtggtctccacaggcctgatccctaatggagactggaccttcc 29365395

                                                                            
Query: 617      agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 676
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365396 agaccatggtgatgcttgaaacggttcctcagagtggagaggtctacagctgccgagtgg 29365455

                                                        
Query: 677      agcaccccagcctgacgagccccgtcacagtggaatggag 716
                ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29365456 agcaccccagcctgacgagccccgtcacagtggaatggag 29365495



 Score =  430 bits (217), Expect = e-118
 Identities = 247/257 (96%)
 Strand = Plus / Minus

                                                                            
Query: 183      gaaattcgagtgtcatttcttcaatgggaccgagcaggtgaggttattggagaggcaata 242
                ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 29118070 gaaattcgagtgtcatttcttcaatgggaccgagcgggtgaggttattggagaggcaata 29118011

                                                                            
Query: 243      ctataacggagaggagttcgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgac 302
                ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 29118010 ctataacggagaggagttcctgcgcttcgacagcgacgtgggcgagtaccgggcggtgac 29117951

                                                                            
Query: 303      cgagctggggcggccagacgccaagaactataacagccagaaggacctcctggagcagag 362
                ||||||||||||||||||||||||| |||  |||||||||||||||||||||||||||||
Sbjct: 29117950 cgagctggggcggccagacgccaaggactggaacagccagaaggacctcctggagcagag 29117891

                                                                            
Query: 363      gcgggcggaggtggacacgtactgcagacacaactacaggacctccgatacattcctggt 422
                ||||||||||||||||||||||||||||||||||||| ||| ||  ||||||||||||||
Sbjct: 29117890 gcgggcggaggtggacacgtactgcagacacaactaccggatcttggatacattcctggt 29117831

                                 
Query: 423      gccgcggcgagctgagc 439
                ||||||||||| |||||
Sbjct: 29117830 gccgcggcgaggtgagc 29117814



 Score =  341 bits (172), Expect = 5e-91
 Identities = 181/184 (98%)
 Strand = Plus / Minus

                                                                            
Query: 848      caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 907
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29094070 caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 29094011

                                                                            
Query: 908      gtcttcacagcatgagaaagctcctgctatgctctgcgtcctcccccaggagagctcttc 967
                |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29094010 gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 29093951

                                                                            
Query: 968      ctcaaactctcctttgctcctggttcagggaccctgcaaaaaaggtcttttgatggcttt 1027
                |||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 29093950 ctcagactctcctttgctcctggttcagggaccctgcagaaaaggtcttttgatggcttt 29093891

                    
Query: 1028     ctca 1031
                ||||
Sbjct: 29093890 ctca 29093887



 Score =  341 bits (172), Expect = 5e-91
 Identities = 181/184 (98%)
 Strand = Plus / Minus

                                                                            
Query: 848      caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 907
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29113248 caggcctcctgagctgaagtgcaggtggtgacactccaagcaagcatcctctgtgccagc 29113189

                                                                            
Query: 908      gtcttcacagcatgagaaagctcctgctatgctctgcgtcctcccccaggagagctcttc 967
                |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 29113188 gtcttcacagcatgagaaggctcctgctatgctctgcgtcctcccccaggagagctcttc 29113129

                                                                            
Query: 968      ctcaaactctcctttgctcctggttcagggaccctgcaaaaaaggtcttttgatggcttt 1027
                |||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 29113128 ctcagactctcctttgctcctggttcagggaccctgcagaaaaggtcttttgatggcttt 29113069

                    
Query: 1028     ctca 1031
                ||||
Sbjct: 29113068 ctca 29113065



 Score =  299 bits (151), Expect = 2e-78
 Identities = 160/163 (98%)
 Strand = Plus / Minus

                                                                            
Query: 1        cagtacccatttgagtgggacttgcctgctccccttacacactgtcctctcctgttctcc 60
                ||||||||||||||||||||||||||||||||| | ||||||||||||||||||||||||
Sbjct: 29125485 cagtacccatttgagtgggacttgcctgctcccttcacacactgtcctctcctgttctcc 29125426

                                                                            
Query: 61       agcatgttgcatctgtgtttctccagaggcttctggatggcagctctgactgtgatgctg 120
                ||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 29125425 agcatgttgcatctgtgtttctccagaggcttctggatggcggctctgactgtgatgctg 29125366

                                                           
Query: 121      gtggtgctgagccctcccttggctttggccagggacaccccac 163
                |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29125365 gtggtgctgagccctcccttggctttggccagggacaccccac 29125323



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

                                                                            
Query: 716      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 775
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29114144 gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 29114085

                                                                    
Query: 776      gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 827
                ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29114084 gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 29114033



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

                                                                            
Query: 716      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 775
                ||||||||||||||||||||||||||||||||||||||||| | ||||||||||||||||
Sbjct: 29094966 gggcacggtctgaatctgctcagggcaagatgatgagtggggttgggggcttcgtcctgg 29094907

                                                                    
Query: 776      gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 827
                ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 29094906 gtctgctctttgttgctgtggggctgttcatctacttcaagaatcagaaagg 29094855



