Animal-Genome cDNA 20110601C-002203


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-002203
         (1119 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_001032677.1| UBX domain-containing protein 1 [Bos taurus].     362   e-100
Alignment   gi|NP_001193057.1| ubiquitin-associated and SH3 domain-containi...    62   7e-10
Alignment   gi|XP_002693080.1| PREDICTED: KIAA1959 protein-like [Bos taurus].     62   7e-10
Alignment   gi|XP_002687910.1| PREDICTED: ubiquitin specific peptidase 5 (i...    60   3e-09
Alignment   gi|XP_002687909.1| PREDICTED: ubiquitin specific peptidase 5 (i...    60   3e-09
Alignment   gi|NP_001178985.1| ubiquitin carboxyl-terminal hydrolase 5 [Bos...    59   6e-09
Alignment   gi|XP_002704265.1| PREDICTED: ubiquitin specific peptidase 5 (i...    59   6e-09
Alignment   gi|NP_001030491.2| UBX domain-containing protein 4 [Bos taurus].      56   5e-08
Alignment   gi|NP_001069749.1| ubiquitin-associated domain-containing prote...    55   9e-08
Alignment   gi|NP_001178195.1| ubiquitin carboxyl-terminal hydrolase 13 [Bo...    52   1e-06

>ref|NP_001032677.1| UBX domain-containing protein 1 [Bos taurus].
          Length = 297

 Score =  362 bits (928), Expect = e-100
 Identities = 200/297 (67%), Positives = 207/297 (69%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL 277
           MAELTALESLIEMGFP+GRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL
Sbjct: 1   MAELTALESLIEMGFPKGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL 60

Query: 278 GRXXXXXXXXXXXXXXXAAGEGKPPLSEEERQEQTKRMXXXXXXXXXXXXXXXXXXXXXX 457
           GR               A GEGKP L+EEERQEQTKRM                      
Sbjct: 61  GREPTPSEQGGPKGPGSAVGEGKPVLTEEERQEQTKRMLELVAQKQREREEREEREALER 120

Query: 458 XXXXXXXXXXXSAARQRLQXXXXXXXXXXXXXXXXXXXXXXXXVREKIERDKAERAKKYG 637
                      +AARQRLQ                        VREKIERDKAERAKKYG
Sbjct: 121 ERQRRRQGQELTAARQRLQEDEMRRAAEERRREKAEELEARQRVREKIERDKAERAKKYG 180

Query: 638 GSVGSQXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 817
           G+VGSQ             +SPS+EPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV
Sbjct: 181 GNVGSQPSPPATEPGPVP-SSPSREPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 239

Query: 818 RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVARNVP 988
           RLYVELHRGEELGG QDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVA+  P
Sbjct: 240 RLYVELHRGEELGGAQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVAKKCP 296


>ref|NP_001193057.1| ubiquitin-associated and SH3 domain-containing protein B [Bos
           taurus].
          Length = 649

 Score = 62.4 bits (150), Expect = 7e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           +AL+ L+ MGFPR RA+KALA TG + ++AA DWL  H  DP +D+PL
Sbjct: 39  SALDVLLSMGFPRARAQKALASTGGRSVQAACDWLFSHVGDPFLDDPL 86


>ref|XP_002693080.1| PREDICTED: KIAA1959 protein-like [Bos taurus].
          Length = 649

 Score = 62.4 bits (150), Expect = 7e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           +AL+ L+ MGFPR RA+KALA TG + ++AA DWL  H  DP +D+PL
Sbjct: 39  SALDVLLSMGFPRARAQKALASTGGRSVQAACDWLFSHVGDPFLDDPL 86


>ref|XP_002687910.1| PREDICTED: ubiquitin specific peptidase 5 (isopeptidase T) isoform
           2 [Bos taurus].
          Length = 835

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 631 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 685


>ref|XP_002687909.1| PREDICTED: ubiquitin specific peptidase 5 (isopeptidase T) isoform
           1 [Bos taurus].
          Length = 858

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 708


>ref|NP_001178985.1| ubiquitin carboxyl-terminal hydrolase 5 [Bos taurus].
          Length = 858

