Animal-Genome cDNA 20060611S-040701


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-040701
         (546 letters)

Database: RefSeqSP 
           1040 sequences; 434,620 total letters

Searching...done

 ***** No hits found ******

  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: 555,451
Number of Sequences: 1040
Number of extensions: 14501
Number of successful extensions: 38
Number of sequences better than 1.0e-05: 0
Number of HSP's better than  0.0 without gapping: 38
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): 38
length of database: 434,620
effective HSP length: 71
effective length of database: 360,780
effective search space used: 39685800
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-040701
         (546 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001013619.2| histocompatibility complex, class II, DQ alp...   111   2e-30
Alignment   gi|NP_001012699.1| major histocompatibility complex, class II, ...    96   5e-27
Alignment   gi|NP_001012693.1| major histocompatibility complex, class II, ...    91   1e-24
Alignment   gi|NP_001012696.1| major histocompatibility complex, class II, ...    86   7e-20
Alignment   gi|NP_001012695.1| major histocompatibility complex, class II, ...    61   7e-12
Alignment   gi|XP_604082.2| PREDICTED: similar to HLA class II histocompati...    52   2e-10
Alignment   gi|XP_883292.1| PREDICTED: similar to HLA class II histocompati...    50   1e-09

>ref|NP_001013619.2| histocompatibility complex, class II, DQ alpha, type 1 [Bos taurus]
          Length = 255

 Score =  111 bits (277), Expect(3) = 2e-30
 Identities = 49/91 (53%), Positives = 68/91 (74%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  + + G+++YH+YGPS YY HEFDGD+EFY+ L  ++TVW++P+FSKF +F+PQGALR
Sbjct: 28  ADHIGTYGISIYHTYGPSGYYTHEFDGDEEFYVDLEKRETVWRLPVFSKFATFDPQGALR 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H L I+I+R    AA + VPE TVF
Sbjct: 88  NIATTKHNLEIVIQRSNSTAATNKVPEVTVF 118



 Score = 33.1 bits (74), Expect(3) = 2e-30
 Identities = 15/37 (40%), Positives = 18/37 (48%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +CHV+  FPPV N    +NG  V
Sbjct: 118 FSKSPVMLGQPNTLICHVDNIFPPVINITWLRNGHSV 154



 Score = 25.4 bits (54), Expect(3) = 2e-30
 Identities = 13/24 (54%), Positives = 15/24 (62%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           MV    L+ GALALT +MS  G E
Sbjct: 1   MVLNRALILGALALTTMMSPSGSE 24


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

 Score = 96.3 bits (238), Expect(3) = 5e-27
 Identities = 45/91 (49%), Positives = 59/91 (64%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  V S G  +Y S+GPS  Y  EFDGD+ FY+ LG K+TVW++P+FS+F  F+PQ AL 
Sbjct: 28  ADHVGSYGTEIYQSHGPSGQYTQEFDGDEMFYVDLGKKETVWRLPMFSQFAGFDPQAALS 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
            I  A H L++L KR      ++ VPE TVF
Sbjct: 88  EIATAKHNLDVLTKRSNFTPVINEVPEVTVF 118



 Score = 34.3 bits (77), Expect(3) = 5e-27
 Identities = 16/37 (43%), Positives = 18/37 (48%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +CHV+  FPPV N    KNG  V
Sbjct: 118 FSKSPVMLGQPNTLICHVDNIFPPVINITWLKNGHAV 154



 Score = 28.1 bits (61), Expect(3) = 5e-27
 Identities = 14/24 (58%), Positives = 16/24 (66%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           MV    L+ GALALT +MS  GGE
Sbjct: 1   MVLNRALILGALALTTMMSSSGGE 24


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

 Score = 90.9 bits (224), Expect(3) = 1e-24
 Identities = 45/91 (49%), Positives = 60/91 (65%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  V   G+++Y SYGPS  Y HEFDGD++FY+ L  K+T WQ+PLFS+ +SF+PQ ALR
Sbjct: 28  ADHVGIYGISIYQSYGPSGQYTHEFDGDEQFYVDLEKKETAWQLPLFSRMLSFDPQLALR 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I      ++ L K     AA + VPE TVF
Sbjct: 88  NIAIMKLHVDFLTKFSNSTAATNKVPEVTVF 118