 Score =  151 bits (76), Expect = 1e-33
 Identities = 167/196 (85%), Gaps = 1/196 (0%)
 Strand = Plus / Minus

                                                                            
Query: 164      cgcatttcttgtttctggggaaattcgagtgtcatttcttcaatgggaccgagcaggtga 223
                ||||||||||| |||||| ||||  ||||||||||||||||| |||||| |||| |||||
Sbjct: 29098797 cgcatttcttgcttctggtgaaacacgagtgtcatttcttcactgggacggagcgggtga 29098738

                                                                            
Query: 224      ggttattggagaggcaatactataacggagaggagttcgtgcgcttcgacagcgacgtgg 283
                ||||  |||| ||  | | |||||| ||| |||||| |||||||||||||||||||||||
Sbjct: 29098737 ggtttctggacagatacttctataatggaaaggagtacgtgcgcttcgacagcgacgtgg 29098678

                                                                            
Query: 284      gcgagtaccgggcggtgaccgagctggggcggccagacgccaagaactataacagccaga 343
                |||||| ||||| ||||||| |||| ||||||||    |||||| |||  ||||||||||
Sbjct: 29098677 gcgagttccgggtggtgacctagct-gggcggccttcagccaagtactggaacagccaga 29098619

                                
Query: 344      aggacctcctggagca 359
                ||||| ||||||||||
Sbjct: 29098618 aggacatcctggagca 29098603



 Score =  121 bits (61), Expect = 8e-25
 Identities = 127/149 (85%), Gaps = 5/149 (3%)
 Strand = Plus / Minus

                                                                            
Query: 12       tgagtgggacttgcctgctccccttacac-----actgtcctctcctgttctccagcatg 66
                ||||||||||||| |||||||||| ||||      ||||||||| |||||||||||||||
Sbjct: 29105751 tgagtgggacttggctgctcccctcacaccctggcctgtcctctgctgttctccagcatg 29105692

                                                                            
Query: 67       ttgcatctgtgtttctccagaggcttctggatggcagctctgactgtgatgctggtggtg 126
                 ||  ||||||||||||  |||||| |||| |||||||||||||  |||| |||| ||||
Sbjct: 29105691 gtgtgtctgtgtttctctggaggctcctggttggcagctctgacaatgatactgggggtg 29105632

                                             
Query: 127      ctgagccctcccttggctttggccaggga 155
                |||||||||||| | ||||||||||||||
Sbjct: 29105631 ctgagccctcccctagctttggccaggga 29105603



 Score =  117 bits (59), Expect = 1e-23
 Identities = 119/139 (85%)
 Strand = Plus / Minus

                                                                            
Query: 261      cgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcggccaga 320
                |||||||||||||||||||||||| |||| |||||||||||||  ||||||||||||   
Sbjct: 29187133 cgtgcgcttcgacagcgacgtgggggagttccgggcggtgaccccgctggggcggccgac 29187074

                                                                            
Query: 321      cgccaagaactataacagccagaaggacctcctggagcagaggcgggcggaggtggacac 380
                |||| |  |||  ||| ||||||||||| |||||||||||| |||||| |||||||||||
Sbjct: 29187073 cgccgactactggaacggccagaaggacgtcctggagcagaagcgggccgaggtggacac 29187014

                                   
Query: 381      gtactgcagacacaactac 399
                |   |||| ||||||||||
Sbjct: 29187013 ggtgtgcaaacacaactac 29186995



 Score = 95.6 bits (48), Expect = 5e-17
 Identities = 54/56 (96%)
 Strand = Plus / Minus

                                                                        
Query: 247      aacggagaggagttcgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgac 302
                ||||||||||||||||||||||||||||||||| |||| |||||||||||||||||
Sbjct: 29083008 aacggagaggagttcgtgcgcttcgacagcgacttgggtgagtaccgggcggtgac 29082953



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

                                                                            
Query: 716      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 775
                ||||| |||||||||||||||||||||| ||| ||||||| ||||||||||  |||||||
Sbjct: 29058730 gggcatggtctgaatctgctcagggcaaaatgctgagtggaatcgggggctgtgtcctgg 29058671

                                               
Query: 776      gtctgctctttgttgctgtggggctgttcat 806
                |||||||| |  | || ||||||||||||||
Sbjct: 29058670 gtctgctcgtcctggccgtggggctgttcat 29058640



 Score = 75.8 bits (38), Expect = 5e-11
 Identities = 83/98 (84%)
 Strand = Plus / Plus

                                                                            
Query: 256      gagttcgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcgg 315
                ||||| ||||||||||||||||||||||| |||||| |||||||||||    |||||| |
Sbjct: 29210394 gagttggtgcgcttcgacagcgacgtgggggagtacagggcggtgaccccaatggggcag 29210453

                                                      
Query: 316      ccagacgccaagaactataacagccagaaggacctcct 353
                || |  |||||| |||  ||||||||||||||| ||||
Sbjct: 29210454 ccggctgccaagtactggaacagccagaaggacatcct 29210491



 Score = 75.8 bits (38), Expect = 5e-11
 Identities = 83/98 (84%)
 Strand = Plus / Plus

