Animal-Genome cDNA 20060611S-043651


Search to RefSeqSP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611S-043651
         (1343 letters)

Database: RefSeqSP 
           1040 sequences; 434,620 total letters

Searching...done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]                56   2e-09
Alignment   gi|NP_998996.1| CD1 antigen [Sus scrofa]                              52   3e-08
Alignment   gi|NP_999143.1| beta 2-microglobulin [Sus scrofa]                     48   6e-07

>ref|NP_998933.1| swine leukocyte antigen 7 [Sus scrofa]
          Length = 401

 Score = 56.2 bits (134), Expect = 2e-09
 Identities = 36/130 (27%), Positives = 58/130 (44%), Gaps = 5/130 (3%)
 Frame = +3

Query: 366 QNDLLHHNRAELDTACI---HNYQIEESTTLQRRVQPT--VTISPSHAEALNHRNLLVCA 530
           +  +   +RA L+ AC+   H Y      TLQR   P   VT  PS     +++  L C 
Sbjct: 170 EETVAEQSRAYLEVACVQSLHRYLANGKETLQRSDPPKTHVTRHPSS----DNKVTLRCW 225

Query: 531 GTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHS 710
              FYP ++ + W + GQ+++  V       +G  T++    L +       YTC V+H 
Sbjct: 226 ALGFYPKEISLTWQQEGQDQSQDVEVVETRPSGDGTFRKWAALVVPPGEEQSYTCHVQHE 285

Query: 711 SLQSRILVEW 740
            LQ  + + W
Sbjct: 286 GLQEPLTLRW 295


>ref|NP_998996.1| CD1 antigen [Sus scrofa]
          Length = 339

 Score = 52.0 bits (123), Expect = 3e-08
 Identities = 33/103 (32%), Positives = 52/103 (50%), Gaps = 1/103 (0%)
 Frame = +3

Query: 447 LQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITN 626
           LQR+V+P   +S     +  H  +LVC  + FYP  + V W R+ QE+  G     ++ N
Sbjct: 199 LQRQVRPEAWLSSGPNPSPGHL-MLVCHVSGFYPKPIWVMWMRDEQEQ-PGTQQGDILPN 256

Query: 627 GHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSR-ILVEWRAQS 752
              T+ + V L +        +CRV+HSSL  + I++ W   S
Sbjct: 257 ADGTWYLRVTLDVAAGEASGLSCRVKHSSLGGQDIILYWEQHS 299


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

 Score = 47.8 bits (112), Expect = 6e-07
 Identities = 25/92 (27%), Positives = 45/92 (48%)
 Frame = +3

Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644
           P V +   H       N L C  + F+P Q+++   +NG++  A    + L  +  W++ 
Sbjct: 25  PKVQVYSRHPAENGKPNYLNCYVSGFHPPQIEIDLLKNGEKMNAE--QSDLSFSKDWSFY 82

Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740
           +LV      +  D Y+CRV+H +L    +V+W
Sbjct: 83  LLVHTEFTPNAVDQYSCRVKHVTLDKPKIVKW 114


  Database: RefSeqSP
    Posted date:  Aug 1, 2006  7:14 PM
  Number of letters in database: 434,620
  Number of sequences in database:  1040
  
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 Hits to DB: 1,279,226
Number of Sequences: 1040
Number of extensions: 33541
Number of successful extensions: 111
Number of sequences better than 1.0e-05: 3
Number of HSP's better than  0.0 without gapping: 98
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 109
length of database: 434,620
effective HSP length: 80
effective length of database: 351,420
effective search space used: 128971140
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqBP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611S-043651
         (1343 letters)

Database: RefSeqBP 
           33,508 sequences; 16,112,626 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001029840.2| MHC class II antigen [Bos taurus]                 258   8e-69
Alignment   gi|NP_001012694.1| major histocompatibility complex, class II, ...   248   6e-66
Alignment   gi|NP_001012697.1| major histocompatibility complex, class II, ...   199   3e-51
Alignment   gi|NP_001012698.2| major histocompatibility complex, class II, ...   185   8e-47
Alignment   gi|NP_001013618.1| major histocompatibility complex, class II, ...   171   2e-42
Alignment   gi|XP_582099.2| PREDICTED: similar to major histocompatibility ...   170   3e-42
Alignment   gi|XP_876139.1| PREDICTED: similar to H-2 class II histocompati...   169   4e-42
Alignment   gi|XP_874766.1| PREDICTED: similar to HLA class II histocompati...   131   1e-30
Alignment   gi|NP_001035571.1| major histocompatibility complex, class II, ...    62   1e-09
Alignment   gi|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus]        60   5e-09

>ref|NP_001029840.2| MHC class II antigen [Bos taurus]
          Length = 261

 Score =  258 bits (659), Expect = 8e-69
 Identities = 146/263 (55%), Positives = 161/263 (61%), Gaps = 1/263 (0%)
 Frame = +3

Query: 78  MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254
           MSGM AL +P+GLWTA V +        G         F V F  L   T+  E    R 
Sbjct: 1   MSGMVALWIPRGLWTAVVMVTLVMLSTPGAEGRDSPKDFVVQFKGLCYFTNGTERV--RY 58

Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434
           V R IY              YRA+TPLGRPDA  WNSQ D L   RAE DT C HNYQ E
Sbjct: 59  VTRYIYNQEEYVRFDSDWDLYRALTPLGRPDAEYWNSQKDFLEQTRAEADTVCRHNYQAE 118

Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614
             T+LQRRV+PTVTISPS  EALNH NLLVC+ TDFYPSQ+KV+WFRN +EETAGVVSTP
Sbjct: 119 LITSLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPSQIKVRWFRNDREETAGVVSTP 178

Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLSXXXXX 794
           LI NG WT+Q+LVML M   RGDVYTC VEH SLQS I+VEWRAQSESA S MLS     
Sbjct: 179 LIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPIMVEWRAQSESAQSKMLSGVGGF 238

Query: 795 XXXXXXXXXXXXXXXRSHKELVR 863
                          RS K L+R
Sbjct: 239 VLGLIFLGLGLIIHHRSQKGLMR 261


>ref|NP_001012694.1| major histocompatibility complex, class II, DQ beta [Bos taurus]
          Length = 261

 Score =  248 bits (634), Expect = 6e-66
 Identities = 135/234 (57%), Positives = 154/234 (65%)
 Frame = +3