 Score = 33.1 bits (74), Expect(3) = 1e-24
 Identities = 15/37 (40%), Positives = 18/37 (48%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +CHV+  FPPV N    +NG  V
Sbjct: 118 FSKSPVMLGQPNTLICHVDNIFPPVINITWLRNGHSV 154



 Score = 26.2 bits (56), Expect(3) = 1e-24
 Identities = 13/24 (54%), Positives = 15/24 (62%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           MV    L+ G LALT +MS  GGE
Sbjct: 1   MVLNRALILGTLALTTMMSPSGGE 24


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

 Score = 85.9 bits (211), Expect(2) = 7e-20
 Identities = 43/93 (46%), Positives = 57/93 (61%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  V + G NVY +YG S  +  EFDGD+ FY+ LG K+TVW++P FS    FE Q ALR
Sbjct: 26  ADHVGTYGTNVYQTYGASGQFTFEFDGDELFYVDLGKKETVWRLPEFSNITKFEVQSALR 85

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
           +I  +   L+ILIK  +   A   +PE  VFP+
Sbjct: 86  NIVMSKRNLDILIKNSSFTPATSEIPEVAVFPK 118



 Score = 28.5 bits (62), Expect(2) = 7e-20
 Identities = 12/26 (46%), Positives = 14/26 (53%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNG 508
           G P   +C V+  FPPV N   F NG
Sbjct: 124 GIPNTLICQVDNIFPPVINITWFYNG 149


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

 Score = 61.2 bits (147), Expect(2) = 7e-12
 Identities = 30/75 (40%), Positives = 46/75 (61%)
 Frame = +1

Query: 187 SRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHIDPANHTLNILIKRVA 366
           S  +  +FDGD+ F++ +G K+TVW++P F  F SFE QGAL ++      L+I+IKR  
Sbjct: 43  SAEFMFDFDGDEIFHVDMGKKETVWRLPEFGHFASFEAQGALANMAVMKANLDIMIKRSN 102

Query: 367 HPAAVHPVPEGTVFP 411
           +    +  PE T+ P
Sbjct: 103 NTPNTNVPPEVTLLP 117



 Score = 26.2 bits (56), Expect(2) = 7e-12
 Identities = 10/29 (34%), Positives = 15/29 (51%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C ++   PPV +    +NG PV
Sbjct: 124 GEPNTLICFIDKFSPPVISVTWLRNGKPV 152


>ref|XP_604082.2| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           alpha chain precursor (MHC class II antigen DOA) (MHC DZ
           alpha) (MHC DN-alpha) isoform 1 [Bos taurus]
          Length = 250

 Score = 52.4 bits (124), Expect(2) = 2e-10
 Identities = 30/93 (32%), Positives = 45/93 (48%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  + S G   Y SY  +  + ++FDG+Q F + L  ++ VW++P F  F  F+PQ  L 
Sbjct: 28  ADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKREAVWRLPEFGNFAYFDPQSGLV 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
            I      L  L+KR     A +  P   V P+
Sbjct: 88  SIAMIKAHLEDLVKRSNGTRAPNVSPRVAVLPK 120



 Score = 30.0 bits (66), Expect(2) = 2e-10
 Identities = 13/29 (44%), Positives = 16/29 (55%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C V+  FPPV N    +NG PV
Sbjct: 126 GEPNVLICIVDKIFPPVINITWLRNGHPV 154


>ref|XP_883292.1| PREDICTED: similar to HLA class II histocompatibility antigen, DO
           alpha chain precursor (MHC class II antigen DOA) (MHC DZ
           alpha) (MHC DN-alpha) isoform 2 [Bos taurus]
          Length = 251

 Score = 49.7 bits (117), Expect(2) = 1e-09
 Identities = 26/75 (34%), Positives = 39/75 (52%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  + S G   Y SY  +  + ++FDG+Q F + L  ++ VW++P F  F  F+PQ  L 
Sbjct: 28  ADHMGSYGPAFYQSYDGAGQFTYDFDGEQLFSVDLKKREAVWRLPEFGNFAYFDPQSGLV 87

Query: 316 HIDPANHTLNILIKR 360
            I      L  L+KR
Sbjct: 88  SIAMIKAHLEDLVKR 102



 Score = 30.0 bits (66), Expect(2) = 1e-09
 Identities = 13/29 (44%), Positives = 16/29 (55%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C V+  FPPV N    +NG PV
Sbjct: 127 GEPNVLICIVDKIFPPVINITWLRNGHPV 155


