Animal-Genome cDNA 20110601C-003382


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-003382
         (1030 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_002691320.1| PREDICTED: family with sequence similarity 1...    84   2e-16
Alignment   gi|XP_607432.4| PREDICTED: family with sequence similarity 176,...    84   2e-16
Alignment   gi|NP_001185956.1| hypothetical protein LOC516536 [Bos taurus].       62   8e-10
Alignment   gi|XP_002684628.1| PREDICTED: chromosome 21 open reading frame ...    62   8e-10
Alignment   gi|NP_001094741.1| hypothetical protein LOC618094 [Bos taurus].       61   1e-09

>ref|XP_002691320.1| PREDICTED: family with sequence similarity 176, member A-like [Bos
           taurus].
          Length = 97

 Score = 84.3 bits (207), Expect = 2e-16
 Identities = 48/98 (48%), Positives = 49/98 (50%)
 Frame = +2

Query: 632 MRISCHTDCRQPPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTS 811
           MRISCHTDC Q  QK FL+                         RHRRFERTLNKNVFTS
Sbjct: 1   MRISCHTDCCQHSQK-FLKDQESSSNSSDSEDGSLDAASDISVRRHRRFERTLNKNVFTS 59

Query: 812 XXXXXXXXXXXXXXXXXXXXWMNGQPEVPGTRSLNRYY 925
                               WMNGQPEVPGTRSLNRYY
Sbjct: 60  VEELERAQRLEERERIIREIWMNGQPEVPGTRSLNRYY 97


>ref|XP_607432.4| PREDICTED: family with sequence similarity 176, member A-like [Bos
           taurus].
          Length = 97

 Score = 84.3 bits (207), Expect = 2e-16
 Identities = 48/98 (48%), Positives = 49/98 (50%)
 Frame = +2

Query: 632 MRISCHTDCRQPPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTS 811
           MRISCHTDC Q  QK FL+                         RHRRFERTLNKNVFTS
Sbjct: 1   MRISCHTDCCQHSQK-FLKDQESSSNSSDSEDGSLDAASDISVRRHRRFERTLNKNVFTS 59

Query: 812 XXXXXXXXXXXXXXXXXXXXWMNGQPEVPGTRSLNRYY 925
                               WMNGQPEVPGTRSLNRYY
Sbjct: 60  VEELERAQRLEERERIIREIWMNGQPEVPGTRSLNRYY 97


>ref|NP_001185956.1| hypothetical protein LOC516536 [Bos taurus].
          Length = 441

 Score = 62.0 bits (149), Expect = 8e-10
 Identities = 28/53 (52%), Positives = 41/53 (77%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQ 664
           D  ++S+ LAA++++  +PERAAL FVS VC+GL LTL ALV+R+SC  D ++
Sbjct: 301 DGVIVSHSLAAFAYIRAHPERAALLFVSSVCVGLALTLCALVIRVSCTKDFQE 353


>ref|XP_002684628.1| PREDICTED: chromosome 21 open reading frame 63 ortholog [Bos
           taurus].
          Length = 441

 Score = 62.0 bits (149), Expect = 8e-10
 Identities = 28/53 (52%), Positives = 41/53 (77%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQ 664
           D  ++S+ LAA++++  +PERAAL FVS VC+GL LTL ALV+R+SC  D ++
Sbjct: 301 DGVIVSHSLAAFAYIRAHPERAALLFVSSVCVGLALTLCALVIRVSCTKDFQE 353


>ref|NP_001094741.1| hypothetical protein LOC618094 [Bos taurus].
          Length = 168

 Score = 61.2 bits (147), Expect = 1e-09
 Identities = 30/47 (63%), Positives = 34/47 (72%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISC 646
           DM LLSN LAAY+ +  NPE   LYFV GVC GL+LTL  LV+ ISC
Sbjct: 7   DMELLSNSLAAYAHIRANPESFGLYFVLGVCFGLLLTLCLLVISISC 53


