Animal-Genome cDNA 20110601C-001230


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-001230
         (1001 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_001193430.1| chromodomain-helicase-DNA-binding protein 4 ...   227   1e-59
Alignment   gi|XP_002694217.1| PREDICTED: chromodomain helicase DNA binding...   129   3e-30
Alignment   gi|XP_609360.4| PREDICTED: chromodomain helicase DNA binding pr...   129   3e-30

>ref|NP_001193430.1| chromodomain-helicase-DNA-binding protein 4 [Bos taurus].
          Length = 1912

 Score =  227 bits (579), Expect = 1e-59
 Identities = 139/276 (50%), Positives = 142/276 (51%), Gaps = 7/276 (2%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEE+DMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEDDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKE-------LGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXX 532
                     RQKKE       LGDSS             ALRSDSEGSDYTPG       
Sbjct: 61   RDPKIPKSKRQKKERLLLCRQLGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKL 120

Query: 533  XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKA 712
                                           AQLLEDWGMEDIDHVFSEEDYRTLTNYKA
Sbjct: 121  GPKKEKKSKSKRKEEEEEDEDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKA 180

Query: 713  FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXX 892
            FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                 
Sbjct: 181  FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESM 240

Query: 893  XXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                            I +AK KEGK P+ARRKPKG
Sbjct: 241  VTATEVAPPPPPVEVPIRKAKTKEGKGPNARRKPKG 276


>ref|XP_002694217.1| PREDICTED: chromodomain helicase DNA binding protein 5 [Bos taurus].
          Length = 2099

 Score =  129 bits (325), Expect = 3e-30
 Identities = 74/175 (42%), Positives = 88/175 (50%)
 Frame = +2

Query: 476  RSDSEGSDYTPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGME 655
            +S+SEGSDY+P                                        QL+ +WG++
Sbjct: 173  KSESEGSDYSPNKKKKKKLKDKKEKKAKRKKKDDEEDDNEDGCLKEPKSSGQLMAEWGLD 232

Query: 656  DIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGS 835
            D+D++FSE DY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREFS NNPFKGS
Sbjct: 233  DVDYLFSEADYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREFSANNPFKGS 292

Query: 836  SGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
            S                                  I +AK KEGK P  R+K KG
Sbjct: 293  SA-AAAAAAVAAAVETVTIAPPLAISPQQAPQPVPIRKAKTKEGKGPGVRKKIKG 346


>ref|XP_609360.4| PREDICTED: chromodomain helicase DNA binding protein 5 [Bos taurus].
          Length = 2048

 Score =  129 bits (325), Expect = 3e-30
 Identities = 74/175 (42%), Positives = 88/175 (50%)
 Frame = +2

Query: 476  RSDSEGSDYTPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGME 655
            +S+SEGSDY+P                                        QL+ +WG++
Sbjct: 122  KSESEGSDYSPNKKKKKKLKDKKEKKAKRKKKDDEEDDNEDGCLKEPKSSGQLMAEWGLD 181

Query: 656  DIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGS 835
            D+D++FSE DY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREFS NNPFKGS
Sbjct: 182  DVDYLFSEADYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREFSANNPFKGS 241

Query: 836  SGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
            S                                  I +AK KEGK P  R+K KG
Sbjct: 242  SA-AAAAAAVAAAVETVTIAPPLAISPQQAPQPVPIRKAKTKEGKGPGVRKKIKG 295


  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: 28,662,441
Number of extensions: 675268
Number of successful extensions: 2963
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2952
Number of HSP's successfully gapped: 5
Length of query: 333
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 230
Effective length of database: 14,273,310
Effective search space: 3282861300
Effective search space used: 3282861300
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-001230
         (1001 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_867915.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867901.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867887.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867881.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867875.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867867.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867860.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867852.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867844.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62
Alignment   gi|XP_867839.1| PREDICTED: similar to chromodomain helicase DNA...   235   4e-62

>ref|XP_867915.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 24 [Canis familiaris].
          Length = 1892

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867901.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 22 [Canis familiaris].
          Length = 1933

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867887.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 21 [Canis familiaris].
          Length = 1889

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867881.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 20 [Canis familiaris].
          Length = 1850

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867875.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 19 [Canis familiaris].
          Length = 1887

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867867.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 18 [Canis familiaris].
          Length = 1760

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867860.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 17 [Canis familiaris].
          Length = 1910

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867852.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 16 [Canis familiaris].
          Length = 1756

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867844.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 15 [Canis familiaris].
          Length = 1963

