Animal-Genome cDNA 20110601C-004492


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-004492
         (1067 letters)

Database: RefSeq49_BP.fasta 
           33,088 sequences; 17,681,374 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_776853.2| DNA polymerase delta subunit 2 [Bos taurus].         563   e-161

>ref|NP_776853.2| DNA polymerase delta subunit 2 [Bos taurus].
          Length = 469

 Score =  563 bits (1451), Expect = e-161
 Identities = 285/320 (89%), Positives = 291/320 (90%)
 Frame = +3

Query: 108  MFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRLVQ 287
            MFSEQAAQRAHTLLSPPSASNATF R+PVVTYTNSSQPFRLGERSF+RQYAHIYATRL+Q
Sbjct: 1    MFSEQAAQRAHTLLSPPSASNATFARVPVVTYTNSSQPFRLGERSFSRQYAHIYATRLIQ 60

Query: 288  MRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLLPQ 467
            MRPFLVSRA+QRWG GV+VKKLCELQPGEKCCVVGTLFKAM LQPSILREVSEEHNLLPQ
Sbjct: 61   MRPFLVSRAQQRWGSGVLVKKLCELQPGEKCCVVGTLFKAMPLQPSILREVSEEHNLLPQ 120

Query: 468  PPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCFAG 647
            PPRSKYIHPDDELILEDELQRIKLEG IDVSKLVTGTVLA+LGSAGDDGKFLVEDHCFAG
Sbjct: 121  PPRSKYIHPDDELILEDELQRIKLEGTIDVSKLVTGTVLAVLGSAGDDGKFLVEDHCFAG 180

Query: 648  LAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHVSR 827
            LAPQKP  PLDTDRFV                      VDVVTGQLGDEGE CSAAHVSR
Sbjct: 181  LAPQKPACPLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSR 240

Query: 828  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 1007
            VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD
Sbjct: 241  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 300

Query: 1008 PTNYTLPQQPLHPCMFPLAT 1067
            PTNYTLPQQPLHPCMFPLAT
Sbjct: 301  PTNYTLPQQPLHPCMFPLAT 320


  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: 38,894,768
Number of extensions: 1100719
Number of successful extensions: 6233
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6181
Number of HSP's successfully gapped: 1
Length of query: 355
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 252
Effective length of database: 14,273,310
Effective search space: 3596874120
Effective search space used: 3596874120
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-004492
         (1067 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|XP_539802.2| PREDICTED: similar to DNA polymerase delta subu...   537   e-153

>ref|XP_539802.2| PREDICTED: similar to DNA polymerase delta subunit 2 (DNA polymerase
            delta subunit p50) [Canis familiaris].
          Length = 469

 Score =  537 bits (1383), Expect = e-153
 Identities = 271/320 (84%), Positives = 282/320 (88%)
 Frame = +3

Query: 108  MFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRLVQ 287
            MFSEQAAQRAHTLLSPPSASNATF R+PV TYTNSSQ FRLGERSF+RQYAHIYATRL+Q
Sbjct: 1    MFSEQAAQRAHTLLSPPSASNATFARVPVSTYTNSSQSFRLGERSFSRQYAHIYATRLLQ 60

Query: 288  MRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLLPQ 467
            MRPFLVSRA+Q WG G+ +KKLCELQPGEKCCVVGTLFKAM LQPSILRE+SEEHNLLPQ
Sbjct: 61   MRPFLVSRAQQHWGDGIQIKKLCELQPGEKCCVVGTLFKAMPLQPSILREISEEHNLLPQ 120

Query: 468  PPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCFAG 647
            PPRSKYIHPDD+L+LEDELQRIKLEG+ID SKLVTGTVLA+LGS  D GKFLVEDHCFA 
Sbjct: 121  PPRSKYIHPDDQLVLEDELQRIKLEGSIDASKLVTGTVLAVLGSVRDSGKFLVEDHCFAE 180

Query: 648  LAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHVSR 827
            LAPQKP   LDTDRFV                      VDVVTGQLGDEGE CSAAHVSR
Sbjct: 181  LAPQKPAPTLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSR 240

Query: 828  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 1007
            VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD
Sbjct: 241  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 300