  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: 43,526,148
Number of extensions: 1420935
Number of successful extensions: 7501
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 7391
Number of HSP's successfully gapped: 5
Length of query: 343
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 240
Effective length of database: 14,273,310
Effective search space: 3425594400
Effective search space used: 3425594400
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-003382
         (1030 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_540210.1| PREDICTED: hypothetical protein XP_540210 [Cani...   136   4e-32
Alignment   gi|XP_535579.2| PREDICTED: similar to Protein C21orf63 precurso...    65   1e-10

>ref|XP_540210.1| PREDICTED: hypothetical protein XP_540210 [Canis familiaris].
          Length = 170

 Score =  136 bits (342), Expect = 4e-32
 Identities = 72/125 (57%), Positives = 76/125 (60%)
 Frame = +2

Query: 551 SENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQPPQKKFLQXXXXXXXXXXXXXX 730
           +ENPERAALYFVSGVCIGLVLTLAALVMR+SC TDCR  P+KKFLQ              
Sbjct: 46  AENPERAALYFVSGVCIGLVLTLAALVMRLSCRTDCRPRPRKKFLQDRGSSSDSSDSEDG 105

Query: 731 XXXXXXXXXXXRHRRFERTLNKNVFTSXXXXXXXXXXXXXXXXXXXXWMNGQPEVPGTRS 910
                      RHRRFERTLNKNVFTS                    WMNGQP+ PGTRS
Sbjct: 106 SSDTASDISVRRHRRFERTLNKNVFTSAEELERAQRLEERERIIREIWMNGQPDGPGTRS 165

Query: 911 LNRYY 925
           LNRYY
Sbjct: 166 LNRYY 170


>ref|XP_535579.2| PREDICTED: similar to Protein C21orf63 precursor (SUE21) isoform 2
           [Canis familiaris].
          Length = 441

 Score = 65.1 bits (157), Expect = 1e-10
 Identities = 31/52 (59%), Positives = 40/52 (76%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCR 661
           D  ++SN LAA++++  +PERAAL FVS VCIGL LTL ALV+R+SC  D R
Sbjct: 301 DGVIVSNSLAAFAYIRAHPERAALLFVSSVCIGLALTLCALVIRVSCVKDLR 352


  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: 45,459,730
Number of extensions: 1467978
Number of successful extensions: 7552
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 7449
Number of HSP's successfully gapped: 2
Length of query: 343
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 239
Effective length of database: 15,407,560
Effective search space: 3682406840
Effective search space used: 3682406840
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-003382
         (1030 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_115557.1| family with sequence similarity 176, member A [...   178   6e-45
Alignment   gi|NP_001128504.1| family with sequence similarity 176, member ...   178   6e-45
Alignment   gi|NP_478067.2| hypothetical protein LOC59271 precursor [Homo s...    63   4e-10
Alignment   gi|NP_060636.1| hypothetical protein LOC55194 [Homo sapiens].         62   1e-09

>ref|NP_115557.1| family with sequence similarity 176, member A [Homo sapiens].
          Length = 152

 Score =  178 bits (452), Expect = 6e-45
 Identities = 97/156 (62%), Positives = 102/156 (65%)
 Frame = +2

Query: 458 RLPFCYNAELVIPEHVDMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMR 637
           RLP  ++     PEHV+MALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALV+R
Sbjct: 2   RLPLSHS-----PEHVEMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVIR 56

Query: 638 ISCHTDCRQPPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTSXX 817
           ISCHTDCR+ P KKFLQ                         RHRRFERTLNKNVFTS  
Sbjct: 57  ISCHTDCRRRPGKKFLQDRESSSDSSDSEDGSEDTVSDLSVRRHRRFERTLNKNVFTSAE 116

Query: 818 XXXXXXXXXXXXXXXXXXWMNGQPEVPGTRSLNRYY 925
                             WMNGQPEVPGTRSLNRYY
Sbjct: 117 ELERAQRLEERERIIREIWMNGQPEVPGTRSLNRYY 152