 Score = 59.3 bits (142), Expect = 6e-09
 Identities = 26/55 (47%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G +AAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGADAAMNWVMSHMDDPDFANPLILP 708


>ref|XP_002704265.1| PREDICTED: ubiquitin specific peptidase 5 (isopeptidase T) [Bos
           taurus].
          Length = 835

 Score = 59.3 bits (142), Expect = 6e-09
 Identities = 26/55 (47%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G +AAM+W+M H DDPD   PL  P
Sbjct: 631 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGADAAMNWVMSHMDDPDFANPLILP 685


>ref|NP_001030491.2| UBX domain-containing protein 4 [Bos taurus].
          Length = 508

 Score = 56.2 bits (134), Expect = 5e-08
 Identities = 40/139 (28%), Positives = 65/139 (46%), Gaps = 1/139 (0%)
 Frame = +2

Query: 587  VREKIERDKAERAKKYGGSVGS-QXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLP 763
            ++++I  D+AERA ++  +    +                 +E  TK      RIQ RLP
Sbjct: 268  IKQQIALDRAERAARFAKTKEEVEAAKAAALLAKQAEMEIKRETSTKERSTVARIQFRLP 327

Query: 764  DGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQEL 943
            DG+S T  F +   L   R +      + +G       L + FPRR F++ D ++ L +L
Sbjct: 328  DGSSFTNQFPSDAPLEEARQFA----AQTVGNTYGNFSLATMFPRREFTKEDYKKKLLDL 383

Query: 944  GLVPSAVLIVARNVPAERP 1000
             L PSA +++   +PA RP
Sbjct: 384  ELAPSASVVL---LPAGRP 399


>ref|NP_001069749.1| ubiquitin-associated domain-containing protein 1 [Bos taurus].
          Length = 402

 Score = 55.5 bits (132), Expect = 9e-08
 Identities = 27/50 (54%), Positives = 32/50 (64%)
 Frame = +2

Query: 113 ALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           AL  L EMGFP  RA KAL L  +  +  AM+WL+EH DDP +D PL  P
Sbjct: 196 ALRQLTEMGFPETRAAKALRLN-HMSVPQAMEWLIEHADDPTIDTPLPGP 244


>ref|NP_001178195.1| ubiquitin carboxyl-terminal hydrolase 13 [Bos taurus].
          Length = 863

 Score = 51.6 bits (122), Expect = 1e-06
 Identities = 22/51 (43%), Positives = 31/51 (60%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           +++  L EMGFP     KA+  TGN G E A +W++ H ++PD  EPL  P
Sbjct: 656 SSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIVVHMEEPDFAEPLTMP 706


  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: 38,330,527
Number of extensions: 1120471
Number of successful extensions: 6028
Number of sequences better than 1.0e-05: 11
Number of HSP's gapped: 5973
Number of HSP's successfully gapped: 11
Length of query: 373
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 269
Effective length of database: 14,240,222
Effective search space: 3830619718
Effective search space used: 3830619718
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 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-002203
         (1119 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_533263.2| PREDICTED: similar to DNA segment, Chr 19, ERAT...   351   6e-99
Alignment   gi|XP_543845.2| PREDICTED: similar to Ubiquitin carboxyl-termin...    60   3e-09
Alignment   gi|XP_867414.1| PREDICTED: similar to Ubiquitin isopeptidase T ...    60   3e-09
Alignment   gi|XP_867393.1| PREDICTED: similar to Ubiquitin isopeptidase T ...    60   3e-09
Alignment   gi|XP_856681.1| PREDICTED: similar to UBX domain containing 2 i...    54   2e-07
Alignment   gi|XP_533337.2| PREDICTED: similar to UBX domain containing 2 i...    54   2e-07
Alignment   gi|XP_548377.2| PREDICTED: similar to ubiquitin associated doma...    54   4e-07
Alignment   gi|XP_848990.1| PREDICTED: similar to ubiquitin associated doma...    54   4e-07
Alignment   gi|XP_535813.2| PREDICTED: similar to Ubiquitin carboxyl-termin...    52   1e-06
Alignment   gi|XP_544904.2| PREDICTED: similar to ubiquitin associated and ...    51   2e-06