Query: 1008 PTNYTLPQQPLHPCMFPLAT 1067
            PTNYTLPQQPLHPCMFPLAT
Sbjct: 301  PTNYTLPQQPLHPCMFPLAT 320


  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: 40,546,622
Number of extensions: 1135701
Number of successful extensions: 6436
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6332
Number of HSP's successfully gapped: 1
Length of query: 355
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 251
Effective length of database: 15,407,560
Effective search space: 3867297560
Effective search space used: 3867297560
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

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-004492
         (1067 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_001120690.1| DNA polymerase delta subunit 2 [Homo sapiens].    536   e-152
Alignment   gi|NP_006221.1| DNA polymerase delta subunit 2 [Homo sapiens].       536   e-152

>ref|NP_001120690.1| DNA polymerase delta subunit 2 [Homo sapiens].
          Length = 469

 Score =  536 bits (1380), Expect = e-152
 Identities = 271/320 (84%), Positives = 282/320 (88%)
 Frame = +3

Query: 108  MFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRLVQ 287
            MFSEQAAQRAHTLLSPPSA+NATF R+PV TYTNSSQPFRLGERSF+RQYAHIYATRL+Q
Sbjct: 1    MFSEQAAQRAHTLLSPPSANNATFARVPVATYTNSSQPFRLGERSFSRQYAHIYATRLIQ 60

Query: 288  MRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLLPQ 467
            MRPFL +RA+Q WG GV VKKLCELQP EKCCVVGTLFKAM LQPSILREVSEEHNLLPQ
Sbjct: 61   MRPFLENRAQQHWGSGVGVKKLCELQPEEKCCVVGTLFKAMPLQPSILREVSEEHNLLPQ 120

Query: 468  PPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCFAG 647
            PPRSKYIHPDDEL+LEDELQRIKL+G IDVSKLVTGTVLA+ GS  DDGKFLVED+CFA 
Sbjct: 121  PPRSKYIHPDDELVLEDELQRIKLKGTIDVSKLVTGTVLAVFGSVRDDGKFLVEDYCFAD 180

Query: 648  LAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHVSR 827
            LAPQKP  PLDTDRFV                      VDVVTGQLGDEGE CSAAHVSR
Sbjct: 181  LAPQKPAPPLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSR 240

Query: 828  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 1007
            VILAGNLLSH+TQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD
Sbjct: 241  VILAGNLLSHSTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 300

Query: 1008 PTNYTLPQQPLHPCMFPLAT 1067
            PTNYTLPQQPLHPCMFPLAT
Sbjct: 301  PTNYTLPQQPLHPCMFPLAT 320


>ref|NP_006221.1| DNA polymerase delta subunit 2 [Homo sapiens].
          Length = 469

 Score =  536 bits (1380), Expect = e-152
 Identities = 271/320 (84%), Positives = 282/320 (88%)
 Frame = +3

Query: 108  MFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRLVQ 287
            MFSEQAAQRAHTLLSPPSA+NATF R+PV TYTNSSQPFRLGERSF+RQYAHIYATRL+Q
Sbjct: 1    MFSEQAAQRAHTLLSPPSANNATFARVPVATYTNSSQPFRLGERSFSRQYAHIYATRLIQ 60

Query: 288  MRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLLPQ 467
            MRPFL +RA+Q WG GV VKKLCELQP EKCCVVGTLFKAM LQPSILREVSEEHNLLPQ
Sbjct: 61   MRPFLENRAQQHWGSGVGVKKLCELQPEEKCCVVGTLFKAMPLQPSILREVSEEHNLLPQ 120

Query: 468  PPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCFAG 647
            PPRSKYIHPDDEL+LEDELQRIKL+G IDVSKLVTGTVLA+ GS  DDGKFLVED+CFA 
Sbjct: 121  PPRSKYIHPDDELVLEDELQRIKLKGTIDVSKLVTGTVLAVFGSVRDDGKFLVEDYCFAD 180

Query: 648  LAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHVSR 827
            LAPQKP  PLDTDRFV                      VDVVTGQLGDEGE CSAAHVSR
Sbjct: 181  LAPQKPAPPLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSR 240

Query: 828  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 1007
            VILAGNLLSH+TQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD
Sbjct: 241  VILAGNLLSHSTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 300