  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: 21,149,088
Number of Sequences: 33508
Number of extensions: 577301
Number of successful extensions: 1850
Number of sequences better than 1.0e-05: 7
Number of HSP's better than  0.0 without gapping: 1688
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): 1850
length of database: 16,112,626
effective HSP length: 95
effective length of database: 12,929,366
effective search space used: 1111925476
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-040701
         (546 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_064440.1| major histocompatibility complex, class II, DQ ...   110   9e-32
Alignment   gi|XP_949974.1| PREDICTED: similar to HLA class II histocompati...   106   1e-29
Alignment   gi|XP_949973.1| PREDICTED: similar to HLA class II histocompati...   106   1e-29
Alignment   gi|XP_949971.1| PREDICTED: similar to HLA class II histocompati...   106   1e-29
Alignment   gi|XP_945969.1| PREDICTED: similar to HLA class II histocompati...   106   1e-29
Alignment   gi|XP_949969.1| PREDICTED: similar to HLA class II histocompati...   106   1e-29
Alignment   gi|NP_002113.2| major histocompatibility complex, class II, DQ ...   106   3e-29
Alignment   gi|XP_941306.1| PREDICTED: similar to HLA class II histocompati...    97   1e-26
Alignment   gi|XP_941305.1| PREDICTED: similar to HLA class II histocompati...    97   1e-26
Alignment   gi|XP_941304.1| PREDICTED: similar to HLA class II histocompati...    97   1e-26

>ref|NP_064440.1| major histocompatibility complex, class II, DQ alpha 2 [Homo
           sapiens]
          Length = 255

 Score =  110 bits (275), Expect(3) = 9e-32
 Identities = 52/94 (55%), Positives = 68/94 (72%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N Y S+GPS  Y HEFDGD+EFY+ L  K+TVWQ+P+FSKFISF+PQ ALR
Sbjct: 28  ADHVASYGVNFYQSHGPSGQYTHEFDGDEEFYVDLETKETVWQLPMFSKFISFDPQSALR 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQF 417
           ++    HTL  ++++    AA + VPE TVF +F
Sbjct: 88  NMAVGKHTLEFMMRQSNSTAATNEVPEVTVFSKF 121



 Score = 33.1 bits (74), Expect(3) = 9e-32
 Identities = 15/24 (62%), Positives = 18/24 (75%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    L+ GALALTA+MS CGGE
Sbjct: 1   MILNKALLLGALALTAVMSPCGGE 24



 Score = 31.2 bits (69), Expect(3) = 9e-32
 Identities = 15/37 (40%), Positives = 17/37 (45%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F  FP   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKFPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


>ref|XP_949974.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(1) alpha chain precursor (DC-4 alpha chain) isoform
           10 [Homo sapiens]
          Length = 255

 Score =  106 bits (265), Expect(3) = 1e-29
 Identities = 53/91 (58%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD+EFY+ L  K+TVWQ+PLF +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LNI+IKR    AA + VPE TVF
Sbjct: 88  NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118



 Score = 32.7 bits (73), Expect(3) = 1e-29
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 28.1 bits (61), Expect(3) = 1e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


>ref|XP_949973.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 9
           [Homo sapiens]
          Length = 255

 Score =  106 bits (265), Expect(3) = 1e-29
 Identities = 53/91 (58%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD+EFY+ L  K+TVWQ+PLF +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LNI+IKR    AA + VPE TVF
Sbjct: 88  NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118



 Score = 32.7 bits (73), Expect(3) = 1e-29
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 28.1 bits (61), Expect(3) = 1e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


>ref|XP_949971.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 8
           [Homo sapiens]
          Length = 255

 Score =  106 bits (265), Expect(3) = 1e-29
 Identities = 53/91 (58%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD+EFY+ L  K+TVWQ+PLF +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LNI+IKR    AA + VPE TVF
Sbjct: 88  NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118



 Score = 32.7 bits (73), Expect(3) = 1e-29
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 28.1 bits (61), Expect(3) = 1e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


>ref|XP_945969.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 1
           [Homo sapiens]
          Length = 255

 Score =  106 bits (265), Expect(3) = 1e-29
 Identities = 53/91 (58%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD+EFY+ L  K+TVWQ+PLF +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LNI+IKR    AA + VPE TVF
Sbjct: 88  NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118