>ref|XP_533263.2| PREDICTED: similar to DNA segment, Chr 19, ERATO Doi 721, expressed
           [Canis familiaris].
          Length = 396

 Score =  351 bits (901), Expect(2) = 6e-99
 Identities = 196/298 (65%), Positives = 203/298 (68%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL 277
           MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHED+PDVDEPL TPLG  L
Sbjct: 101 MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDEPDVDEPLPTPLGRAL 160

Query: 278 GRXXXXXXXXXXXXXXXAAGEGKPPLSEEERQEQTKRMXXXXXXXXXXXXXXXXXXXXXX 457
           GR                 GEGKP LSEEERQEQTKRM                      
Sbjct: 161 GREPTVSEQSGPEGTGSTGGEGKPVLSEEERQEQTKRMLELVAQKQREREEREEREALER 220

Query: 458 XXXXXXXXXXXSAARQRLQXXXXXXXXXXXXXXXXXXXXXXXXVREKIERDKAERAKKYG 637
                      SAARQRLQ                        VREKIERDKAERAKKYG
Sbjct: 221 ERQRRKQGQELSAARQRLQEDEMRRAAEERRREKAEELAARQRVREKIERDKAERAKKYG 280

Query: 638 GSVGSQXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 817
           G+VGS+             +SPSQEPP+KREYDQCRIQVRLPDGTSLTQTFRAREQLAAV
Sbjct: 281 GNVGSRPSPPTEPGPVP--SSPSQEPPSKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 338

Query: 818 RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVARNVPA 991
           RLYVELHRGEE GG QDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVA+  P+
Sbjct: 339 RLYVELHRGEEPGGDQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVAKKCPS 396



 Score = 29.3 bits (64), Expect(2) = 6e-99
 Identities = 12/14 (85%), Positives = 12/14 (85%)
 Frame = +3

Query: 9   GHFRFPRAFFSSVS 50
           GHFRFP AFF SVS
Sbjct: 71  GHFRFPSAFFPSVS 84


>ref|XP_543845.2| PREDICTED: similar to Ubiquitin carboxyl-terminal hydrolase 5
           (Ubiquitin thiolesterase 5) (Ubiquitin-specific
           processing protease 5) (Deubiquitinating enzyme 5)
           (Isopeptidase T) isoform 1 [Canis familiaris].
          Length = 858

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 708


>ref|XP_867414.1| PREDICTED: similar to Ubiquitin isopeptidase T isoform 4 [Canis
           familiaris].
          Length = 810

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 606 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 660


>ref|XP_867393.1| PREDICTED: similar to Ubiquitin isopeptidase T isoform 2 [Canis
           familiaris].
          Length = 835

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 631 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 685


>ref|XP_856681.1| PREDICTED: similar to UBX domain containing 2 isoform 3 [Canis
            familiaris].
          Length = 460

 Score = 54.3 bits (129), Expect = 2e-07
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 1/139 (0%)
 Frame = +2

Query: 587  VREKIERDKAERAKKYGGSVGS-QXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLP 763
            ++++I  D+AERA ++  +    +                 ++  T+      RIQ RLP
Sbjct: 221  IKQQIALDRAERAARFAKTKEEVEAAKAAALQAKQAEMEVKRDSSTRERSTVARIQFRLP 280

Query: 764  DGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQEL 943
            DG+S T  F +   L   R +     G   G       L + FPRR F++ D ++ L +L
Sbjct: 281  DGSSFTNQFPSDAPLEEARQFAAQTVGNTYGN----FSLATMFPRREFTKEDYKKKLLDL 336

Query: 944  GLVPSAVLIVARNVPAERP 1000
             L PSA +++   +PA RP
Sbjct: 337  ELAPSASVVL---LPAGRP 352


>ref|XP_533337.2| PREDICTED: similar to UBX domain containing 2 isoform 1 [Canis
            familiaris].
          Length = 472

 Score = 54.3 bits (129), Expect = 2e-07
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 1/139 (0%)
 Frame = +2