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_867839.1| PREDICTED: similar to chromodomain helicase DNA binding protein 4
            isoform 14 [Canis familiaris].
          Length = 1779

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


  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: 29,975,267
Number of extensions: 695274
Number of successful extensions: 2996
Number of sequences better than 1.0e-05: 26
Number of HSP's gapped: 2918
Number of HSP's successfully gapped: 29
Length of query: 333
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 230
Effective length of database: 15,440,896
Effective search space: 3551406080
Effective search space used: 3551406080
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-001230
         (1001 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_001264.2| chromodomain-helicase-DNA-binding protein 4 [Ho...   228   5e-60
Alignment   gi|NP_056372.1| chromodomain-helicase-DNA-binding protein 5 [Ho...   132   6e-31
Alignment   gi|NP_001005273.1| chromodomain-helicase-DNA-binding protein 3 ...   122   4e-28
Alignment   gi|NP_005843.2| chromodomain-helicase-DNA-binding protein 3 iso...   122   4e-28
Alignment   gi|NP_001005271.2| chromodomain-helicase-DNA-binding protein 3 ...   122   4e-28

>ref|NP_001264.2| chromodomain-helicase-DNA-binding protein 4 [Homo sapiens].
          Length = 1912

 Score =  228 bits (582), Expect = 5e-60
 Identities = 140/276 (50%), Positives = 142/276 (51%), Gaps = 7/276 (2%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSETETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKE-------LGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXX 532
                     RQKKE       LGDSS             ALRSDSEGSDYTPG       
Sbjct: 61   RDPKIPKSKRQKKERMLLCRQLGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKL 120

Query: 533  XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKA 712
                                           AQLLEDWGMEDIDHVFSEEDYRTLTNYKA
Sbjct: 121  GPKKEKKSKSKRKEEEEEEDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKA 180

Query: 713  FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXX 892
            FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                 
Sbjct: 181  FSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESM 240

Query: 893  XXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                            I +AK KEGK P+ARRKPKG
Sbjct: 241  VTATEVAPPPPPVEVPIRKAKTKEGKGPNARRKPKG 276


>ref|NP_056372.1| chromodomain-helicase-DNA-binding protein 5 [Homo sapiens].
          Length = 1954

 Score =  132 bits (331), Expect = 6e-31
 Identities = 75/175 (42%), Positives = 89/175 (50%)
 Frame = +2

Query: 476  RSDSEGSDYTPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGME 655
            +S+SEGSDY+P                                        QL+ +WG++
Sbjct: 85   KSESEGSDYSPNKKKKKKLKDKKEKKAKRKKKDEDEDDNDDGCLKEPKSSGQLMAEWGLD 144

Query: 656  DIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGS 835
            D+D++FSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREFS NNPFKGS
Sbjct: 145  DVDYLFSEEDYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREFSANNPFKGS 204

Query: 836  SGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
            S                                  I +AK KEGK P  R+K KG
Sbjct: 205  SA-AAAAAAVAAAVETVTISPPLAVSPPQVPQPVPIRKAKTKEGKGPGVRKKIKG 258


>ref|NP_001005273.1| chromodomain-helicase-DNA-binding protein 3 isoform 1 [Homo
           sapiens].
          Length = 2000

 Score =  122 bits (307), Expect = 4e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 136 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 195

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 196 FSANNPFKGSA 206


>ref|NP_005843.2| chromodomain-helicase-DNA-binding protein 3 isoform 2 [Homo
           sapiens].
          Length = 1966

 Score =  122 bits (307), Expect = 4e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 136 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 195

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 196 FSANNPFKGSA 206


>ref|NP_001005271.2| chromodomain-helicase-DNA-binding protein 3 isoform 3 [Homo
           sapiens].
          Length = 2059

 Score =  122 bits (307), Expect = 4e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 195 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 254

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 255 FSANNPFKGSA 265


  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: 29,268,191
Number of extensions: 677714
Number of successful extensions: 2875
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 2869
Number of HSP's successfully gapped: 6
Length of query: 333
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 230
Effective length of database: 14,901,872
Effective search space: 3427430560
Effective search space used: 3427430560
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-001230
         (1001 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_666091.1| chromodomain-helicase-DNA-binding protein 4 [Mu...   235   4e-62
Alignment   gi|NP_001074845.1| chromodomain helicase DNA binding protein 5 ...   127   1e-29
Alignment   gi|NP_083492.2| chromodomain helicase DNA binding protein 5 iso...   127   1e-29
Alignment   gi|NP_666131.2| chromodomain helicase DNA binding protein 3 [Mu...   122   3e-28