>ref|NP_001128504.1| family with sequence similarity 176, member A [Homo sapiens].
          Length = 152

 Score =  178 bits (452), Expect = 6e-45
 Identities = 97/156 (62%), Positives = 102/156 (65%)
 Frame = +2

Query: 458 RLPFCYNAELVIPEHVDMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMR 637
           RLP  ++     PEHV+MALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALV+R
Sbjct: 2   RLPLSHS-----PEHVEMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVIR 56

Query: 638 ISCHTDCRQPPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTSXX 817
           ISCHTDCR+ P KKFLQ                         RHRRFERTLNKNVFTS  
Sbjct: 57  ISCHTDCRRRPGKKFLQDRESSSDSSDSEDGSEDTVSDLSVRRHRRFERTLNKNVFTSAE 116

Query: 818 XXXXXXXXXXXXXXXXXXWMNGQPEVPGTRSLNRYY 925
                             WMNGQPEVPGTRSLNRYY
Sbjct: 117 ELERAQRLEERERIIREIWMNGQPEVPGTRSLNRYY 152


>ref|NP_478067.2| hypothetical protein LOC59271 precursor [Homo sapiens].
          Length = 441

 Score = 63.2 bits (152), Expect = 4e-10
 Identities = 32/52 (61%), Positives = 39/52 (75%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCR 661
           D  L+SN LAA++++  +PERAAL FVS VCIGL LTL ALV+R SC  D R
Sbjct: 301 DGILVSNSLAAFAYIRAHPERAALLFVSSVCIGLALTLCALVIRESCAKDFR 352


>ref|NP_060636.1| hypothetical protein LOC55194 [Homo sapiens].
          Length = 165

 Score = 61.6 bits (148), Expect = 1e-09
 Identities = 46/143 (32%), Positives = 57/143 (39%), Gaps = 7/143 (4%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISC-------HTDCRQ 664
           DM LLSN LAAY+ +  NPE   LYFV GVC GL+LTL  LV+ IS            R+
Sbjct: 7   DMELLSNSLAAYAHIRANPESFGLYFVLGVCFGLLLTLCLLVISISWAPRPRPRGPAQRR 66

Query: 665 PPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTSXXXXXXXXXXX 844
            P+   L+                              +  LN NVFTS           
Sbjct: 67  DPRSSTLEPEDDDEDEEDTVTRLGPDDTLPGPELSAEPDGPLNVNVFTSAEELERAQRLE 126

Query: 845 XXXXXXXXXWMNGQPEVPGTRSL 913
                    W  GQP++ GT +L
Sbjct: 127 ERERILREIWRTGQPDLLGTGTL 149


  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: 44,341,346
Number of extensions: 1416480
Number of successful extensions: 6809
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 6708
Number of HSP's successfully gapped: 4
Length of query: 343
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 240
Effective length of database: 14,901,872
Effective search space: 3576449280
Effective search space used: 3576449280
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-003382
         (1030 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_663545.2| transmembrane protein 166 [Mus musculus].            160   2e-39
Alignment   gi|NP_001186139.1| hypothetical protein LOC70967 isoform 1 [Mus...    65   9e-11
Alignment   gi|NP_081903.1| hypothetical protein LOC70967 isoform 2 [Mus mu...    65   9e-11
Alignment   gi|NP_742157.1| hypothetical protein LOC230752 [Mus musculus].        61   1e-09

>ref|NP_663545.2| transmembrane protein 166 [Mus musculus].
          Length = 156

 Score =  160 bits (404), Expect = 2e-39
 Identities = 88/156 (56%), Positives = 99/156 (63%)
 Frame = +2

Query: 458 RLPFCYNAELVIPEHVDMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMR 637
           +LP   + E V  E + MALLS+ILAA+S++SENPERAALYFVSGVCIGL LTLAALVMR
Sbjct: 2   KLPLSPSTEPVATEPLGMALLSSILAAWSYISENPERAALYFVSGVCIGLFLTLAALVMR 61

