Animal-Genome cDNA 20110601C-000610


Search to RefSeqBP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 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|XP_002687884.1| PREDICTED: C-type lectin domain family 2, me...    48   9e-06

>ref|XP_002687884.1| PREDICTED: C-type lectin domain family 2, member e-like [Bos
           taurus].
          Length = 208

 Score = 48.1 bits (113), Expect = 9e-06
 Identities = 30/69 (43%), Positives = 41/69 (59%), Gaps = 3/69 (4%)
 Frame = +3

Query: 39  MTSLEA-LKFLQTGHTCRESMSEGQSGEDLQRKCLSITS--LPFPKLACFIIPMAVLAAA 209
           MTS E  LK L+T  T RE+    +SG+ LQ+KCL+ITS   P     C +I + ++A  
Sbjct: 1   MTSTEVFLKILETDPTYRENTEAWRSGKGLQKKCLAITSSVTPATLCCCILIILILVALN 60

Query: 210 VIALSTFLA 236
           V+ LS  LA
Sbjct: 61  VVTLSVLLA 69


  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: 16,634,846
Number of extensions: 741639
Number of successful extensions: 617
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 617
Number of HSP's successfully gapped: 1
Length of query: 278
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 177
Effective length of database: 14,339,486
Effective search space: 2538089022
Effective search space used: 2538089022
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqCP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 letters)

Database: RefSeq49_CP.fasta 
           33,336 sequences; 18,874,504 total letters

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

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


  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: 14,784,345
Number of extensions: 295879
Number of successful extensions: 666
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 666
Number of HSP's successfully gapped: 0
Length of query: 278
Length of database: 18,874,504
Length adjustment: 101
Effective length of query: 177
Effective length of database: 15,507,568
Effective search space: 2744839536
Effective search space used: 2744839536
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqHP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 letters)

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

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

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


  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: 14,525,567
Number of extensions: 258746
Number of successful extensions: 623
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 623
Number of HSP's successfully gapped: 0
Length of query: 278
Length of database: 18,297,164
Length adjustment: 101
Effective length of query: 177
Effective length of database: 14,967,800
Effective search space: 2649300600
Effective search space used: 2649300600
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)

Search to RefSeqMP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 letters)

Database: RefSeq49_MP.fasta 
           30,036 sequences; 15,617,559 total letters

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

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


  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: 12,554,366
Number of extensions: 244933
Number of successful extensions: 557
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 556
Number of HSP's successfully gapped: 0
Length of query: 278
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 178
Effective length of database: 12,613,959
Effective search space: 2245284702
Effective search space used: 2245284702
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: 33 (17.3 bits)

Search to RefSeqSP_Rel49

BLASTX 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 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|XP_003126541.1| PREDICTED: c-type lectin domain family 2 mem...   130   7e-31
Alignment   gi|XP_003126540.1| PREDICTED: c-type lectin domain family 2 mem...   130   7e-31

>ref|XP_003126541.1| PREDICTED: c-type lectin domain family 2 member H-like isoform 2
           [Sus scrofa].
          Length = 229

 Score =  130 bits (328), Expect = 7e-31
 Identities = 66/66 (100%), Positives = 66/66 (100%)
 Frame = +3

Query: 39  MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA 218
           MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA
Sbjct: 1   MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA 60

Query: 219 LSTFLA 236
           LSTFLA
Sbjct: 61  LSTFLA 66


>ref|XP_003126540.1| PREDICTED: c-type lectin domain family 2 member H-like isoform 1
           [Sus scrofa].
          Length = 212

 Score =  130 bits (328), Expect = 7e-31
 Identities = 66/66 (100%), Positives = 66/66 (100%)
 Frame = +3

Query: 39  MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA 218
           MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA
Sbjct: 1   MTSLEALKFLQTGHTCRESMSEGQSGEDLQRKCLSITSLPFPKLACFIIPMAVLAAAVIA 60

Query: 219 LSTFLA 236
           LSTFLA
Sbjct: 61  LSTFLA 66


  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: 14,857,053
Number of extensions: 1194544
Number of successful extensions: 389
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 389
Number of HSP's successfully gapped: 2
Length of query: 278
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 180
Effective length of database: 8,904,026
Effective search space: 1602724680
Effective search space used: 1602724680
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: 33 (17.3 bits)

Search to Sscrofa10_2

BLASTN 2.2.24 [Aug-08-2010]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Query= 20110601C-000610
         (835 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_Chr05                                                         325   2e-86

>Sscrofa_Chr05 
||          Length = 111506441

 Score =  325 bits (164), Expect = 2e-86
 Identities = 164/164 (100%)
 Strand = Plus / Minus

                                                                            
Query: 114      ggggaggatctccaaagaaaatgtctatccattacatctctaccttttcccaagcttgct 173
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65038517 ggggaggatctccaaagaaaatgtctatccattacatctctaccttttcccaagcttgct 65038458

                                                                            
Query: 174      tgtttcatcatccctatggcagtcttagctgcagctgtgattgcactttccacttttttg 233
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65038457 tgtttcatcatccctatggcagtcttagctgcagctgtgattgcactttccacttttttg 65038398

                                                            
Query: 234      gcaggtaagtgacgtgtgctccacacttgacaatgttcttcaca 277
                ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65038397 gcaggtaagtgacgtgtgctccacacttgacaatgttcttcaca 65038354



 Score =  226 bits (114), Expect = 2e-56
 Identities = 114/114 (100%)
 Strand = Plus / Minus

                                                                            
Query: 2        agtcgtgttccgggaacaagctgaaaggagcctgaacatgacttcgttggaggctttgaa 61
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65041254 agtcgtgttccgggaacaagctgaaaggagcctgaacatgacttcgttggaggctttgaa 65041195

                                                                      
Query: 62       attcttacagacaggtcatacctgcagagaaagcatgtctgaagggcaatctgg 115
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65041194 attcttacagacaggtcatacctgcagagaaagcatgtctgaagggcaatctgg 65041141



 Score = 97.6 bits (49), Expect = 9e-18
 Identities = 49/49 (100%)
 Strand = Plus / Minus

                                                                 
Query: 519      ccatgtggctgtctggagaaagcattctggaccaagtagaatcacctct 567
                |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 65038112 ccatgtggctgtctggagaaagcattctggaccaagtagaatcacctct 65038064


  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: 10,692,672
Number of extensions: 76
Number of successful extensions: 76
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 76
Number of HSP's successfully gapped: 3
Length of query: 835
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 814
Effective length of database: 2,808,413,156
Effective search space: 2286048308984
Effective search space used: 2286048308984
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)