                                                                            
Query: 256      gagttcgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcgg 315
                ||||| ||||||||||||||||||||||| |||||| |||||||||||    |||||| |
Sbjct: 29363845 gagttggtgcgcttcgacagcgacgtgggggagtacagggcggtgaccccaatggggcag 29363904

                                                      
Query: 316      ccagacgccaagaactataacagccagaaggacctcct 353
                || |  |||||| |||  ||||||||||||||| ||||
Sbjct: 29363905 ccggctgccaagtactggaacagccagaaggacatcct 29363942



 Score = 65.9 bits (33), Expect = 4e-08
 Identities = 132/165 (80%)
 Strand = Plus / Minus

                                                                            
Query: 473      ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 532
                ||||||||| || |||||| ||| | ||||||||||| ||||||||||||||   | | |
Sbjct: 29244529 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 29244470

                                                                            
Query: 533      aggtcaggtggttccggaatggccaggaagaggcggcgggggtggtctccacaggcctga 592
                || |||||||||||||||| || |||||  ||   | ||||||  |  |||| ||||| |
Sbjct: 29244469 agatcaggtggttccggaacgggcaggagcagagagagggggtcctggccactggcctca 29244410

                                                             
Query: 593      tccctaatggagactggaccttccagaccatggtgatgcttgaaa 637
                ||   ||||||||||||||||| |||||  |||||||||| ||||
Sbjct: 29244409 tcaggaatggagactggacctttcagacagtggtgatgctggaaa 29244365



 Score = 63.9 bits (32), Expect = 2e-07
 Identities = 74/88 (84%)
 Strand = Plus / Minus

                                                                            
Query: 473      ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 532
                ||||||||| || |||||| ||| | ||||||||||| ||||||||||||||   | | |
Sbjct: 29199812 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 29199753

                                            
Query: 533      aggtcaggtggttccggaatggccagga 560
                || |||||||||||||||| || |||||
Sbjct: 29199752 agatcaggtggttccggaacgggcagga 29199725



 Score = 63.9 bits (32), Expect = 2e-07
 Identities = 74/88 (84%)
 Strand = Plus / Minus

                                                                            
Query: 473      ccctgcagcaccacaacctcctggtctgctctgtgaccgggttctacccaggccacgtgg 532
                ||||||||| || |||||| ||| | ||||||||||| ||||||||||||||   | | |
Sbjct: 29399227 ccctgcagctccgcaacctgctgctttgctctgtgacagggttctacccaggggccatcg 29399168

                                            
Query: 533      aggtcaggtggttccggaatggccagga 560
                || |||||||||||||||| || |||||
Sbjct: 29399167 agatcaggtggttccggaacgggcagga 29399140



 Score = 60.0 bits (30), Expect = 3e-06
 Identities = 54/62 (87%)
 Strand = Plus / Minus

                                                                            
Query: 262      gtgcgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcggccagac 321
                |||| ||||||||||||| |||| |||| | ||||  |||| ||||||||||||||||||
Sbjct: 29062610 gtgcacttcgacagcgacttgggggagttcagggccctgactgagctggggcggccagac 29062551

                  
Query: 322      gc 323
                ||
Sbjct: 29062550 gc 29062549



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

                                                                            
Query: 716      gggcacggtctgaatctgctcagggcaagatgatgagtgggatcgggggcttcgtcctgg 775
                |||||| |||||||||||| ||| |||||||| |||| ||  ||||||||||||| ||||
Sbjct: 29182204 gggcacagtctgaatctgcccagagcaagatgctgagcggtgtcgggggcttcgtgctgg 29182145

                          
Query: 776      gtctgctctt 785
                | ||| ||||
Sbjct: 29182144 ggctgatctt 29182135


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

 Score =  214 bits (108), Expect = 8e-53
 Identities = 117/120 (97%)
 Strand = Plus / Plus

                                                                       
Query: 265 cgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcggccagacgcc 324
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   cgcttcgacagcgacgtgggcgagtaccgggcggtgaccgagctggggcggccagacgcc 60

                                                                       
Query: 325 aagaactataacagccagaaggacctcctggagcagaggcgggcggaggtggacacgtac 384
           ||| |||  |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  aaggactggaacagccagaaggacctcctggagcagaggcgggcggaggtggacacgtac 120


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

 Score = 95.6 bits (48), Expect = 5e-17
 Identities = 54/56 (96%)
 Strand = Plus / Plus

                                                                   
Query: 247 aacggagaggagttcgtgcgcttcgacagcgacgtgggcgagtaccgggcggtgac 302
           ||||||||||||||||||||||||||||||||| |||| |||||||||||||||||
Sbjct: 593 aacggagaggagttcgtgcgcttcgacagcgacttgggtgagtaccgggcggtgac 648


  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: 30,745,815
Number of extensions: 226
Number of successful extensions: 226
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 224
Number of HSP's successfully gapped: 27
Length of query: 1094
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1073
Effective length of database: 2,808,413,156
Effective search space: 3013427316388
Effective search space used: 3013427316388
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)