Query: 1008 PTNYTLPQQPLHPCMFPLAT 1067
            PTNYTLPQQPLHPCMFPLAT
Sbjct: 301  PTNYTLPQQPLHPCMFPLAT 320


  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: 39,701,648
Number of extensions: 1109240
Number of successful extensions: 5793
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 5738
Number of HSP's successfully gapped: 2
Length of query: 355
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 251
Effective length of database: 14,868,908
Effective search space: 3732095908
Effective search space used: 3732095908
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)

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-004492
         (1067 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Alignment   gi|NP_032920.2| DNA polymerase delta subunit 2 [Mus musculus].       543   e-154

>ref|NP_032920.2| DNA polymerase delta subunit 2 [Mus musculus].
          Length = 469

 Score =  543 bits (1398), Expect = e-154
 Identities = 273/320 (85%), Positives = 284/320 (88%)
 Frame = +3

Query: 108  MFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRLVQ 287
            MFSEQAAQRAHTLL+PPSASNATF R+PV TYTNSSQPFRLGERSFNRQYAHIYATRL+Q
Sbjct: 1    MFSEQAAQRAHTLLAPPSASNATFARVPVATYTNSSQPFRLGERSFNRQYAHIYATRLIQ 60

Query: 288  MRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLLPQ 467
            MRPFLVSRA+Q WG  V VKKLCELQPGE+CCVVGTLFKAM LQPSILRE+SEEHNL+PQ
Sbjct: 61   MRPFLVSRAQQHWGSRVEVKKLCELQPGEQCCVVGTLFKAMSLQPSILREISEEHNLVPQ 120

Query: 468  PPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCFAG 647
            PPRSKYIHPDDEL+LEDELQRIKL+G IDVSKLVTGTVLA+LGSA DDG+F VEDHCFA 
Sbjct: 121  PPRSKYIHPDDELVLEDELQRIKLKGTIDVSKLVTGTVLAVLGSAKDDGRFQVEDHCFAD 180

Query: 648  LAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHVSR 827
            LAPQKP  PLDTDRFV                      VDVVTGQLGDEGE CSAAHVSR
Sbjct: 181  LAPQKPVPPLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHVSR 240

Query: 828  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 1007
            VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD
Sbjct: 241  VILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGEFD 300

Query: 1008 PTNYTLPQQPLHPCMFPLAT 1067
            PTNYTLPQQPLHPCMFPLAT
Sbjct: 301  PTNYTLPQQPLHPCMFPLAT 320


  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: 33,402,588
Number of extensions: 911120
Number of successful extensions: 4563
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4522
Number of HSP's successfully gapped: 1
Length of query: 355
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 253
Effective length of database: 12,553,887
Effective search space: 3176133411
Effective search space used: 3176133411
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 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-004492
         (1067 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_003134935.1| PREDICTED: DNA polymerase delta subunit 2-li...   587   e-168

>ref|XP_003134935.1| PREDICTED: DNA polymerase delta subunit 2-like [Sus scrofa].
          Length = 471

 Score =  587 bits (1514), Expect = e-168
 Identities = 299/322 (92%), Positives = 299/322 (92%)
 Frame = +3

Query: 102  MAMFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRL 281
            MAMFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRL
Sbjct: 1    MAMFSEQAAQRAHTLLSPPSASNATFDRIPVVTYTNSSQPFRLGERSFNRQYAHIYATRL 60

Query: 282  VQMRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLL 461
            VQMRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLL
Sbjct: 61   VQMRPFLVSRARQRWGGGVVVKKLCELQPGEKCCVVGTLFKAMQLQPSILREVSEEHNLL 120

Query: 462  PQPPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCF 641
            PQPPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCF
Sbjct: 121  PQPPRSKYIHPDDELILEDELQRIKLEGAIDVSKLVTGTVLALLGSAGDDGKFLVEDHCF 180

Query: 642  AGLAPQKPTRPLDTDRFVXXXXXXXXXXXXXXXXXXXXXXVDVVTGQLGDEGE*CSAAHV 821
            AGLAPQKPTRPLDTDRFV                      VDVVTGQLGDEGE CSAAHV
Sbjct: 181  AGLAPQKPTRPLDTDRFVLLVSGLGLGGGGGESLLGTQLLVDVVTGQLGDEGEQCSAAHV 240