>ref|NP_666091.1| chromodomain-helicase-DNA-binding protein 4 [Mus musculus].
          Length = 1915

 Score =  235 bits (600), Expect = 4e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPDEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEEDEDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|NP_001074845.1| chromodomain helicase DNA binding protein 5 isoform 1 [Mus musculus].
          Length = 1952

 Score =  127 bits (319), Expect = 1e-29
 Identities = 66/124 (53%), Positives = 78/124 (62%)
 Frame = +2

Query: 629  QLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREF 808
            QL+ +WG++D+D++FSE+DY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREF
Sbjct: 139  QLMAEWGLDDVDYLFSEDDYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREF 198

Query: 809  STNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARR 988
            S NNPFKGSS                                  I +AK KEGK P  R+
Sbjct: 199  SANNPFKGSSA-AAAAAAVAAAVETVTIAPPLAISPQQVPQTLPIRKAKTKEGKGPGVRK 257

Query: 989  KPKG 1000
            K KG
Sbjct: 258  KNKG 261


>ref|NP_083492.2| chromodomain helicase DNA binding protein 5 isoform 2 [Mus musculus].
          Length = 1915

 Score =  127 bits (319), Expect = 1e-29
 Identities = 66/124 (53%), Positives = 78/124 (62%)
 Frame = +2

Query: 629  QLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREF 808
            QL+ +WG++D+D++FSE+DY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREF
Sbjct: 139  QLMAEWGLDDVDYLFSEDDYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREF 198

Query: 809  STNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARR 988
            S NNPFKGSS                                  I +AK KEGK P  R+
Sbjct: 199  SANNPFKGSSA-AAAAAAVAAAVETVTIAPPLAISPQQVPQTLPIRKAKTKEGKGPGVRK 257

Query: 989  KPKG 1000
            K KG
Sbjct: 258  KNKG 261


>ref|NP_666131.2| chromodomain helicase DNA binding protein 3 [Mus musculus].
          Length = 2021

 Score =  122 bits (307), Expect = 3e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 188 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 247

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 248 FSANNPFKGSA 258


  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: 24,612,773
Number of extensions: 557553
Number of successful extensions: 2320
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 2312
Number of HSP's successfully gapped: 6
Length of query: 333
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 231
Effective length of database: 12,553,887
Effective search space: 2899947897
Effective search space used: 2899947897
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-001230
         (1001 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_003126577.2| PREDICTED: chromodomain-helicase-DNA-binding...   235   3e-62
Alignment   gi|XP_003127574.2| PREDICTED: chromodomain-helicase-DNA-binding...   130   1e-30
Alignment   gi|XP_003131999.1| PREDICTED: chromodomain-helicase-DNA-binding...   122   2e-28
Alignment   gi|XP_003132000.1| PREDICTED: chromodomain-helicase-DNA-binding...   122   2e-28

>ref|XP_003126577.2| PREDICTED: chromodomain-helicase-DNA-binding protein 4 [Sus scrofa].
          Length = 1295

 Score =  235 bits (600), Expect = 3e-62
 Identities = 140/269 (52%), Positives = 142/269 (52%)
 Frame = +2

Query: 194  MASGLGSPSPCSAGSEEEDMDALLNNSLXXXXXXXXXXXXXXXXXXXTXXXXXXXXXXXX 373
            MASGLGSPSPCSAGSEEEDMDALLNNSL                   T            
Sbjct: 1    MASGLGSPSPCSAGSEEEDMDALLNNSLPPPHPENEEDPEEDLSEAETPKLKKKKKPKKP 60

Query: 374  XXXXXXXXXRQKKELGDSSXXXXXXXXXXXXXALRSDSEGSDYTPGXXXXXXXXXXXXXX 553
                     RQKKELGDSS             ALRSDSEGSDYTPG              
Sbjct: 61   RDPKIPKSKRQKKELGDSSGEGPEFVEEEEEVALRSDSEGSDYTPGKKKKKKLGPKKEKK 120

Query: 554  XXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 733
                                    AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP
Sbjct: 121  SKSKRKEEEEEDDDDDDSKEPKSSAQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRP 180

Query: 734  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGXXXXXXXXXXXXXXXXXXXXXXXX 913
            LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSG                        
Sbjct: 181  LIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGSSGASVAAAAAAAVAVVESMVTATEVA 240