Query: 587  VREKIERDKAERAKKYGGSVGS-QXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLP 763
            ++++I  D+AERA ++  +    +                 ++  T+      RIQ RLP
Sbjct: 233  IKQQIALDRAERAARFAKTKEEVEAAKAAALQAKQAEMEVKRDSSTRERSTVARIQFRLP 292

Query: 764  DGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQEL 943
            DG+S T  F +   L   R +     G   G       L + FPRR F++ D ++ L +L
Sbjct: 293  DGSSFTNQFPSDAPLEEARQFAAQTVGNTYGN----FSLATMFPRREFTKEDYKKKLLDL 348

Query: 944  GLVPSAVLIVARNVPAERP 1000
             L PSA +++   +PA RP
Sbjct: 349  ELAPSASVVL---LPAGRP 364


>ref|XP_548377.2| PREDICTED: similar to ubiquitin associated domain containing 1
           isoform 1 [Canis familiaris].
          Length = 373

 Score = 53.5 bits (127), Expect = 4e-07
 Identities = 25/47 (53%), Positives = 31/47 (65%)
 Frame = +2

Query: 113 ALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           AL  L EMGFP  RA KAL L  +  +  AM+WL+EH +DP +D PL
Sbjct: 158 ALRQLTEMGFPESRAAKALRLN-HMSVPQAMEWLIEHAEDPTIDSPL 203


>ref|XP_848990.1| PREDICTED: similar to ubiquitin associated domain containing 1
           isoform 2 [Canis familiaris].
          Length = 439

 Score = 53.5 bits (127), Expect = 4e-07
 Identities = 25/47 (53%), Positives = 31/47 (65%)
 Frame = +2

Query: 113 ALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           AL  L EMGFP  RA KAL L  +  +  AM+WL+EH +DP +D PL
Sbjct: 198 ALRQLTEMGFPESRAAKALRLN-HMSVPQAMEWLIEHAEDPTIDSPL 243


>ref|XP_535813.2| PREDICTED: similar to Ubiquitin carboxyl-terminal hydrolase 13
           (Ubiquitin thiolesterase 13) (Ubiquitin-specific
           processing protease 13) (Deubiquitinating enzyme 13)
           (Isopeptidase T-3) (ISOT-3) [Canis familiaris].
          Length = 863

 Score = 51.6 bits (122), Expect = 1e-06
 Identities = 22/51 (43%), Positives = 31/51 (60%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           +++  L EMGFP     KA+  TGN G E A +W++ H ++PD  EPL  P
Sbjct: 656 SSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEPLTMP 706


>ref|XP_544904.2| PREDICTED: similar to ubiquitin associated and SH3 domain
           containing, A short form [Canis familiaris].
          Length = 624

 Score = 50.8 bits (120), Expect = 2e-06
 Identities = 23/46 (50%), Positives = 31/46 (67%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           L++L+ MGFP   A KALA TG +  E A DWL  H +DP +D+P+
Sbjct: 25  LDTLLGMGFPAHTALKALAATGRKTAEEASDWLRCHRNDPSLDDPI 70


  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: 40,067,731
Number of extensions: 1139426
Number of successful extensions: 6258
Number of sequences better than 1.0e-05: 10
Number of HSP's gapped: 6210
Number of HSP's successfully gapped: 11
Length of query: 373
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 269
Effective length of database: 15,407,560
Effective search space: 4144633640
Effective search space used: 4144633640
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-002203
         (1119 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_056937.2| UBX domain-containing protein 1 [Homo sapiens].      351   8e-97
Alignment   gi|NP_116262.2| ubiquitin-associated and SH3 domain-containing ...    62   7e-10
Alignment   gi|NP_003472.2| ubiquitin carboxyl-terminal hydrolase 5 isoform...    60   3e-09
Alignment   gi|NP_001092006.1| ubiquitin carboxyl-terminal hydrolase 5 isof...    60   3e-09
Alignment   gi|NP_057256.2| ubiquitin-associated domain-containing protein ...    53   4e-07
Alignment   gi|NP_055422.1| UBX domain-containing protein 4 [Homo sapiens].       53   6e-07
Alignment   gi|NP_003931.2| ubiquitin carboxyl-terminal hydrolase 13 [Homo ...    52   1e-06
Alignment   gi|NP_001230396.1| ubiquitin-associated and SH3 domain-containi...    49   6e-06
Alignment   gi|NP_001001895.1| ubiquitin-associated and SH3 domain-containi...    49   6e-06
Alignment   gi|NP_061834.1| ubiquitin-associated and SH3 domain-containing ...    49   6e-06