Query: 822  SRVILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGE 1001
            SRVILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGE
Sbjct: 241  SRVILAGNLLSHNTQSRDSINKAKYLTKKTQAASVEAVKMLDEILLQLSASVPVDVMPGE 300

Query: 1002 FDPTNYTLPQQPLHPCMFPLAT 1067
            FDPTNYTLPQQPLHPCMFPLAT
Sbjct: 301  FDPTNYTLPQQPLHPCMFPLAT 322


  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: 25,169,035
Number of extensions: 711975
Number of successful extensions: 4016
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3918
Number of HSP's successfully gapped: 1
Length of query: 355
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 255
Effective length of database: 8,854,232
Effective search space: 2257829160
Effective search space used: 2257829160
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 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-004492
         (1067 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_Chr18                                                         551   e-154
Sscrofa_Chr13                                                         496   e-137

>Sscrofa_Chr18 
||          Length = 61220071

 Score =  551 bits (278), Expect = e-154
 Identities = 278/278 (100%)
 Strand = Plus / Plus

                                                                            
Query: 51       agggtccgcctcctcctcggcctggcctcagtaggtctggacgcatcaagcatggccatg 110
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55933330 agggtccgcctcctcctcggcctggcctcagtaggtctggacgcatcaagcatggccatg 55933389

                                                                            
Query: 111      ttttctgagcaggctgcccagagggcgcacactctgctgtccccaccatcagccagcaac 170
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55933390 ttttctgagcaggctgcccagagggcgcacactctgctgtccccaccatcagccagcaac 55933449

                                                                            
Query: 171      gccacttttgaccgaatccccgtggtgacttacaccaactcgtcccagcccttccgacta 230
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55933450 gccacttttgaccgaatccccgtggtgacttacaccaactcgtcccagcccttccgacta 55933509

                                                                            
Query: 231      ggggagcgcagctttaaccggcagtatgcccacatttatgccacccgcctggtccagatg 290
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55933510 ggggagcgcagctttaaccggcagtatgcccacatttatgccacccgcctggtccagatg 55933569

                                                      
Query: 291      aggcccttcctggtgagccgggccaggcagcgctgggg 328
                ||||||||||||||||||||||||||||||||||||||
Sbjct: 55933570 aggcccttcctggtgagccgggccaggcagcgctgggg 55933607



 Score =  394 bits (199), Expect = e-107
 Identities = 202/203 (99%)
 Strand = Plus / Plus

                                                                            
Query: 686      caggtttgtgttgctggtgtctggtctgggcctgggtggaggcgggggtgagagcctgct 745
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55938196 caggtttgtgttgctggtgtctggtctgggcctgggtggaggcgggggtgagagcctgct 55938255

                                                                            
Query: 746      gggcacccagctgctggtggacgtggtgacggggcagcttggagacgaaggggagtagtg 805
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 55938256 gggcacccagctgctggtggacgtggtgacggggcagcttggagacgaaggggagcagtg 55938315

                                                                            
Query: 806      cagtgccgcccacgtctcccgggtcatcctcgccgggaacctcctcagccataacaccca 865
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55938316 cagtgccgcccacgtctcccgggtcatcctcgccgggaacctcctcagccataacaccca 55938375

                                       
Query: 866      gagcagagattccatcaacaagg 888
                |||||||||||||||||||||||
Sbjct: 55938376 gagcagagattccatcaacaagg 55938398



 Score =  252 bits (127), Expect = 3e-64
 Identities = 127/127 (100%)
 Strand = Plus / Plus

                                                                            
Query: 448      agcacaacctgctcccccagcctcctcggagcaaatacatccacccggatgacgagctga 507
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937531 agcacaacctgctcccccagcctcctcggagcaaatacatccacccggatgacgagctga 55937590

                                                                            
Query: 508      tcttggaagatgaattgcagcgcatcaaactggagggcgccattgacgtgtccaagctgg 567
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937591 tcttggaagatgaattgcagcgcatcaaactggagggcgccattgacgtgtccaagctgg 55937650

                       
Query: 568      tcacagg 574
                |||||||
Sbjct: 55937651 tcacagg 55937657



 Score =  244 bits (123), Expect = 8e-62
 Identities = 123/123 (100%)
 Strand = Plus / Plus