Query: 78  MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLV 257
           MSGM ALR+P+GLWTAAV +        G    R S    V   +     ++     R V
Sbjct: 1   MSGMVALRIPRGLWTAAVMVTLAVLSTPGA-EGRDSPQDTVVHFMGQCYFTNGTERVRYV 59

Query: 258 AR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEE 437
            R IY              YRAVT LGR  A  WNSQ D+L   RAELDT C HNYQ+E 
Sbjct: 60  TRYIYNQEETAYYDSDVGEYRAVTQLGRTLAEYWNSQKDILEQTRAELDTVCRHNYQLEV 119

Query: 438 STTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPL 617
            T+LQR+V+PTVTIS S  EALNH NLLVC+ TDFYP Q+KV+WF+NG+EETAG+VSTPL
Sbjct: 120 ITSLQRQVEPTVTISLSRTEALNHHNLLVCSVTDFYPGQIKVRWFQNGKEETAGIVSTPL 179

Query: 618 ITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           I NG WT+Q+LVML M   RGDVYTC VEH SLQS I VEWRAQSESA S MLS
Sbjct: 180 IRNGDWTFQILVMLEMTPKRGDVYTCHVEHPSLQSPISVEWRAQSESAQSKMLS 233


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

 Score =  199 bits (507), Expect = 3e-51
 Identities = 105/177 (59%), Positives = 118/177 (66%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           RLVAR IY              + AVT LGR  A  WN+Q DLL   RA +DT C HNY+
Sbjct: 55  RLVARQIYNKEEILHFDSDLGEFVAVTELGRVCAEIWNTQKDLLAEFRAYVDTLCRHNYK 114

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
                T+QRRV+PTVT+SP+  EALNH NLLVC+ TDFYP QVKV+WFRN QE+TAGV  
Sbjct: 115 ETAGFTVQRRVEPTVTVSPASTEALNHHNLLVCSVTDFYPRQVKVKWFRNQQEQTAGVGF 174

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           TPL  NG WTYQ+ VML      GDVY C V+H SLQS I VEWRAQSESA S M S
Sbjct: 175 TPLTQNGDWTYQIHVMLETVPQLGDVYVCHVDHPSLQSPITVEWRAQSESAQSKMQS 231


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

 Score =  185 bits (469), Expect = 8e-47
 Identities = 88/155 (56%), Positives = 108/155 (69%)
 Frame = +3

Query: 315 YRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHA 494
           +RAVT LGRP A  WNSQ D L   RAE+D  C HNY   ES T+QRRV+PTVT+ P+  
Sbjct: 76  FRAVTELGRPAAEHWNSQKDFLEQKRAEVDRVCRHNYGGVESFTVQRRVEPTVTVYPAKT 135

Query: 495 EALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLH 674
           + L H NLLVC+   FYP  ++V+WFRNG EE AGV+ST LI NG WT+Q +VML     
Sbjct: 136 QPLQHHNLLVCSVNGFYPGHIEVRWFRNGHEEEAGVISTGLIQNGDWTFQTMVMLETVPQ 195

Query: 675 RGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
            G+VYTC+V+H    S I VEWRA+S+SA S M+S
Sbjct: 196 SGEVYTCQVDHPKRTSPITVEWRARSDSAQSKMMS 230


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

 Score =  171 bits (432), Expect = 2e-42
 Identities = 85/177 (48%), Positives = 109/177 (61%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R V R I+              + A+T LG+PDA  WN++ D+L  +RA +D  C  NY 
Sbjct: 51  RFVVRFIFNLEDYARFDSDLGMFVALTELGKPDAERWNNRPDILARSRASVDMLCRRNYY 110

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           +    T+ RRVQP VT+ P    AL HRNLL+C  T FYP  +KV WFRNGQE+  G++S
Sbjct: 111 LGAPFTVGRRVQPEVTVYPEKTPALQHRNLLLCLVTGFYPGDIKVTWFRNGQEQREGIMS 170

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q+ VML M    G+VYTC V+H SL S + VEWRAQSE +   +LS
Sbjct: 171 TGLIRNGDWTFQMTVMLAMTPELGEVYTCLVDHPSLLSPVSVEWRAQSEYSWRKILS 227


>ref|XP_582099.2| PREDICTED: similar to major histocompatibility complex, class II,
           DR beta 5 precursor [Bos taurus]
          Length = 255

 Score =  170 bits (430), Expect = 3e-42
 Identities = 87/184 (47%), Positives = 110/184 (59%)
 Frame = +3

Query: 228 SDELTGCRLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDT 407
           S+ L   R  AR IY              + A+T LGR DA  WN Q D +   RA++DT
Sbjct: 36  SNGLERMRFFARYIYNTQEDVHFDSDVGEFTALTELGRLDAEYWNQQKDFMEQMRAKVDT 95

Query: 408 ACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQE 587
            C  NYQ   S   QRRV+PTVT+ P+  + L H NLLVC+   FYP  ++V+WF N  E
Sbjct: 96  LCRSNYQGIGSFLRQRRVEPTVTVYPAKTQPLQHHNLLVCSVNGFYPGHIEVRWFWNSHE 155

Query: 588 ETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHS 767
           E AGV+ST LI NG WT+Q +VML      G+VYTC+VEH S  S + VEWRAQS+SA  
Sbjct: 156 EEAGVISTGLIQNGDWTFQTMVMLETVPQSGEVYTCQVEHPSRTSPLTVEWRAQSDSAQR 215

Query: 768 NMLS 779
            ++S
Sbjct: 216 KLMS 219


>ref|XP_876139.1| PREDICTED: similar to H-2 class II histocompatibility antigen, I-E
           beta chain precursor [Bos taurus]
          Length = 269

 Score =  169 bits (429), Expect = 4e-42
 Identities = 87/177 (49%), Positives = 105/177 (59%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              YRA T +GRP A  WN     L   RA +   C  NY+
Sbjct: 18  RFLDRYIYNREEQVQFDSLVGEYRARTEMGRPAAERWNRWPQALQRARAAVHAYCASNYE 77

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
              S T+QRRVQPTVT+ P  +  L H NLLVC+   FYP  ++V+WFRNGQEE AGVVS
Sbjct: 78  FFASRTVQRRVQPTVTVYPVKSRPLWHHNLLVCSVNGFYPGHIEVRWFRNGQEEEAGVVS 137