 Score = 32.7 bits (73), Expect(3) = 1e-29
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 28.1 bits (61), Expect(3) = 1e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


>ref|XP_949969.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(1) alpha chain precursor (DC-4 alpha chain) isoform 7
           [Homo sapiens]
          Length = 208

 Score =  106 bits (265), Expect(3) = 1e-29
 Identities = 53/91 (58%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD+EFY+ L  K+TVWQ+PLF +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYSHEFDGDEEFYVDLERKETVWQLPLFRRFRRFDPQFALT 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LNI+IKR    AA + VPE TVF
Sbjct: 88  NIAVLKHNLNIVIKRSNSTAATNEVPEVTVF 118



 Score = 32.7 bits (73), Expect(3) = 1e-29
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 28.1 bits (61), Expect(3) = 1e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGHSV 154


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

 Score =  106 bits (264), Expect(3) = 3e-29
 Identities = 52/91 (57%), Positives = 64/91 (70%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y  YGPS  Y HEFDGD++FY+ L  K+T W+ P FSKF  F+PQGALR
Sbjct: 28  ADHVASCGVNLYQFYGPSGQYTHEFDGDEQFYVDLERKETAWRWPEFSKFGGFDPQGALR 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           ++  A H LNI+IKR    AA + VPE TVF
Sbjct: 88  NMAVAKHNLNIMIKRYNSTAATNEVPEVTVF 118



 Score = 31.6 bits (70), Expect(3) = 3e-29
 Identities = 14/24 (58%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    L+ GALALT +MS CGGE
Sbjct: 1   MILNKALLLGALALTTVMSPCGGE 24



 Score = 28.5 bits (62), Expect(3) = 3e-29
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 118 FSKSPVTLGQPNTLICLVDNIFPPVVNITWLSNGQSV 154


>ref|XP_941306.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
           (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 10 [Homo
           sapiens]
          Length = 254

 Score = 97.1 bits (240), Expect(3) = 1e-26
 Identities = 50/91 (54%), Positives = 62/91 (68%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD++FY+ LG K+TVW +P+  +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LN LIKR    AA + VPE TVF
Sbjct: 87  NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117



 Score = 32.7 bits (73), Expect(3) = 1e-26
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 27.3 bits (59), Expect(3) = 1e-26
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153


>ref|XP_941305.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
           (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 9 [Homo
           sapiens]
          Length = 254

 Score = 97.1 bits (240), Expect(3) = 1e-26
 Identities = 50/91 (54%), Positives = 62/91 (68%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD++FY+ LG K+TVW +P+  +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LN LIKR    AA + VPE TVF
Sbjct: 87  NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117



 Score = 32.7 bits (73), Expect(3) = 1e-26
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 27.3 bits (59), Expect(3) = 1e-26
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153


>ref|XP_941304.1| PREDICTED: similar to HLA class II histocompatibility antigen,
           DQ(3) alpha chain precursor (DC-alpha) (HLA-DCA)
           (HLA-DQA1*05011) (HLA-DQA1*0502) isoform 8 [Homo
           sapiens]
          Length = 254

 Score = 97.1 bits (240), Expect(3) = 1e-26
 Identities = 50/91 (54%), Positives = 62/91 (68%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VAS G+N+Y SYGPS  Y HEFDGD++FY+ LG K+TVW +P+  +F  F+PQ AL 
Sbjct: 28  ADHVASYGVNLYQSYGPSGQYTHEFDGDEQFYVDLGRKETVWCLPVLRQF-RFDPQFALT 86

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           +I    H LN LIKR    AA + VPE TVF
Sbjct: 87  NIAVLKHNLNSLIKRSNSTAATNEVPEVTVF 117



 Score = 32.7 bits (73), Expect(3) = 1e-26
 Identities = 15/24 (62%), Positives = 17/24 (70%)
 Frame = +2

Query: 53  MVPRPVLMWGALALTALMSDCGGE 124
           M+    LM GALALT +MS CGGE
Sbjct: 1   MILNKALMLGALALTTVMSPCGGE 24



 Score = 27.3 bits (59), Expect(3) = 1e-26
 Identities = 14/37 (37%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N     NG  V
Sbjct: 117 FSKSPVTLGQPNILICLVDNIFPPVVNITWLSNGHSV 153