>ref|NP_056937.2| UBX domain-containing protein 1 [Homo sapiens].
          Length = 312

 Score =  351 bits (900), Expect = 8e-97
 Identities = 194/284 (68%), Positives = 197/284 (69%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL 277
           MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL TPLGH+L
Sbjct: 1   MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLETPLGHIL 60

Query: 278 GRXXXXXXXXXXXXXXXAAGEGKPPLSEEERQEQTKRMXXXXXXXXXXXXXXXXXXXXXX 457
           GR               AAGEGKP LSEEERQEQTKRM                      
Sbjct: 61  GREPTSSEQGGLEGSGSAAGEGKPALSEEERQEQTKRMLELVAQKQREREEREEREALER 120

Query: 458 XXXXXXXXXXXSAARQRLQXXXXXXXXXXXXXXXXXXXXXXXXVREKIERDKAERAKKYG 637
                      SAARQRLQ                        VREKIERDKAERAKKYG
Sbjct: 121 ERQRRRQGQELSAARQRLQEDEMRRAAEERRREKAEELAARQRVREKIERDKAERAKKYG 180

Query: 638 GSVGSQXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 817
           GSVGSQ             +SPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV
Sbjct: 181 GSVGSQPPPVAPEPGPVP-SSPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 239

Query: 818 RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELGL 949
           RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELG+
Sbjct: 240 RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELGM 283


>ref|NP_116262.2| ubiquitin-associated and SH3 domain-containing protein B [Homo
           sapiens].
          Length = 649

 Score = 62.4 bits (150), Expect = 7e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           +AL+ L+ MGFPR RA+KALA TG + ++AA DWL  H  DP +D+PL
Sbjct: 39  SALDVLLSMGFPRARAQKALASTGGRSVQAACDWLFSHVGDPFLDDPL 86


>ref|NP_003472.2| ubiquitin carboxyl-terminal hydrolase 5 isoform 2 [Homo sapiens].
          Length = 835

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 631 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 685


>ref|NP_001092006.1| ubiquitin carboxyl-terminal hydrolase 5 isoform 1 [Homo sapiens].
          Length = 858

 Score = 60.5 bits (145), Expect = 3e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 708


>ref|NP_057256.2| ubiquitin-associated domain-containing protein 1 [Homo sapiens].
          Length = 405

 Score = 53.1 bits (126), Expect = 4e-07
 Identities = 25/47 (53%), Positives = 31/47 (65%)
 Frame = +2

Query: 113 ALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           AL  L EMGFP  RA KAL L  +  +  AM+WL+EH +DP +D PL
Sbjct: 196 ALRQLTEMGFPENRATKALQLN-HMSVPQAMEWLIEHAEDPTIDTPL 241


>ref|NP_055422.1| UBX domain-containing protein 4 [Homo sapiens].
          Length = 508

 Score = 52.8 bits (125), Expect = 6e-07
 Identities = 39/139 (28%), Positives = 63/139 (45%), Gaps = 1/139 (0%)
 Frame = +2

Query: 587  VREKIERDKAERAKKYGGSVGS-QXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLP 763
            ++++I  D+AERA ++  +    +                 +E   +      RIQ RLP
Sbjct: 268  IKQQIALDRAERAARFAKTKEEVEAAKAAALLAKQAEMEVKRESYARERSTVARIQFRLP 327

Query: 764  DGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQEL 943
            DG+S T  F +   L   R +     G   G       L + FPRR F++ D ++ L +L
Sbjct: 328  DGSSFTNQFPSDAPLEEARQFAAQTVGNTYGN----FSLATMFPRREFTKEDYKKKLLDL 383