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q++VML +    G+VY C VEH S  S + VEWRAQ ES+   MLS
Sbjct: 138 TGLIPNGDWTFQIMVMLEIVPQGGEVYACHVEHPSRTSPVTVEWRAQDESSQEKMLS 194


>ref|XP_874766.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DRB1-7 beta chain precursor (MHC class I antigen DRB1*7)
           (DR-7) (DR7) [Bos taurus]
          Length = 347

 Score =  131 bits (330), Expect = 1e-30
 Identities = 63/125 (50%), Positives = 84/125 (67%), Gaps = 2/125 (1%)
 Frame = +3

Query: 411 CIH--NYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQ 584
           C H    +     TLQ++V+PTVT+ P+  + L H +LLVC+   FY   V+V+WF  GQ
Sbjct: 77  CFHPIGLKANRDITLQKKVEPTVTVYPAKTQPLQHNHLLVCSVNGFYLGHVEVRWFWKGQ 136

Query: 585 EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAH 764
           EE AGV+ST LI NG WT++ +VML   L  G+VYTC++EH S +S I  EWRAQS+SA 
Sbjct: 137 EEEAGVISTGLIQNGDWTFETIVMLETVLQSGEVYTCQLEHPSWRSPIAEEWRAQSDSAQ 196

Query: 765 SNMLS 779
           S M+S
Sbjct: 197 SKMMS 201


>ref|NP_001035571.1| major histocompatibility complex, class II, DM beta-chain,
           expressed [Bos taurus]
          Length = 262

 Score = 61.6 bits (148), Expect = 1e-09
 Identities = 41/128 (32%), Positives = 55/128 (42%), Gaps = 1/128 (0%)
 Frame = +3

Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539
           N+ + L+      L     H      S T + R  PTV ++ +         +L C    
Sbjct: 81  NNNSYLIQRLSNGLQNCAAHTQPFWSSLTHRTR-PPTVQVAKTTPFNTRESVMLACYVWG 139

Query: 540 FYPSQVKVQWFRNGQEETAGVVSTPLIT-NGHWTYQVLVMLHMNLHRGDVYTCRVEHSSL 716
           FYP+ V + W RNGQE      +  +I  NG WTYQ +  L      GD YTC VEH   
Sbjct: 140 FYPADVAITWRRNGQEVLPHGRAWRIIQPNGDWTYQTVSHLATTPSFGDTYTCVVEHIGA 199

Query: 717 QSRILVEW 740
              IL +W
Sbjct: 200 PELILQDW 207


>ref|NP_001029503.1| hypothetical protein LOC508800 [Bos taurus]
          Length = 299

 Score = 59.7 bits (143), Expect = 5e-09
 Identities = 42/147 (28%), Positives = 68/147 (46%), Gaps = 5/147 (3%)
 Frame = +3

Query: 330 PLGRPDAYSWNSQNDLLHHNRAELDTAC---IHNYQIEESTTLQRRVQPTVTISPSHAEA 500
           P  +     W ++   +   +A L+  C   +  Y     T L R+  P+V+++  HA A
Sbjct: 156 PAAQNTKRKWEAEAVYVQRAKAYLEEECPGMLRRYLPYSRTHLDRQESPSVSVT-GHA-A 213

Query: 501 LNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRG 680
             H+  L C   DFYP  + + W R G  + A      ++ +G+ TYQ  V++ +     
Sbjct: 214 PGHKRTLKCLAYDFYPRSIGLHWTRAGDAQEA-ESGGDVLPSGNGTYQSWVVVGVPPEDQ 272

Query: 681 DVYTCRVEHSSLQSRILVEW--RAQSE 755
             Y+C VEH SL   + V W  R Q+E
Sbjct: 273 APYSCHVEHRSLTRPLTVPWDPRQQAE 299


  Database: RefSeqBP
    Posted date:  Aug 1, 2006  7:14 PM
  Number of letters in database: 16,112,626
  Number of sequences in database:  33,508
  
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 Hits to DB: 48,427,599
Number of Sequences: 33508
Number of extensions: 1319643
Number of successful extensions: 4341
Number of sequences better than 1.0e-05: 10
Number of HSP's better than  0.0 without gapping: 3682
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 4299
length of database: 16,112,626
effective HSP length: 105
effective length of database: 12,594,286
effective search space used: 4307245812
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqHP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611S-043651
         (1343 letters)

Database: RefSeqHP 
           39,411 sequences; 17,774,539 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_002114.2| major histocompatibility complex, class II, DQ ...   238   7e-63
Alignment   gi|NP_872355.1| major histocompatibility complex, class II, DQ ...   207   1e-53
Alignment   gi|NP_002115.1| major histocompatibility complex, class II, DR ...   204   2e-52
Alignment   gi|XP_945926.1| PREDICTED: similar to HLA class II histocompati...   200   3e-51
Alignment   gi|XP_949915.1| PREDICTED: similar to HLA class II histocompati...   200   3e-51
Alignment   gi|NP_002112.3| major histocompatibility complex, class II, DP ...   199   6e-51
Alignment   gi|NP_002116.2| major histocompatibility complex, class II, DR ...   198   1e-50
Alignment   gi|NP_068818.4| major histocompatibility complex, class II, DR ...   197   2e-50
Alignment   gi|NP_072049.2| major histocompatibility complex, class II, DR ...   194   1e-49
Alignment   gi|XP_949921.1| PREDICTED: similar to HLA class II histocompati...   184   1e-46

>ref|NP_002114.2| major histocompatibility complex, class II, DQ beta 1 precursor
           [Homo sapiens]
          Length = 261

 Score =  238 bits (608), Expect = 7e-63
 Identities = 134/235 (57%), Positives = 150/235 (63%), Gaps = 1/235 (0%)
 Frame = +3

Query: 78  MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254
           MS   ALR+P GL  A VT+M                 F   F  +   T+  E    RL
Sbjct: 1   MSWKKALRIPGGLRAATVTLMLSMLSTPVAEGRDSPEDFVYQFKGMCYFTNGTERV--RL 58

Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434
           V+R IY              +RAVT LG P A  WNSQ D+L   RA +D  C HNYQ+E
Sbjct: 59  VSRSIYNREEIVRFDSDVGEFRAVTLLGLPAAEYWNSQKDILERKRAAVDRVCRHNYQLE 118

Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614
             TTLQRRV+PTVTISPS  EALNH NLLVC+ TDFYP+Q+KV+WFRN QEETAGVVSTP
Sbjct: 119 LRTTLQRRVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVRWFRNDQEETAGVVSTP 178

Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           LI NG WT+Q+LVML M   RGDVYTC VEH SLQS I VEWRAQSESA S MLS
Sbjct: 179 LIRNGDWTFQILVMLEMTPQRGDVYTCHVEHPSLQSPITVEWRAQSESAQSKMLS 233


>ref|NP_872355.1| major histocompatibility complex, class II, DQ beta 2 [Homo
           sapiens]
          Length = 231

 Score =  207 bits (528), Expect = 1e-53
 Identities = 117/223 (52%), Positives = 137/223 (61%), Gaps = 1/223 (0%)
 Frame = +3

Query: 78  MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSA-TSSDELTGCRL 254
           MS   AL++P G W AAVT+M                 F V F  +   T+  E    R 
Sbjct: 1   MSWKMALQIPGGFWAAAVTVMLVMLSTPVAEARDFPKDFLVQFKGMCYFTNGTERV--RG 58

Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434
           VAR IY              ++AVT LGR     WN+  D L   RA +D  C HNY+ E
Sbjct: 59  VARYIYNREEYGRFDSDVGEFQAVTELGR-SIEDWNNYKDFLEQERAAVDKVCRHNYEAE 117

Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614
             TTLQR+V+PTVTISPS  EALNH NLLVC+ TDFYP+Q+KVQWFRN QEETAGVVST 
Sbjct: 118 LRTTLQRQVEPTVTISPSRTEALNHHNLLVCSVTDFYPAQIKVQWFRNDQEETAGVVSTS 177

Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWR 743
           LI NG WT+Q+LVML +   RGD+YTC+VEH SLQS I VEWR
Sbjct: 178 LIRNGDWTFQILVMLEITPQRGDIYTCQVEHPSLQSPITVEWR 220


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

 Score =  204 bits (518), Expect = 2e-52
 Identities = 102/177 (57%), Positives = 120/177 (67%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           RL+ R IY              YRAVT LGRPDA  WNSQ DLL   RA +DT C HNY 
Sbjct: 54  RLLERCIYNQEESVRFDSDVGEYRAVTELGRPDAEYWNSQKDLLEQRRAAVDTYCRHNYG 113

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV+P VT+ PS  + L H NLLVC+ + FYP  ++V+WFRNGQEE AGVVS
Sbjct: 114 VGESFTVQRRVEPKVTVYPSKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q LVML      G+VYTC+VEH S+ S + VEWRA+SESA S MLS
Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRARSESAQSKMLS 230


>ref|XP_945926.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
           (DR-9) (DR9) isoform 1 [Homo sapiens]
          Length = 266

 Score =  200 bits (508), Expect = 3e-51
 Identities = 100/177 (56%), Positives = 118/177 (66%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              YRAVT LGRP A SWNSQ D L   RAE+DT C HNY 
Sbjct: 54  RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 113

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV P VT+ P+  + L H NLLVC+ + FYP  ++V+WFRNGQEE AGVVS
Sbjct: 114 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q LVML      G+VYTC+VEH S+ S + VEWRA+SESA S MLS
Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 230


>ref|XP_949915.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
           (DR-9) (DR9) isoform 2 [Homo sapiens]
          Length = 284

 Score =  200 bits (508), Expect = 3e-51
 Identities = 100/177 (56%), Positives = 118/177 (66%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              YRAVT LGRP A SWNSQ D L   RAE+DT C HNY 
Sbjct: 72  RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 131

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV P VT+ P+  + L H NLLVC+ + FYP  ++V+WFRNGQEE AGVVS
Sbjct: 132 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 191

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q LVML      G+VYTC+VEH S+ S + VEWRA+SESA S MLS
Sbjct: 192 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWRARSESAQSKMLS 248


>ref|NP_002112.3| major histocompatibility complex, class II, DP beta 1 precursor
           [Homo sapiens]
          Length = 258

 Score =  199 bits (505), Expect = 6e-51
 Identities = 99/177 (55%), Positives = 117/177 (66%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              +RAVT LGRP A  WNSQ D+L   RA  D  C HNY+
Sbjct: 52  RFLERYIYNREEFARFDSDVGEFRAVTELGRPAAEYWNSQKDILEEKRAVPDRMCRHNYE 111

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           +    TLQRRVQP V +SPS    L H NLLVC  TDFYP  ++V+WF NGQEETAGVVS
Sbjct: 112 LGGPMTLQRRVQPRVNVSPSKKGPLQHHNLLVCHVTDFYPGSIQVRWFLNGQEETAGVVS 171

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q+LVML M   +GDVYTC+VEH+SL S + VEW+AQS+SA S  L+
Sbjct: 172 TNLIRNGDWTFQILVMLEMTPQQGDVYTCQVEHTSLDSPVTVEWKAQSDSARSKTLT 228


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

 Score =  198 bits (503), Expect = 1e-50
 Identities = 99/177 (55%), Positives = 116/177 (65%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              YRAVT LGRPDA  WNSQ D L   RA +DT C HNY 
Sbjct: 54  RFLHRDIYNQEEDLRFDSDVGEYRAVTELGRPDAEYWNSQKDFLEDRRAAVDTYCRHNYG 113

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV+P VT+ P+  + L H NLLVC+   FYP  ++V+WFRN QEE AGVVS
Sbjct: 114 VGESFTVQRRVEPKVTVYPARTQTLQHHNLLVCSVNGFYPGSIEVRWFRNSQEEKAGVVS 173

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q LVML      G+VYTC+VEH S+ S + VEWRAQSESA S MLS
Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVTSPLTVEWRAQSESAQSKMLS 230


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

 Score =  197 bits (500), Expect = 2e-50
 Identities = 98/173 (56%), Positives = 116/173 (67%)
 Frame = +3

Query: 261 R*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEES 440
           R IY              Y+AVT LGRPDA  WNSQ DLL   RAE+DT C +NY + ES
Sbjct: 58  RYIYNQEEYARYNSDLGEYQAVTELGRPDAEYWNSQKDLLERRRAEVDTYCRYNYGVVES 117

Query: 441 TTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLI 620
            T+QRRVQP VT+ PS  + L H NLLVC+   FYP  ++V+WFRNGQEE AGVVST LI
Sbjct: 118 FTVQRRVQPKVTVYPSKTQPLQHHNLLVCSVNGFYPGSIEVRWFRNGQEEKAGVVSTGLI 177