                                                                            
Query: 327      ggcgggggcgtcgtcgtgaagaagctgtgtgagctgcagcccggggagaagtgctgtgtg 386
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937226 ggcgggggcgtcgtcgtgaagaagctgtgtgagctgcagcccggggagaagtgctgtgtg 55937285

                                                                            
Query: 387      gtcgggaccctcttcaaggccatgcagctccagccctccatcctgcgggaagtcagcgaa 446
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937286 gtcgggaccctcttcaaggccatgcagctccagccctccatcctgcgggaagtcagcgaa 55937345

                   
Query: 447      gag 449
                |||
Sbjct: 55937346 gag 55937348



 Score =  238 bits (120), Expect = 5e-60
 Identities = 120/120 (100%)
 Strand = Plus / Plus

                                                                            
Query: 571      cagggacggtcctggccctgctgggctccgcgggggatgacgggaagttcctggtggagg 630
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937923 cagggacggtcctggccctgctgggctccgcgggggatgacgggaagttcctggtggagg 55937982

                                                                            
Query: 631      accactgctttgcagggcttgcccctcagaagcccacacgccccctcgacacagacaggt 690
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55937983 accactgctttgcagggcttgcccctcagaagcccacacgccccctcgacacagacaggt 55938042



 Score =  196 bits (99), Expect = 2e-47
 Identities = 99/99 (100%)
 Strand = Plus / Plus

                                                                            
Query: 969      gcctccgtgcccgtggacgtgatgccaggcgaatttgacccgaccaactacacgctcccc 1028
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55938900 gcctccgtgcccgtggacgtgatgccaggcgaatttgacccgaccaactacacgctcccc 55938959

                                                       
Query: 1029     cagcagcccctgcacccctgcatgttccctctggccact 1067
                |||||||||||||||||||||||||||||||||||||||
Sbjct: 55938960 cagcagcccctgcacccctgcatgttccctctggccact 55938998



 Score =  159 bits (80), Expect = 4e-36
 Identities = 83/84 (98%)
 Strand = Plus / Plus

                                                                            
Query: 886      aggccaagtacctgaccaagaagacgcaggcagccagcgtggaggccgtcaagatgctgg 945
                |||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 55938680 aggccaagtacctgaccaagaagacgcaggcagctagcgtggaggccgtcaagatgctgg 55938739

                                        
Query: 946      acgagatcctcctgcagctgagtg 969
                ||||||||||||||||||||||||
Sbjct: 55938740 acgagatcctcctgcagctgagtg 55938763



 Score =  105 bits (53), Expect = 5e-20
 Identities = 53/53 (100%)
 Strand = Plus / Plus

                                                                     
Query: 1        ggattggcgggagacggcgcgcggcagtgggcggatcgcgtcgcacagcgagg 53
                |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 55932004 ggattggcgggagacggcgcgcggcagtgggcggatcgcgtcgcacagcgagg 55932056


>Sscrofa_Chr13 
||          Length = 218635234

 Score =  496 bits (250), Expect = e-137
 Identities = 685/829 (82%), Gaps = 17/829 (2%)
 Strand = Plus / Plus

                                                                             
Query: 216       cagcccttccgactaggggagcgca-gctttaaccggcagtatgcccacatttatgccac 274
                 ||||||||||||||||||| || || |||||| || ||  ||||||||||||||| ||||
Sbjct: 143573587 cagcccttccgactaggggtgcacaagctttagccagccttatgcccacatttataccac 143573646

                                                                             
Query: 275       ccgcctggtccagatgaggcccttcctggtgagccgggccaggcagcgctggggcggggg 334
                   | || |||||||||  |||||||||||| ||  |||||  ||||| ||||||| | ||
Sbjct: 143573647 ttgtcttgtccagatggagcccttcctggtaaggtgggcccagcagcactggggcagtgg 143573706

                                                                             
Query: 335       cgtcgtcgtgaagaagctgtgtgagctgcagcccggggagaagtgctgtgtggtcgggac 394
                   || |    || || |||||||| ||||| || | ||||||||||||| |||| |||||
Sbjct: 143573707 aatcct----aataaactgtgtgaactgcaacctgaggagaagtgctgtatggtggggac 143573762