Query: 944  GLVPSAVLIVARNVPAERP 1000
             L PSA +++   +PA RP
Sbjct: 384  ELAPSASVVL---LPAGRP 399


>ref|NP_003931.2| ubiquitin carboxyl-terminal hydrolase 13 [Homo sapiens].
          Length = 863

 Score = 51.6 bits (122), Expect = 1e-06
 Identities = 22/51 (43%), Positives = 31/51 (60%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           +++  L EMGFP     KA+  TGN G E A +W++ H ++PD  EPL  P
Sbjct: 656 SSVMQLAEMGFPLEACRKAVYFTGNMGAEVAFNWIIVHMEEPDFAEPLTMP 706


>ref|NP_001230396.1| ubiquitin-associated and SH3 domain-containing protein A isoform 3
           [Homo sapiens].
          Length = 526

 Score = 49.3 bits (116), Expect = 6e-06
 Identities = 23/46 (50%), Positives = 31/46 (67%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           LE L+ MGFP   A KALA TG +  E A+ WL +H +DP +D+P+
Sbjct: 25  LEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPI 70


>ref|NP_001001895.1| ubiquitin-associated and SH3 domain-containing protein A isoform 2
           [Homo sapiens].
          Length = 623

 Score = 49.3 bits (116), Expect = 6e-06
 Identities = 23/46 (50%), Positives = 31/46 (67%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           LE L+ MGFP   A KALA TG +  E A+ WL +H +DP +D+P+
Sbjct: 25  LEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPI 70


>ref|NP_061834.1| ubiquitin-associated and SH3 domain-containing protein A isoform 1
           [Homo sapiens].
          Length = 661

 Score = 49.3 bits (116), Expect = 6e-06
 Identities = 23/46 (50%), Positives = 31/46 (67%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           LE L+ MGFP   A KALA TG +  E A+ WL +H +DP +D+P+
Sbjct: 25  LEPLLAMGFPVHTALKALAATGRKTAEEALAWLHDHCNDPSLDDPI 70


  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: 38,986,251
Number of extensions: 1092283
Number of successful extensions: 5671
Number of sequences better than 1.0e-05: 10
Number of HSP's gapped: 5614
Number of HSP's successfully gapped: 10
Length of query: 373
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 269
Effective length of database: 14,868,908
Effective search space: 3999736252
Effective search space used: 3999736252
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-002203
         (1119 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_666205.1| UBX domain-containing protein 1 [Mus musculus].      350   1e-96
Alignment   gi|NP_789830.1| ubiquitin-associated and SH3 domain-containing ...    62   6e-10
Alignment   gi|NP_038728.1| ubiquitin carboxyl-terminal hydrolase 5 [Mus mu...    60   2e-09
Alignment   gi|NP_080666.2| UBX domain-containing protein 4 [Mus musculus].       58   1e-08
Alignment   gi|NP_598596.2| ubiquitin-associated domain-containing protein ...    55   8e-08
Alignment   gi|NP_001013042.1| ubiquitin carboxyl-terminal hydrolase 13 [Mu...    53   5e-07
Alignment   gi|NP_808491.2| ubiquitin associated and SH3 domain containing,...    51   1e-06

>ref|NP_666205.1| UBX domain-containing protein 1 [Mus musculus].
          Length = 297

 Score =  350 bits (898), Expect = 1e-96
 Identities = 196/298 (65%), Positives = 203/298 (68%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATPLGHVL 277
           MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL TPL HVL
Sbjct: 1   MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLETPLSHVL 60

Query: 278 GRXXXXXXXXXXXXXXXAAGEGKPPLSEEERQEQTKRMXXXXXXXXXXXXXXXXXXXXXX 457
           GR               AAGE +P L+EEERQEQTKRM                      
Sbjct: 61  GREPTPSEQVGPEGSGSAAGESRPILTEEERQEQTKRMLELVAQKQREREEREEREALER 120

Query: 458 XXXXXXXXXXXSAARQRLQXXXXXXXXXXXXXXXXXXXXXXXXVREKIERDKAERAKKYG 637
                      S ARQ+LQ                        VREKIERDKAERAKKYG
Sbjct: 121 EKQRRRQGQELSVARQKLQEDEMRRAAEERRREKAEELAARQRVREKIERDKAERAKKYG 180