Query: 621 TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
            NG WT+Q LVML      G+VYTC+VEH S+ S + V+W A+SESA S MLS
Sbjct: 178 QNGDWTFQTLVMLETVPRSGEVYTCQVEHPSMMSPLTVQWSARSESAQSKMLS 230


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

 Score =  194 bits (493), Expect = 1e-49
 Identities = 94/155 (60%), Positives = 111/155 (71%)
 Frame = +3

Query: 315 YRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHA 494
           YRAVT LGRP A SWNSQ DLL   R  +D  C HNY + ES T+QRRV P VT+ P+  
Sbjct: 76  YRAVTELGRPVAESWNSQKDLLEQKRGRVDNYCRHNYGVGESFTVQRRVHPQVTVYPAKT 135

Query: 495 EALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLH 674
           + L H NLLVC+ + FYP  ++V+WFRNGQEE AGVVST LI NG WT+Q LVML     
Sbjct: 136 QPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVSTGLIQNGDWTFQTLVMLETVPR 195

Query: 675 RGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
            G+VYTC+VEH S+ S + VEWRA+SESA S MLS
Sbjct: 196 SGEVYTCQVEHPSVTSALTVEWRARSESAQSKMLS 230


>ref|XP_949921.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DRB1-9 beta chain precursor (MHC class I antigen DRB1*9)
           (DR-9) (DR9) isoform 3 [Homo sapiens]
          Length = 325

 Score =  184 bits (467), Expect = 1e-46
 Identities = 91/167 (54%), Positives = 108/167 (64%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R IY              YRAVT LGRP A SWNSQ D L   RAE+DT C HNY 
Sbjct: 54  RYLHRGIYNQEENVRFDSDVGEYRAVTELGRPVAESWNSQKDFLERRRAEVDTVCRHNYG 113

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV P VT+ P+  + L H NLLVC+ + FYP  ++V+WFRNGQEE AGVVS
Sbjct: 114 VGESFTVQRRVHPEVTVYPAKTQPLQHHNLLVCSVSGFYPGSIEVRWFRNGQEEKAGVVS 173

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749
           T LI NG WT+Q LVML      G+VYTC+VEH S+ S + VEW  Q
Sbjct: 174 TGLIQNGDWTFQTLVMLETVPRSGEVYTCQVEHPSVMSPLTVEWSEQ 220


  Database: RefSeqHP
    Posted date:  Aug 2, 2006 12:57 AM
  Number of letters in database: 17,774,539
  Number of sequences in database:  39,411
  
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 Hits to DB: 55,087,480
Number of Sequences: 39411
Number of extensions: 1554297
Number of successful extensions: 5626
Number of sequences better than 1.0e-05: 10
Number of HSP's better than  0.0 without gapping: 4602
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 5535
length of database: 17,774,539
effective HSP length: 105
effective length of database: 13,636,384
effective search space used: 4663643328
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqCP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611S-043651
         (1343 letters)

Database: RefSeqCP 
           33,732 sequences; 19,266,565 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Ca...   236   4e-62
Alignment   gi|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis fami...   197   3e-50
Alignment   gi|XP_850395.1| PREDICTED: similar to HLA class II histocompati...   174   2e-43
Alignment   gi|XP_861384.1| PREDICTED: similar to HLA class II histocompati...   164   2e-40
Alignment   gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati...    57   3e-08
Alignment   gi|XP_849737.1| PREDICTED: similar to HLA class II histocompati...    55   1e-07
Alignment   gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]     55   2e-07
Alignment   gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili...    54   4e-07
Alignment   gi|XP_853335.1| PREDICTED: similar to T-cell surface glycoprote...    53   6e-07
Alignment   gi|XP_535458.1| PREDICTED: similar to beta-2-microglobulin prec...    50   7e-06

>ref|NP_001014403.1| MHC class II DLA-DQ beta chain b1 domain [Canis familiaris]
          Length = 269

 Score =  236 bits (602), Expect = 4e-62
 Identities = 128/234 (54%), Positives = 147/234 (62%)
 Frame = +3

Query: 78  MSGMGALRLPKGLWTAAVTMMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLV 257
           MSG   L +P+G WTAAV M+                 F   +       ++     RL+
Sbjct: 1   MSGKMTLCIPRGFWTAAVMMILVVLSIPVAEGRDSPQDFVFQY-KAECYFTNGTERVRLL 59

Query: 258 AR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEE 437
            + IY              +RAVT LGRPDA  WN Q D +   RAELDT C HNY  EE
Sbjct: 60  TKYIYNREEFVRFDSDVGEFRAVTELGRPDAEYWNRQKDEMDRVRAELDTVCRHNYGREE 119

Query: 438 STTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPL 617
            TTLQRRV+PTVTI PS  E LNH NLLVC+ TDFYP Q+KV+WFRN QE+TAGVVSTPL
Sbjct: 120 LTTLQRRVEPTVTIFPSKTEVLNHHNLLVCSVTDFYPGQIKVRWFRNDQEQTAGVVSTPL 179

Query: 618 ITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           I NG WT+Q+LVML M   RGDVYTC VEH+SLQS I V+WRAQSESA S MLS
Sbjct: 180 IRNGDWTFQILVMLEMTPQRGDVYTCHVEHASLQSPITVQWRAQSESAQSKMLS 233


>ref|NP_001014768.1| MHC class II DLA DRB1 beta chain [Canis familiaris]
          Length = 266

 Score =  197 bits (500), Expect = 3e-50
 Identities = 97/177 (54%), Positives = 119/177 (67%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R V R I+              +RAVT LGRP A SWN Q ++L   RA +DT C HNY 
Sbjct: 54  RFVERYIHNREEFVRFDSDVGEFRAVTELGRPVAESWNGQKEILEQERATVDTYCRHNYG 113

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           + ES T+QRRV+PTVT+ P+  + L H NLLVC+   FYP  ++V+W RNGQEE AGVVS
Sbjct: 114 VIESFTVQRRVEPTVTVYPTKTQTLQHHNLLVCSVNGFYPGHIEVRWLRNGQEEEAGVVS 173

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q+LVML +    G+VYTC+VEH SL S + VEWRAQS+SA S MLS
Sbjct: 174 TGLIRNGDWTFQILVMLEIVPQSGEVYTCQVEHPSLTSPVTVEWRAQSDSAQSKMLS 230


>ref|XP_850395.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           beta chain precursor (MHC class II antigen DOB) isoform
           1 [Canis familiaris]
          Length = 270