  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: 24,056,799
Number of Sequences: 39411
Number of extensions: 686476
Number of successful extensions: 2374
Number of sequences better than 1.0e-05: 10
Number of HSP's better than  0.0 without gapping: 2026
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): 2360
length of database: 17,774,539
effective HSP length: 95
effective length of database: 14,030,494
effective search space used: 1206622484
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-040701
         (546 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001011726.1| MHC class II DLA DQalpha chain [Canis famili...   107   6e-26
Alignment   gi|NP_001011723.1| MHC class II DR alpha chain [Canis familiaris]     59   2e-11
Alignment   gi|XP_850803.1| PREDICTED: similar to HLA class II histocompati...    57   6e-11
Alignment   gi|XP_532104.2| PREDICTED: similar to HLA class II histocompati...    59   3e-09

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

 Score =  107 bits (267), Expect(2) = 6e-26
 Identities = 52/91 (57%), Positives = 65/91 (71%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  VA+ G+NVY SYGPS  Y HEFDGD+EFY+ L  K+TVW++P+FS F SF+PQGALR
Sbjct: 28  ADHVANYGINVYQSYGPSGQYTHEFDGDEEFYVDLEKKETVWRLPVFSTFRSFDPQGALR 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVF 408
           ++      LNI+ KR    AA + VPE TVF
Sbjct: 88  NLAIIKQNLNIMTKRSNQTAATNEVPEVTVF 118



 Score = 27.7 bits (60), Expect(2) = 6e-26
 Identities = 13/33 (39%), Positives = 15/33 (45%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKN 505
           F   P   G P   +C V+  FPPV N    KN
Sbjct: 118 FSKSPVMLGQPNTLICLVDNIFPPVINVTWLKN 150


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

 Score = 58.9 bits (141), Expect(2) = 2e-11
 Identities = 31/79 (39%), Positives = 46/79 (58%)
 Frame = +1

Query: 169 YHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHIDPANHTLNI 348
           Y +  PS  +  +FDGD+ F++ +  K+TVW++  F +F SFE QGAL +I      L+ 
Sbjct: 38  YLTPDPSGEFMFDFDGDEIFHVDMEKKETVWRLEEFGRFASFEAQGALANIAVDKANLDT 97

Query: 349 LIKRVAHPAAVHPVPEGTV 405
           +IKR  H    +  PE TV
Sbjct: 98  MIKRSNHTPNTNVPPEVTV 116



 Score = 26.9 bits (58), Expect(2) = 2e-11
 Identities = 11/29 (37%), Positives = 15/29 (51%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C ++   PPV N    +NG PV
Sbjct: 125 GEPNILICFIDKFSPPVINVTWLRNGNPV 153


>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 = 57.0 bits (136), Expect(2) = 6e-11
 Identities = 32/98 (32%), Positives = 47/98 (47%), Gaps = 7/98 (7%)
 Frame = +1

Query: 145 VAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHID 324
           + S G   Y SYG S  + HEFDG+Q F + L  +  VW++P F     F+PQ  L  I 
Sbjct: 1   MGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLASIA 60

Query: 325 PANHTLNILIKRVAHPAAVHPV-------PEGTVFPQF 417
                L++L++R     A++         P   V P+F
Sbjct: 61  VIKAHLDVLVERSNRTRAINGTHLSSPLPPRVAVLPKF 98



 Score = 27.3 bits (59), Expect(2) = 6e-11
 Identities = 11/26 (42%), Positives = 14/26 (53%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNG 508
           G P   +C V+  FPPV N    +NG
Sbjct: 103 GQPNVLICIVDNIFPPVINITWLRNG 128


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

 Score = 58.9 bits (141), Expect = 3e-09
 Identities = 32/93 (34%), Positives = 46/93 (49%), Gaps = 6/93 (6%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  + S G   Y SYG S  + HEFDG+Q F + L  +  VW++P F     F+PQ  L 
Sbjct: 14  ADHMGSYGPAFYQSYGSSGQFAHEFDGEQLFSVELKKRQAVWRLPEFGNLAHFDPQNGLA 73

Query: 316 HIDPANHTLNILIKR------VAHPAAVHPVPE 396
            I      L++L++R      +  P    PVP+
Sbjct: 74  SIAVIKAHLDVLVERSNRTRAINEPQVPIPVPD 106