Query: 914  XXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
                     I +AK KEGK P+ARRKPKG
Sbjct: 241  PPPPPVEVPIRKAKTKEGKGPNARRKPKG 269


>ref|XP_003127574.2| PREDICTED: chromodomain-helicase-DNA-binding protein 5 [Sus scrofa].
          Length = 2054

 Score =  130 bits (326), Expect = 1e-30
 Identities = 74/175 (42%), Positives = 88/175 (50%)
 Frame = +2

Query: 476  RSDSEGSDYTPGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAQLLEDWGME 655
            +S+SEGSDY+P                                        QL+ +WG++
Sbjct: 106  KSESEGSDYSPNKKKKKKLKDKKEKKAKRKKKDDDEDDNDDGCLKEPKSSGQLMAEWGLD 165

Query: 656  DIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWREFSTNNPFKGS 835
            D+D++FSE DY TLTNYKAFSQF+RPLIA KNPKI +SKMM VLGAKWREFS NNPFKGS
Sbjct: 166  DVDYLFSEADYHTLTNYKAFSQFLRPLIAKKNPKIPMSKMMTVLGAKWREFSANNPFKGS 225

Query: 836  SGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIPQAKDKEGKSPHARRKPKG 1000
            S                                  I +AK KEGK P  R+K KG
Sbjct: 226  SA-AAAAAAVAAAVETVTIAPPLTISPQQAPQPVPIRKAKTKEGKGPGVRKKVKG 279


>ref|XP_003131999.1| PREDICTED: chromodomain-helicase-DNA-binding protein 3 isoform 1
           [Sus scrofa].
          Length = 1968

 Score =  122 bits (307), Expect = 2e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 136 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 195

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 196 FSANNPFKGSA 206


>ref|XP_003132000.1| PREDICTED: chromodomain-helicase-DNA-binding protein 3 isoform 2
           [Sus scrofa].
          Length = 2002

 Score =  122 bits (307), Expect = 2e-28
 Identities = 56/71 (78%), Positives = 63/71 (88%)
 Frame = +2

Query: 626 AQLLEDWGMEDIDHVFSEEDYRTLTNYKAFSQFVRPLIAAKNPKIAVSKMMMVLGAKWRE 805
           A LL  WG+ED++HVFSEEDY TLTNYKAFSQF+RPLIA KNPKI +SKMM +LGAKWRE
Sbjct: 136 ATLLLTWGLEDVEHVFSEEDYHTLTNYKAFSQFMRPLIAKKNPKIPMSKMMTILGAKWRE 195

Query: 806 FSTNNPFKGSS 838
           FS NNPFKGS+
Sbjct: 196 FSANNPFKGSA 206


  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: 18,557,167
Number of extensions: 438815
Number of successful extensions: 1953
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 1937
Number of HSP's successfully gapped: 5
Length of query: 333
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 234
Effective length of database: 8,879,129
Effective search space: 2077716186
Effective search space used: 2077716186
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-001230
         (1001 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                                                         355   3e-95
Sscrofa_Chr06                                                          72   6e-10

>Sscrofa_Chr05 
||          Length = 111506441

 Score =  355 bits (179), Expect = 3e-95
 Identities = 179/179 (100%)
 Strand = Plus / Minus

                                                                            
Query: 115      gtgactcgggccagtgtcgagggccccaggccgcaggcaggagcagctgggccaattccc 174
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66505618 gtgactcgggccagtgtcgagggccccaggccgcaggcaggagcagctgggccaattccc 66505559

                                                                            
Query: 175      tggccgggagcggaaggggatggcgtcgggcctgggctccccgtccccctgctcagcggg 234
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66505558 tggccgggagcggaaggggatggcgtcgggcctgggctccccgtccccctgctcagcggg 66505499

                                                                           
Query: 235      cagtgaggaggaggatatggatgcacttttgaacaacagcctgcccccaccccacccag 293
                |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66505498 cagtgaggaggaggatatggatgcacttttgaacaacagcctgcccccaccccacccag 66505440



 Score =  297 bits (150), Expect = 6e-78
 Identities = 194/216 (89%)
 Strand = Plus / Minus

                                                                            
Query: 729      gacccctcattgctgccaaaaaccccaagatcgctgtctccaagatgatgatggttttgg 788
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66500930 gacccctcattgctgccaaaaaccccaagatcgctgtctccaagatgatgatggttttgg 66500871

                                                                            
Query: 789      gtgcgaagtggcgggagttcagcaccaacaaccccttcaaaggcagttctggggcttctg 848
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66500870 gtgcgaagtggcgggagttcagcaccaacaaccccttcaaaggcagttctggggcttctg 66500811