 Score =  174 bits (440), Expect = 2e-43
 Identities = 84/177 (47%), Positives = 109/177 (61%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           + V R I+              + A+T LG+PDA  WNSQ  +L  +RA +D  C HNY+
Sbjct: 51  QFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYE 110

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           +    T+ R+VQP VT+ P    ++ H NLL+C+ T FYP  +K++WFRNGQEE  GV+S
Sbjct: 111 LGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMS 170

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T LI NG WT+Q +VML M    GDVYTC V H SL S + VEWRAQS  +   MLS
Sbjct: 171 TGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEWRAQSTYSWRKMLS 227


>ref|XP_861384.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           beta chain precursor (MHC class II antigen DOB) isoform
           2 [Canis familiaris]
          Length = 228

 Score =  164 bits (414), Expect = 2e-40
 Identities = 77/164 (46%), Positives = 101/164 (61%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           + V R I+              + A+T LG+PDA  WNSQ  +L  +RA +D  C HNY+
Sbjct: 51  QFVVRFIFNLEEYARFDSHVGMFVALTELGKPDAELWNSQPGILERSRASVDLLCRHNYE 110

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           +    T+ R+VQP VT+ P    ++ H NLL+C+ T FYP  +K++WFRNGQEE  GV+S
Sbjct: 111 LGAPFTVGRKVQPEVTVYPERTPSMQHHNLLLCSVTGFYPGDIKIKWFRNGQEERVGVMS 170

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740
           T LI NG WT+Q +VML M    GDVYTC V H SL S + VEW
Sbjct: 171 TGLIRNGDWTFQTMVMLEMTPELGDVYTCLVNHPSLLSPVSVEW 214


>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 = 57.4 bits (137), Expect = 3e-08
 Identities = 29/103 (28%), Positives = 45/103 (43%)
 Frame = +3

Query: 441 TTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLI 620
           T L   + P V + P     L   N+L+C   + +P  + + W RNGQ  + GV  T   
Sbjct: 82  THLSSPLPPRVAVLPKFRVELGQPNVLICIVDNIFPPVINITWLRNGQIISEGVAQTSFY 141

Query: 621 TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749
           +     ++    L       D+Y C+VEH  L+  +L  W  Q
Sbjct: 142 SQPDHLFRKFCYLTFVPSAEDMYDCKVEHWGLEEPLLRHWEPQ 184


>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 = 55.5 bits (132), Expect = 1e-07
 Identities = 35/127 (27%), Positives = 52/127 (40%), Gaps = 1/127 (0%)
 Frame = +3

Query: 363 SQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDF 542
           +Q + LH   +     C  + Q    +   R   PTV ++ S         +L C    F
Sbjct: 81  NQQEYLHQRLSNGLQDCATHTQSFWGSLTHRTRPPTVQVAKSTPFNTKESVMLACYVWGF 140

Query: 543 YPSQVKVQWFRNGQEETAGVVSTPLI-TNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQ 719
           YP+ V + W +NGQ   +   +  +   NG WTYQ +  L       D YTC VEH    
Sbjct: 141 YPADVTISWRKNGQPVPSHSSALNMAQPNGDWTYQTVSHLATTPSYEDTYTCVVEHIGAP 200

Query: 720 SRILVEW 740
             +  +W
Sbjct: 201 EPVCEDW 207


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

 Score = 55.1 bits (131), Expect = 2e-07
 Identities = 37/119 (31%), Positives = 50/119 (42%), Gaps = 1/119 (0%)
 Frame = +3

Query: 387 NRAELDTACIHNYQIEEST-TLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKV 563
           ++A LDT       I+ S  T    V P VT+  +    L   N+L+C    F P  + V
Sbjct: 91  DKANLDT------MIKRSNHTPNTNVPPEVTVLSNTPVELGEPNILICFIDKFSPPVINV 144

Query: 564 QWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740
            W RNG   T GV  T  +      ++    L       DVY C+VEH  L   +L  W
Sbjct: 145 TWLRNGNPVTTGVSETIFLPREDHLFRKFHYLPFLPSAEDVYDCKVEHWGLDEPLLKHW 203


>ref|NP_001011726.1| MHC class II DLA DQalpha chain [Canis familiaris]
          Length = 255

 Score = 53.9 bits (128), Expect = 4e-07
 Identities = 27/103 (26%), Positives = 42/103 (40%)
 Frame = +3

Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644
           P VT+       L   N L+C   + +P  + V W +N    T GV  T     G  ++ 
Sbjct: 113 PEVTVFSKSPVMLGQPNTLICLVDNIFPPVINVTWLKNRHSVTEGVSETSFFAKGDHSFS 172

Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNM 773
            +  L       D+Y C+VEH  L   +L  W  +  +  S +
Sbjct: 173 KISYLTFLPSAEDIYDCKVEHWGLDEPLLKHWEPEVPTPMSEL 215


>ref|XP_853335.1| PREDICTED: similar to T-cell surface glycoprotein CD1a precursor
           (CD1a antigen) (T-cell surface antigen T6/Leu-6) (hTa1
           thymocyte antigen) [Canis familiaris]
          Length = 357

 Score = 53.1 bits (126), Expect = 6e-07
 Identities = 32/96 (33%), Positives = 49/96 (51%)
 Frame = +3

Query: 447 LQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITN 626
           LQR+V+P   +S   +    H  L VC  + FYP  V V W R G++E  G + + ++ N
Sbjct: 199 LQRKVRPEAWLSAGSSPGPGHLRL-VCHVSGFYPKPVWVSWMR-GEQEQQGTLYSDILPN 256

Query: 627 GHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILV 734
              T+ + V L +        +CRV HSSL  + +V
Sbjct: 257 TDGTWYLQVSLDVKSKEAAGLSCRVRHSSLGGQDMV 292


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

 Score = 49.7 bits (117), Expect = 7e-06
 Identities = 25/92 (27%), Positives = 45/92 (48%)
 Frame = +3

Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644
           P + +   H       N L C  + F+P ++++   +NG+E  A    T L  +  WT+ 
Sbjct: 32  PKIQVYSRHPAENGKPNFLNCYVSGFHPPEIEIDLLKNGKEMKAE--QTDLSFSKDWTFY 89

Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEW 740
           +LV      +  D ++CRV+H +L    +V+W
Sbjct: 90  LLVHTEFTPNEQDEFSCRVKHVTLSEPQIVKW 121