Query: 638 GSVGSQXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 817
           GSVGS+             +SPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV
Sbjct: 181 GSVGSRSSPPATDPGPVP-SSPSQEPPTKREYDQCRIQVRLPDGTSLTQTFRAREQLAAV 239

Query: 818 RLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVARNVPA 991
           RLYVELHRGEE G  QDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVA+  P+
Sbjct: 240 RLYVELHRGEEPGQDQDPVQLLSGFPRRAFSEADMERPLQELGLVPSAVLIVAKKCPS 297


>ref|NP_789830.1| ubiquitin-associated and SH3 domain-containing protein B [Mus
           musculus].
          Length = 638

 Score = 62.4 bits (150), Expect = 6e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           +AL+ L+ MGFPR RA+KALA TG + ++AA DWL  H  DP +D+PL
Sbjct: 28  SALDVLLSMGFPRARAQKALASTGGRSVQAACDWLFSHVGDPFLDDPL 75


>ref|NP_038728.1| ubiquitin carboxyl-terminal hydrolase 5 [Mus musculus].
          Length = 858

 Score = 60.5 bits (145), Expect = 2e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 708


>ref|NP_080666.2| UBX domain-containing protein 4 [Mus musculus].
          Length = 506

 Score = 58.2 bits (139), Expect = 1e-08
 Identities = 40/138 (28%), Positives = 63/138 (45%)
 Frame = +2

Query: 587  VREKIERDKAERAKKYGGSVGSQXXXXXXXXXXXXXASPSQEPPTKREYDQCRIQVRLPD 766
            ++++I  D+AERA ++  +  ++                 +E   +      RIQ RLPD
Sbjct: 267  IKQQIALDRAERAARFAKTKEAEAAKAAALLTKQAGTEVKRESTARDRSTIARIQFRLPD 326

Query: 767  GTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRRAFSEADMERPLQELG 946
            G+S T  F +   L   R +     G   G       L + FPRR F+  D +R L +L 
Sbjct: 327  GSSFTNQFPSDAPLEEARQFAAQTVGNTYGN----FSLATMFPRREFTREDYKRRLLDLE 382

Query: 947  LVPSAVLIVARNVPAERP 1000
            L PSA +++   +PA RP
Sbjct: 383  LAPSASVVL---LPAGRP 397


>ref|NP_598596.2| ubiquitin-associated domain-containing protein 1 [Mus musculus].
          Length = 409

 Score = 55.5 bits (132), Expect = 8e-08
 Identities = 26/48 (54%), Positives = 32/48 (66%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           TAL  L EMGFP  RA KAL L  +  +  AM+WL+EH +DP +D PL
Sbjct: 195 TALRQLTEMGFPESRASKALRLN-HMSVPQAMEWLIEHSEDPAIDTPL 241


>ref|NP_001013042.1| ubiquitin carboxyl-terminal hydrolase 13 [Mus musculus].
          Length = 858

 Score = 52.8 bits (125), Expect = 5e-07
 Identities = 23/51 (45%), Positives = 32/51 (62%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           +++  L EMGFP     KA+  TGN G E A +W++ H ++PD  EPLA P
Sbjct: 654 SSVMQLAEMGFPLEACRKAVYFTGNTGAEVAFNWIIVHMEEPDFAEPLAIP 704


>ref|NP_808491.2| ubiquitin associated and SH3 domain containing, A [Mus musculus].
          Length = 624

 Score = 51.2 bits (121), Expect = 1e-06
 Identities = 24/46 (52%), Positives = 31/46 (67%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           L+ L+ MGFP   A KALA TG +  EAA DWL  H +DP +D+P+
Sbjct: 25  LDPLLAMGFPTHTALKALAATGRKTAEAAADWLHGHCNDPSLDDPI 70