                                                                            
Query: 849      tgnnnnnnnnnnnnnnnnnnnnnntggccgtggtggagagcatggtgacggccacagagg 908
                ||                      ||||||||||||||||||||||||||||||||||||
Sbjct: 66500810 tggcagcggcagcagcagcagcagtggccgtggtggagagcatggtgacggccacagagg 66500751

                                                    
Query: 909      ttgcaccacctccaccccccgtggaggtgcctatcc 944
                ||||||||||||||||||||||||||||||||||||
Sbjct: 66500750 ttgcaccacctccaccccccgtggaggtgcctatcc 66500715



 Score =  240 bits (121), Expect = 1e-60
 Identities = 121/121 (100%)
 Strand = Plus / Minus

                                                                            
Query: 609      aggagcctaaatcatctgctcagctcttggaagactggggcatggaagacattgaccacg 668
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66501174 aggagcctaaatcatctgctcagctcttggaagactggggcatggaagacattgaccacg 66501115

                                                                            
Query: 669      tgttctcagaggaagattatcgcaccctcaccaactacaaggccttcagccagtttgtcc 728
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66501114 tgttctcagaggaagattatcgcaccctcaccaactacaaggccttcagccagtttgtcc 66501055

                 
Query: 729      g 729
                |
Sbjct: 66501054 g 66501054



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

                                                                            
Query: 291      cagaaaacgaagaggacccggaagaggatttgtccgaagcagagactccaaagctcaaga 350
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66501913 cagaaaacgaagaggacccggaagaggatttgtccgaagcagagactccaaagctcaaga 66501854

                                                                      
Query: 351      agaagaaaaagcctaagaaacctcgggaccctaaaattcctaagagcaagcgcc 404
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66501853 agaagaaaaagcctaagaaacctcgggaccctaaaattcctaagagcaagcgcc 66501800



 Score =  218 bits (110), Expect = 4e-54
 Identities = 110/110 (100%)
 Strand = Plus / Minus

                                                                            
Query: 6        agaggcgacgctggagccggagccattttccccccttcggccgcggcgaggaggagccgg 65
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66506413 agaggcgacgctggagccggagccattttccccccttcggccgcggcgaggaggagccgg 66506354

                                                                  
Query: 66       agcgggagtgacacccggccggaccctgcgcgacctgcggcggctccggg 115
                ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66506353 agcgggagtgacacccggccggaccctgcgcgacctgcggcggctccggg 66506304



 Score =  194 bits (98), Expect = 6e-47
 Identities = 98/98 (100%)
 Strand = Plus / Minus

                                                                            
Query: 414      agctgggggacagctctggggaggggccggagtttgtggaggaggaagaagaggtggctc 473
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 66501580 agctgggggacagctctggggaggggccggagtttgtggaggaggaagaagaggtggctc 66501521

                                                      
Query: 474      tgcgctcagacagtgagggcagcgactatacccccggc 511
                ||||||||||||||||||||||||||||||||||||||
Sbjct: 66501520 tgcgctcagacagtgagggcagcgactatacccccggc 66501483



 Score = 71.9 bits (36), Expect = 6e-10
 Identities = 39/40 (97%)
 Strand = Plus / Minus

                                                        
Query: 577      ggaggaggaggacgacgatgacgatgattcaaaggagcct 616
                ||||||||||||||||||||||||||||||||||| ||||
Sbjct: 66501417 ggaggaggaggacgacgatgacgatgattcaaaggtgcct 66501378


>Sscrofa_Chr06 
||          Length = 157765593

 Score = 71.9 bits (36), Expect = 6e-10
 Identities = 60/68 (88%)
 Strand = Plus / Minus

                                                                            
Query: 767      tccaagatgatgatggttttgggtgcgaagtggcgggagttcagcaccaacaaccccttc 826
                |||||||||||||  ||  ||||||| |||||||||||||||||  ||||||||||||||
Sbjct: 61983483 tccaagatgatgaccgtcctgggtgccaagtggcgggagttcagtgccaacaaccccttc 61983424

                        
Query: 827      aaaggcag 834
                || |||||
Sbjct: 61983423 aagggcag 61983416


  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: 24,027,362
Number of extensions: 340
Number of successful extensions: 340
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 340
Number of HSP's successfully gapped: 9
Length of query: 1001
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 980
Effective length of database: 2,808,413,156
Effective search space: 2752244892880
Effective search space used: 2752244892880
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)