                                                                             
Query: 395       cctcttcaaggccatgcagctccagccctccatcctgcgggaagtcagcgaagagcacaa 454
                 ||||||||||||||||| |||||||||||||| |||| |||| ||||| | |||||||||
Sbjct: 143573763 cctcttcaaggccatgccgctccagccctccaccctgagggaggtcagtgtagagcacaa 143573822

                                                                             
Query: 455       cctgctcccccagcctcctcggagcaaatacatccacccggatgacgagctgatcttgga 514
                  ||| |||||||||||||  ||||||||||||||| ||| ||       |||||  ||||
Sbjct: 143573823 tctgttcccccagcctccctggagcaaatacatcctcccaga-------ctgattgtgga 143573875

                                                                             
Query: 515       agatgaattgcagcgcatcaaactggagggcgccattgacgtgtccaagctggtcacagg 574
                 ||| ||| |||| |  | |||||| || ||| ||| ||| ||| | ||||||| ||||||
Sbjct: 143573876 agaggaactgcaacatagcaaactagaaggcaccactgatgtgccaaagctgggcacagg 143573935

                                                                             
Query: 575       gacggtcctggccctgctgggctccgcgggggatgacgggaagttcctggtggaggacca 634
                 || |||||||| | |||||||||  || || | |||| || |||||||| ||||||||||
Sbjct: 143573936 gatggtcctggacatgctgggctaggcaggaggtgacaggcagttcctgatggaggacca 143573995

                                                                             
Query: 635       ctgctttgcagggcttgcccctcagaagcccacacgccccctcgacacagacaggtttgt 694
                 ||| |||||||| || |||||||||||||| ||||||| ||| |||||||| | ||||||
Sbjct: 143573996 ctgttttgcaggcctcgcccctcagaagcctacacgcctccttgacacagaaaagtttgt 143574055

                                                                             
Query: 695       gttgctggtgtctggtctgggcctgggtggaggcgggggtgagagcctgctgggcaccca 754
                 | |||| ||||| || |||||||| ||||||| | |||||||||||||||||||||||||
Sbjct: 143574056 gctgctagtgtccggcctgggcctcggtggagacaggggtgagagcctgctgggcaccca 143574115

                                                                             
Query: 755       gctgctggtggacgtggtgacggggcagcttggagacgaaggggagtagtgcagtgccgc 814
                 |||||||||||| |||||||||||||||| ||| || ||||||||     ||||||| ||
Sbjct: 143574116 gctgctggtggatgtggtgacggggcagcctggggaagaagggga-----gcagtgctgc 143574170

                                                                             
Query: 815       ccacgtctcccgggtcatcctcgccgggaacctcctcagccataacacccagagcagaga 874
                  ||| |||||| |||||||||| || |||||||||| ||||| ||||  ||||||| |||
Sbjct: 143574171 tcacatctccctggtcatcctcaccaggaacctcctgagccacaacatgcagagcaaaga 143574230

                                                                             
Query: 875       ttccatcaacaaggccaagtacctgaccaagaagacgcaggcagccagcgtggaggccgt 934
                 ||||||||| ||||||||| |||| |||||||| || ||||||||||| ||||||||| |
Sbjct: 143574231 ttccatcaataaggccaagcacctaaccaagaaaacccaggcagccagagtggaggccat 143574290

                                                                             
Query: 935       caagatgctggacgagatcctcctgcagctgagtgcctccgtgcccgtggacgtgatgcc 994
                 |||||||||||| |||||||| | ||||  ||||||||||| |||| |  | ||||| ||
Sbjct: 143574291 caagatgctggatgagatcctgcagcagtggagtgcctccgggcccataaatgtgatccc 143574350

                                                                  
Query: 995       aggcgaatttgacccgaccaactacacgctcccccagcagcccctgcac 1043
                 ||| |||| |||||| ||  ||||||| || | ||||||||||||||||
Sbjct: 143574351 aggtgaatctgacccaactgactacacacttctccagcagcccctgcac 143574399


  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: 26,181,579
Number of extensions: 200
Number of successful extensions: 200
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 198
Number of HSP's successfully gapped: 12
Length of query: 1067
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1046
Effective length of database: 2,808,413,156
Effective search space: 2937600161176
Effective search space used: 2937600161176
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)