Query: 638 ISCHTDCRQPPQKKFLQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTSXX 817
           ISCHTDCR+ P+++ LQ                         RHRRFERTLNKNVFTS  
Sbjct: 62  ISCHTDCRRGPRRRCLQ-DRECSDSSDSEDGSEDTASDLSVRRHRRFERTLNKNVFTSAE 120

Query: 818 XXXXXXXXXXXXXXXXXXWMNGQPEVPGTRSLNRYY 925
                             WMNGQPEVPGTRSLNRYY
Sbjct: 121 ELERAQRLEERERIIREIWMNGQPEVPGTRSLNRYY 156


>ref|NP_001186139.1| hypothetical protein LOC70967 isoform 1 [Mus musculus].
          Length = 440

 Score = 65.1 bits (157), Expect = 9e-11
 Identities = 30/53 (56%), Positives = 42/53 (79%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQ 664
           D  ++SN LAA++++  +PERAAL F+S VCIGL+LTL ALV+R+SC  D R+
Sbjct: 300 DGVIVSNSLAAFAYIRAHPERAALLFMSSVCIGLLLTLCALVIRVSCTKDFRE 352


>ref|NP_081903.1| hypothetical protein LOC70967 isoform 2 [Mus musculus].
          Length = 392

 Score = 65.1 bits (157), Expect = 9e-11
 Identities = 30/53 (56%), Positives = 42/53 (79%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQ 664
           D  ++SN LAA++++  +PERAAL F+S VCIGL+LTL ALV+R+SC  D R+
Sbjct: 252 DGVIVSNSLAAFAYIRAHPERAALLFMSSVCIGLLLTLCALVIRVSCTKDFRE 304


>ref|NP_742157.1| hypothetical protein LOC230752 [Mus musculus].
          Length = 164

 Score = 61.2 bits (147), Expect = 1e-09
 Identities = 30/47 (63%), Positives = 34/47 (72%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISC 646
           DM LLSN LAAY+ +  NPE   LYFV GVC GL+LTL  LV+ ISC
Sbjct: 7   DMELLSNSLAAYAHIRANPESFGLYFVLGVCFGLLLTLCLLVISISC 53


  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: 37,149,007
Number of extensions: 1157786
Number of successful extensions: 5173
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 5118
Number of HSP's successfully gapped: 4
Length of query: 343
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 241
Effective length of database: 12,553,887
Effective search space: 3025486767
Effective search space used: 3025486767
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-003382
         (1030 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_003125029.2| PREDICTED: protein FAM176A-like isoform 2 [S...   172   4e-43
Alignment   gi|XP_003358978.1| PREDICTED: uncharacterized protein C21orf63 ...    63   2e-10
Alignment   gi|XP_003354804.1| PREDICTED: GC-rich sequence DNA-binding fact...    59   4e-09

>ref|XP_003125029.2| PREDICTED: protein FAM176A-like isoform 2 [Sus scrofa].
          Length = 141

 Score =  172 bits (435), Expect = 4e-43
 Identities = 99/141 (70%), Positives = 99/141 (70%), Gaps = 2/141 (1%)
 Frame = +2

Query: 509 MALLSNILAAYSFVSENPERAALY--FVSGVCIGLVLTLAALVMRISCHTDCRQPPQKKF 682
           MALLSNILAAYSFVSENPERAALY  FVSGVCIGLVLTLAALVMRISCHTDCRQPPQKKF
Sbjct: 1   MALLSNILAAYSFVSENPERAALYXYFVSGVCIGLVLTLAALVMRISCHTDCRQPPQKKF 60

Query: 683 LQXXXXXXXXXXXXXXXXXXXXXXXXXRHRRFERTLNKNVFTSXXXXXXXXXXXXXXXXX 862
           LQ                         RHRRFERTLNKNVFTS                 
Sbjct: 61  LQDRESSSNSSDSEDGXXXXXSDISIRRHRRFERTLNKNVFTSAEELERAQRLEERERII 120