  Database: RefSeqCP
    Posted date:  Aug 1, 2006  9:25 PM
  Number of letters in database: 19,266,565
  Number of sequences in database:  33,732
  
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 Hits to DB: 56,888,195
Number of Sequences: 33732
Number of extensions: 1550695
Number of successful extensions: 5635
Number of sequences better than 1.0e-05: 10
Number of HSP's better than  0.0 without gapping: 4648
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 5608
length of database: 19,266,565
effective HSP length: 106
effective length of database: 15,690,973
effective search space used: 5350621793
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)

Search to RefSeqMP

BLASTX 2.2.10 [Oct-19-2004]


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= 20060611S-043651
         (1343 letters)

Database: RefSeqMP 
           45,328 sequences; 21,768,885 total letters

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_996988.1| histocompatibility 2, class II antigen A, beta ...   213   5e-55
Alignment   gi|NP_034512.1| histocompatibility 2, class II antigen E beta [...   188   1e-47
Alignment   gi|NP_001029150.1| H-2 class II histocompatibility antigen E-a/...   160   3e-39
Alignment   gi|NP_034519.2| histocompatibility 2, O region beta locus [Mus ...   149   7e-36
Alignment   gi|NP_034518.1| histocompatibility 2, class II, locus Mb2 [Mus ...    64   5e-10
Alignment   gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus...    62   2e-09
Alignment   gi|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus ...    59   2e-08
Alignment   gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha...    58   3e-08
Alignment   gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ...    54   4e-07
Alignment   gi|NP_032235.1| histocompatibility-2 complex class 1-like [Mus ...    53   6e-07

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

 Score =  213 bits (541), Expect = 5e-55
 Identities = 124/232 (53%), Positives = 145/232 (62%), Gaps = 3/232 (1%)
 Frame = +3

Query: 93  ALRLPKGLWTAAVT--MMRGGAGCSGG*RHRLSTGFPVPF*VLSATSSDELTGCRLVAR* 266
           AL++P  L +AAV   M+    G  GG   R    F   F +     ++     R V R 
Sbjct: 2   ALQIPSLLLSAAVVVLMVLSSPGTEGGDSER---HFVYQF-MGECYFTNGTQRIRYVTRY 57

Query: 267 IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIEES-T 443
           IY              +RAVT LGRPDA  WNSQ ++L   RAELDT C HNY+  E+ T
Sbjct: 58  IYNREEYVRYDSDVGEHRAVTELGRPDAEYWNSQPEILERTRAELDTVCRHNYEGPETHT 117

Query: 444 TLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLIT 623
           +L+R  QP V IS S  EALNH N LVC+ TDFYP+Q+KV+WFRNGQEET GV ST LI 
Sbjct: 118 SLRRLEQPNVVISLSRTEALNHHNTLVCSVTDFYPTQIKVRWFRNGQEETVGVSSTQLIR 177

Query: 624 NGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           NG WT+QVLVML M   RG+VYTC VEH SL+S I VEWRAQSESA S MLS
Sbjct: 178 NGDWTFQVLVMLEMTPRRGEVYTCHVEHPSLKSPITVEWRAQSESAWSKMLS 229


>ref|NP_034512.1| histocompatibility 2, class II antigen E beta [Mus musculus]
          Length = 264

 Score =  188 bits (477), Expect = 1e-47
 Identities = 89/177 (50%), Positives = 117/177 (66%)
 Frame = +3

Query: 249 RLVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQ 428
           R + R  Y              +RAVT LGRPDA +WNSQ ++L   RA +DT C HNY+
Sbjct: 52  RFLKRYFYNLEENLRFDSDVGEFRAVTELGRPDAENWNSQPEILDEKRAAVDTYCRHNYE 111

Query: 429 IEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVS 608
           I ++  + RRV+PTVT+ P+  + L H NLLVC+ +DFYP  ++V+WFRNG+EE  G+VS
Sbjct: 112 IFDNFLVPRRVEPTVTVYPTKTQPLEHHNLLVCSVSDFYPGNIEVRWFRNGKEEKTGIVS 171

Query: 609 TPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           T L+ NG WT+Q LVML      G+VYTC+VEH SL   + VEW+AQS SA + MLS
Sbjct: 172 TGLVRNGDWTFQTLVMLETVPQSGEVYTCQVEHPSLTDPVTVEWKAQSTSAQNKMLS 228


>ref|NP_001029150.1| H-2 class II histocompatibility antigen E-a/k beta-2 [Mus musculus]
          Length = 287

 Score =  160 bits (405), Expect = 3e-39
 Identities = 83/175 (47%), Positives = 107/175 (61%)
 Frame = +3

Query: 255 VAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQIE 434
           V R IY              + AVT LGRP     N+Q D+L + RA +D  C +NY + 
Sbjct: 56  VTRFIYNQEEFARFNSDFGKFLAVTELGRPIVEYLNTQKDMLDNYRASVDR-CRNNYDLV 114

Query: 435 ESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTP 614
           +   L  + +P VT+ P+  + L H NLLVC+  DFYP  ++V+WFRNG+EE  GVVST 
Sbjct: 115 DIFMLNLKAEPKVTVYPAKTQPLEHHNLLVCSVIDFYPGSIEVRWFRNGEEEKTGVVSTG 174

Query: 615 LITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
           LI N  WTYQ LVML M    G+VYTC+VEH SL S + VEWRA+S SA + +LS
Sbjct: 175 LIQNRDWTYQTLVMLEMVPRGGEVYTCQVEHPSLTSPVTVEWRARSTSAQNKLLS 229


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

 Score =  149 bits (376), Expect = 7e-36
 Identities = 74/176 (42%), Positives = 100/176 (56%)
 Frame = +3

Query: 252 LVAR*IYQXXXXXXXXXXXXXYRAVTPLGRPDAYSWNSQNDLLHHNRAELDTACIHNYQI 431
           L+ R I+              + A+T LG PDA  WN + DLL  +RA ++  C   Y++
Sbjct: 52  LLVRFIFNLEEYLHFDSDLGMFVALTELGEPDADQWNKRLDLLETSRAAVNMVCRQKYKL 111

Query: 432 EESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVST 611
               T++R V P VT+ P     L   NLL+C+ T FYP  + V+WFRNGQEE +GV+ST
Sbjct: 112 GAPFTVERNVPPEVTVYPERTPLLQQHNLLLCSVTGFYPGDISVKWFRNGQEERSGVMST 171