  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: 24,901,878
Number of Sequences: 33732
Number of extensions: 685791
Number of successful extensions: 2097
Number of sequences better than 1.0e-05: 4
Number of HSP's better than  0.0 without gapping: 1911
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): 2097
length of database: 19,266,565
effective HSP length: 96
effective length of database: 16,028,293
effective search space used: 1362404905
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-040701
         (546 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_034508.2| histocompatibility 2, class II antigen A, alpha...    83   2e-20
Alignment   gi|NP_032232.1| histocompatibility 2, O region alpha locus [Mus...    59   7e-12
Alignment   gi|NP_034511.2| histocompatibility 2, class II antigen E alpha ...    50   2e-09

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

 Score = 83.2 bits (204), Expect(3) = 2e-20
 Identities = 40/93 (43%), Positives = 55/93 (59%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  V + G++VY S G    Y  EFDGD+ FY+ L  K+TVW +P F +  SF+PQG L+
Sbjct: 29  ADHVGTYGISVYQSPGDIGQYTFEFDGDELFYVDLDKKETVWMLPEFGQLASFDPQGGLQ 88

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
           +I    H L +L KR     A +  P+ TVFP+
Sbjct: 89  NIAVVKHNLGVLTKRSNSTPATNEAPQATVFPK 121



 Score = 27.3 bits (59), Expect(3) = 2e-20
 Identities = 13/37 (35%), Positives = 16/37 (43%)
 Frame = +2

Query: 407 FLSFP*CWGNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           F   P   G P   +C V+  FPPV N    +N   V
Sbjct: 119 FPKSPVLLGQPNTLICFVDNIFPPVINITWLRNSKSV 155



 Score = 26.2 bits (56), Expect(3) = 2e-20
 Identities = 11/18 (61%), Positives = 14/18 (77%)
 Frame = +2

Query: 71  LMWGALALTALMSDCGGE 124
           L+ G LALT ++S CGGE
Sbjct: 7   LILGVLALTTMLSLCGGE 24


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

 Score = 59.3 bits (142), Expect(2) = 7e-12
 Identities = 34/93 (36%), Positives = 47/93 (50%)
 Frame = +1

Query: 136 AQRVAS*GLNVYHSYGPSRYYPHEFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALR 315
           A  + S G   Y SY  S  + HEFDG+Q F + L N++ VW++P F  F   + Q  L 
Sbjct: 28  ADHMGSYGPAFYQSYDASGQFTHEFDGEQIFSVDLKNEEVVWRLPEFGDFAHSDFQSGLM 87

Query: 316 HIDPANHTLNILIKRVAHPAAVHPVPEGTVFPQ 414
            I      L+IL++R     AV   P  TV P+
Sbjct: 88  SISMIKAHLDILVERSNRTRAVSVPPRVTVLPK 120



 Score = 28.5 bits (62), Expect(2) = 7e-12
 Identities = 11/29 (37%), Positives = 15/29 (51%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C V+  FPPV N    +N  P+
Sbjct: 126 GKPNVLICIVDDIFPPVINVTWLRNSQPI 154


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

 Score = 50.4 bits (119), Expect(2) = 2e-09
 Identities = 24/67 (35%), Positives = 41/67 (61%)
 Frame = +1

Query: 205 EFDGDQEFYMYLGNKDTVWQVPLFSKFISFEPQGALRHIDPANHTLNILIKRVAHPAAVH 384
           +FDGD+ F++ +   +T+W++  F+KF SFE QGAL +I      L+++ +R  +    +
Sbjct: 50  DFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNNTPDAN 109

Query: 385 PVPEGTV 405
             PE TV
Sbjct: 110 VAPEVTV 116



 Score = 29.3 bits (64), Expect(2) = 2e-09
 Identities = 12/29 (41%), Positives = 16/29 (55%)
 Frame = +2

Query: 431 GNPTPFLCHVEGTFPPVDNTP*FKNGPPV 517
           G P   +C ++   PPV N   F+NG PV
Sbjct: 125 GEPNILICFIDKFSPPVVNVTWFRNGRPV 153


  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: 28,193,836
Number of Sequences: 45328
Number of extensions: 763644
Number of successful extensions: 2343
Number of sequences better than 1.0e-05: 3
Number of HSP's better than  0.0 without gapping: 2149
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): 2343
length of database: 21,768,885
effective HSP length: 97
effective length of database: 17,372,069
effective search space used: 1459253796
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)