Query: 863 XXXWMNGQPEVPGTRSLNRYY 925
              WMNGQPEVPGTRSLNRYY
Sbjct: 121 REIWMNGQPEVPGTRSLNRYY 141


>ref|XP_003358978.1| PREDICTED: uncharacterized protein C21orf63 homolog [Sus scrofa].
          Length = 451

 Score = 63.2 bits (152), Expect = 2e-10
 Identities = 30/53 (56%), Positives = 41/53 (77%)
 Frame = +2

Query: 506 DMALLSNILAAYSFVSENPERAALYFVSGVCIGLVLTLAALVMRISCHTDCRQ 664
           D  ++S+ LAA++++  +PERAAL FVS VCIGL LTL ALV+R+SC  D R+
Sbjct: 311 DGVIVSHSLAAFAYLRAHPERAALLFVSSVCIGLALTLCALVIRVSCTKDFRE 363


>ref|XP_003354804.1| PREDICTED: GC-rich sequence DNA-binding factor-like [Sus scrofa].
          Length = 415

 Score = 58.9 bits (141), Expect = 4e-09
 Identities = 25/25 (100%), Positives = 25/25 (100%)
 Frame = -3

Query: 455 MGHPEEASWRCFSWIKLATLPLFSS 381
           MGHPEEASWRCFSWIKLATLPLFSS
Sbjct: 1   MGHPEEASWRCFSWIKLATLPLFSS 25


  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: 28,168,168
Number of extensions: 923737
Number of successful extensions: 5145
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4954
Number of HSP's successfully gapped: 3
Length of query: 343
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 243
Effective length of database: 8,854,232
Effective search space: 2151578376
Effective search space used: 2151578376
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-003382
         (1030 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_Chr03                                                         527   e-147
gb|GL896025.2| Sus scrofa unplaced genomic scaffold ChrUScaf3909      519   e-145

>Sscrofa_Chr03 
||          Length = 144787322

 Score =  527 bits (266), Expect = e-147
 Identities = 273/274 (99%), Gaps = 1/274 (0%)
 Strand = Plus / Minus

                                                                            
Query: 3        aatgagaca-ccttttcctcccactgactcgtgctcctgcagggtttgtggggttcgcca 61
                ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71027543 aatgagacaaccttttcctcccactgactcgtgctcctgcagggtttgtggggttcgcca 71027484

                                                                            
Query: 62       cggccgcccgtaagtgccgaggccgggaccccgaaccccacgcccggctcggcgggttct 121
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71027483 cggccgcccgtaagtgccgaggccgggaccccgaaccccacgcccggctcggcgggttct 71027424

                                                                            
Query: 122      tcactgggatttctgtccgaggtgcaagtaccgggcccacgccctggccacagctttgtc 181
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71027423 tcactgggatttctgtccgaggtgcaagtaccgggcccacgccctggccacagctttgtc 71027364

                                                                            
Query: 182      gcgtcctcccctttgtgatcggctcccgtccgggcctcggcccccagcaccccaacgcag 241
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71027363 gcgtcctcccctttgtgatcggctcccgtccgggcctcggcccccagcaccccaacgcag 71027304

                                                  
Query: 242      accccggaagtgcacgtcgtcggctctcgttaag 275
                ||||||||||||||||||||||||||||||||||
Sbjct: 71027303 accccggaagtgcacgtcgtcggctctcgttaag 71027270



 Score =  335 bits (169), Expect = 3e-89
 Identities = 172/173 (99%)
 Strand = Plus / Plus

                                                                            
Query: 382      gaagagaagagagggagggtggccaacttgatccagctgaagcatctccaggaggcctcc 441
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71151257 gaagagaagagagggagggtggccaacttgatccagctgaagcatctccaggaggcctcc 71151316