Query: 612 PLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNMLS 779
            L+ NG WT+Q  VML M    GD+Y+C VEH  L   + V W AQSE +   +LS
Sbjct: 172 GLVRNGDWTFQTTVMLEMIPELGDIYSCLVEHPGLLRPVSVAWMAQSEYSWKKILS 227


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

 Score = 63.5 bits (153), Expect = 5e-10
 Identities = 41/135 (30%), Positives = 58/135 (42%), Gaps = 8/135 (5%)
 Frame = +3

Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539
           N Q  L+H  +  L     H     +  T + R  P+V ++ +         +L C    
Sbjct: 81  NEQESLIHRLQNGLQDCATHTQPFWDVLTHRTRA-PSVRVAQTTPFNTREPVMLACYVWG 139

Query: 540 FYPSQVKVQWFRNGQ--------EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTC 695
           FYP+ V + W +NGQ        E+TA         NG WTYQ +  L +    GDVYTC
Sbjct: 140 FYPADVTITWMKNGQLVPSHSNKEKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTC 192

Query: 696 RVEHSSLQSRILVEW 740
            V+HS     I  +W
Sbjct: 193 VVQHSGTSEPIRGDW 207


>ref|NP_032232.1| histocompatibility 2, O region alpha locus [Mus musculus]
          Length = 250

 Score = 61.6 bits (148), Expect = 2e-09
 Identities = 32/97 (32%), Positives = 44/97 (45%)
 Frame = +3

Query: 459 VQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWT 638
           V P VT+ P     L   N+L+C   D +P  + V W RN Q  T GV  T   +  +  
Sbjct: 111 VPPRVTVLPKTRVELGKPNVLICIVDDIFPPVINVTWLRNSQPITKGVAQTSFYSQPNHR 170

Query: 639 YQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQ 749
           ++    L       DVY C+VEH  L + +L  W  Q
Sbjct: 171 FRKFHYLTFVPSAEDVYDCKVEHWGLDTPLLQHWEPQ 207


>ref|NP_034517.2| histocompatibility 2, class II, locus Mb1 [Mus musculus]
          Length = 261

 Score = 58.5 bits (140), Expect = 2e-08
 Identities = 40/135 (29%), Positives = 57/135 (42%), Gaps = 8/135 (5%)
 Frame = +3

Query: 360 NSQNDLLHHNRAELDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTD 539
           N +  LL   +  L     H      + T + R  P+V ++ +         +L C    
Sbjct: 81  NKEESLLQRLQNGLLDCASHTQPFWNALTHRTRA-PSVRVAQTTPFNTREPVMLACYVWG 139

Query: 540 FYPSQVKVQWFRNGQ--------EETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTC 695
           FYP+ V + W +NGQ        E+TA         NG WTYQ +  L +    GDVYTC
Sbjct: 140 FYPADVTITWMKNGQLVPSHSNKEKTAQ-------PNGDWTYQTVSYLALTPSYGDVYTC 192

Query: 696 RVEHSSLQSRILVEW 740
            V+HS     I  +W
Sbjct: 193 VVQHSGTSEPIRGDW 207


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

 Score = 57.8 bits (138), Expect = 3e-08
 Identities = 27/103 (26%), Positives = 44/103 (42%)
 Frame = +3

Query: 465 PTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQ 644
           P  T+ P     L   N L+C   + +P  + + W RN +    GV  T    N  +++ 
Sbjct: 114 PQATVFPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSVADGVYETSFFVNRDYSFH 173

Query: 645 VLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSESAHSNM 773
            L  L       D+Y C+VEH  L+  +L  W  +  +  S +
Sbjct: 174 KLSYLTFIPSDDDIYDCKVEHWGLEEPVLKHWEPEIPAPMSEL 216


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

 Score = 53.9 bits (128), Expect = 4e-07
 Identities = 32/120 (26%), Positives = 49/120 (40%)
 Frame = +3

Query: 399 LDTACIHNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLVCAGTDFYPSQVKVQWFRN 578
           +D A +   +   + T    V P VT+       L   N+L+C    F P  V V WFRN
Sbjct: 90  VDKANLDVMKERSNNTPDANVAPEVTVLSRSPVNLGEPNILICFIDKFSPPVVNVTWFRN 149

Query: 579 GQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVEHSSLQSRILVEWRAQSES 758
           G+  T GV  T  +      ++    L       D Y C V+H  L+  +   W  + ++
Sbjct: 150 GRPVTEGVSETVFLPRDDHLFRKFHYLTFLPSTDDFYDCEVDHWGLEEPLRKHWEFEEKT 209


>ref|NP_032235.1| histocompatibility-2 complex class 1-like [Mus musculus]
          Length = 341

 Score = 53.1 bits (126), Expect = 6e-07
 Identities = 32/125 (25%), Positives = 54/125 (43%), Gaps = 3/125 (2%)
 Frame = +3

Query: 354 SWNSQNDLLHHNRAELDTACI---HNYQIEESTTLQRRVQPTVTISPSHAEALNHRNLLV 524
           +W +    L + +  L+  CI     +      TL+R   P V  +    E         
Sbjct: 160 AWEANLHELQYQKNWLEEECIAWLKRFLEYGRDTLERTEHPVVRTT--RKETFPGITTFF 217

Query: 525 CAGTDFYPSQVKVQWFRNGQEETAGVVSTPLITNGHWTYQVLVMLHMNLHRGDVYTCRVE 704
           C    FYP ++ + W +NG+E    V    ++ +G  TYQ  + ++++    DVY+C VE
Sbjct: 218 CRAHGFYPPEISMTWMKNGEEIAQEVDYGGVLPSGDGTYQTWLSVNLDPQSNDVYSCHVE 277

Query: 705 HSSLQ 719
           H   Q
Sbjct: 278 HCGRQ 282


  Database: RefSeqMP
    Posted date:  Aug 2, 2006 12:58 AM
  Number of letters in database: 21,768,885
  Number of sequences in database:  45,328
  
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 Hits to DB: 64,832,815
Number of Sequences: 45328
Number of extensions: 1752607
Number of successful extensions: 6185
Number of sequences better than 1.0e-05: 10
Number of HSP's better than  0.0 without gapping: 5084
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 0
Number of HSP's gapped (non-prelim): 6138
length of database: 21,768,885
effective HSP length: 107
effective length of database: 16,918,789
effective search space used: 5752388260
frameshift window, decay const: 40,  0.1
T: 12
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)