                                                                            
Query: 442      tctggatgtcccatcgaggctgcccttctgctacaacgcggaattggtgatccccgagca 501
                ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 71151317 tctggatgtcccatcgaggctgctcttctgctacaacgcggaattggtgatccccgagca 71151376

                                                                     
Query: 502      cgtggacatggctttgctcagcaatatcctagcagcctattcctttgtctcag 554
                |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71151377 cgtggacatggctttgctcagcaatatcctagcagcctattcctttgtctcag 71151429



 Score =  216 bits (109), Expect = 2e-53
 Identities = 109/109 (100%)
 Strand = Plus / Plus

                                                                            
Query: 274      agagcctgagaagctaactgaggccaatcacatttcagaatctccactgtctgataccag 333
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71143088 agagcctgagaagctaactgaggccaatcacatttcagaatctccactgtctgataccag 71143147

                                                                 
Query: 334      cggtgccaaggatgaactgttctaaccagatgcccctctactcttgatg 382
                |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 71143148 cggtgccaaggatgaactgttctaaccagatgcccctctactcttgatg 71143196


>gb|GL896025.2| Sus scrofa unplaced genomic scaffold ChrUScaf3909
          Length = 21554

 Score =  519 bits (262), Expect = e-145
 Identities = 281/286 (98%), Gaps = 1/286 (0%)
 Strand = Plus / Minus

                                                                        
Query: 746  tccgacatctcgatccggagacatcgccgcttcgagaggactttgaacaagaacgtcttc 805
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9046 tccgacatctcgatccggagacatcgccgcttcgagaggactttgaacaagaacgtcttc 8987

                                                                        
Query: 806  acctcagcggaagagctggagcgcgcccagaggctggaggagcgggaacgcatcatcagg 865
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8986 acctcagcggaagagctggagcgcgcccagaggctggaggagcgggaacgcatcatcagg 8927

                                                                        
Query: 866  gaaatttggatgaatggccagccggaagttcccggcaccagaagcctgaaccgttactac 925
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8926 gaaatttggatgaatggccagccggaagttcccggcaccagaagcctgaaccgttactac 8867

                                                                        
Query: 926  taggggctgggtcaggacccccgcaccgctgttagcctcctgggagacaaagggtc-ccc 984
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 8866 taggggctgggtcaggacccccgcaccgctgttagcctcctgggagacaaagggtccccc 8807

                                                          
Query: 985  cagggaggggggccacaaaaagcccaacggcggtctgctattgcta 1030
            ||||||||| |||||||||||||||||||  | |||||||||||||
Sbjct: 8806 cagggagggtggccacaaaaagcccaacgcggttctgctattgcta 8761



 Score =  321 bits (162), Expect = 4e-85
 Identities = 179/185 (96%), Gaps = 6/185 (3%)
 Strand = Plus / Minus

                                                                        
Query: 552  cagaaaatcccgagcgagcagctttgtact------ttgtctctggcgtgtgcatcgggc 605
            ||||||||||||||||||||||||||||||      ||||||||||||||||||||||||
Sbjct: 9331 cagaaaatcccgagcgagcagctttgtactnntactttgtctctggcgtgtgcatcgggc 9272

                                                                        
Query: 606  tggtcctcaccctggctgccttggtgatgaggatctcttgccacacagactgccggcagc 665
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9271 tggtcctcaccctggctgccttggtgatgaggatctcttgccacacagactgccggcagc 9212

                                                                        
Query: 666  ctccccagaagaagttcctgcaggaccgagaaagcagcagcaacagcagcgacagtgagg 725
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 9211 ctccccagaagaagttcctgcaggaccgagaaagcagcagcaacagcagcgacagtgagg 9152

                 
Query: 726  atggc 730
            |||||
Sbjct: 9151 atggc 9147


  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: 25,623,647
Number of extensions: 309
Number of successful extensions: 309
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 308
Number of HSP's successfully gapped: 6
Length of query: 1030
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1009
Effective length of database: 2,808,413,156
Effective search space: 2833688874404
Effective search space used: 2833688874404
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)