  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: 32,672,980
Number of extensions: 893974
Number of successful extensions: 4275
Number of sequences better than 1.0e-05: 7
Number of HSP's gapped: 4242
Number of HSP's successfully gapped: 7
Length of query: 373
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 270
Effective length of database: 12,523,851
Effective search space: 3381439770
Effective search space used: 3381439770
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 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-002203
         (1119 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_003353872.1| PREDICTED: UBX domain-containing protein 1-l...   394   e-110
Alignment   gi|XP_003129993.1| PREDICTED: ubiquitin-associated and SH3 doma...    62   4e-10
Alignment   gi|XP_003355644.1| PREDICTED: ubiquitin carboxyl-terminal hydro...    60   2e-09
Alignment   gi|XP_001925819.3| PREDICTED: ubiquitin carboxyl-terminal hydro...    60   2e-09
Alignment   gi|XP_003359023.1| PREDICTED: ubiquitin-associated and SH3 doma...    53   4e-07

>ref|XP_003353872.1| PREDICTED: UBX domain-containing protein 1-like [Sus scrofa].
          Length = 330

 Score =  394 bits (1012), Expect = e-110
 Identities = 221/330 (66%), Positives = 224/330 (67%)
 Frame = +2

Query: 2   QIRALPLPPGFLLXXXXXXXXXXXXXXXXXXXMAELTALESLIEMGFPRGRAEKALALTG 181
           +IRALPLPPGFLL                   MAELTALESLIEMGFPRGRAEKALALTG
Sbjct: 2   EIRALPLPPGFLLVSVRGRAAAGPRGSGGGGVMAELTALESLIEMGFPRGRAEKALALTG 61

Query: 182 NQGIEAAMDWLMEHEDDPDVDEPLATPLGHVLGRXXXXXXXXXXXXXXXAAGEGKPPLSE 361
           NQGIEAAMDWLMEHEDDPDVDEPLATPLGHVLGR               AAGEGKPPLSE
Sbjct: 62  NQGIEAAMDWLMEHEDDPDVDEPLATPLGHVLGREPTPSEQSSPEGPGSAAGEGKPPLSE 121

Query: 362 EERQEQTKRMXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXSAARQRLQXXXXXXXXX 541
           EERQEQTKRM                                 SAARQRLQ         
Sbjct: 122 EERQEQTKRMLELLAQKQREREEREEREALERERQRRRQGQELSAARQRLQEDEMRRAAE 181

Query: 542 XXXXXXXXXXXXXXXVREKIERDKAERAKKYGGSVGSQXXXXXXXXXXXXXASPSQEPPT 721
                          VREKIERDKAERAKKYGGSVGSQ             ASPSQEPPT
Sbjct: 182 ERRREKAEELAARQRVREKIERDKAERAKKYGGSVGSQPPPPTTEPGPVP-ASPSQEPPT 240

Query: 722 KREYDQCRIQVRLPDGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRR 901
           KREYDQCRIQVRLPDGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRR
Sbjct: 241 KREYDQCRIQVRLPDGTSLTQTFRAREQLAAVRLYVELHRGEELGGGQDPVQLLSGFPRR 300

Query: 902 AFSEADMERPLQELGLVPSAVLIVARNVPA 991
           AFSEADMERPLQELGLVPSAVLIVA+  P+
Sbjct: 301 AFSEADMERPLQELGLVPSAVLIVAKKCPS 330


>ref|XP_003129993.1| PREDICTED: ubiquitin-associated and SH3 domain-containing protein B
           [Sus scrofa].
          Length = 649

 Score = 62.4 bits (150), Expect = 4e-10
 Identities = 27/48 (56%), Positives = 36/48 (75%)
 Frame = +2

Query: 110 TALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           +AL+ L+ MGFPR RA+KALA TG + ++AA DWL  H  DP +D+PL
Sbjct: 39  SALDVLLSMGFPRARAQKALASTGGRSVQAACDWLFSHVGDPFLDDPL 86


>ref|XP_003355644.1| PREDICTED: ubiquitin carboxyl-terminal hydrolase 5 isoform 2 [Sus
           scrofa].
          Length = 858

 Score = 60.5 bits (145), Expect = 2e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 654 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 708


>ref|XP_001925819.3| PREDICTED: ubiquitin carboxyl-terminal hydrolase 5 isoform 1 [Sus
           scrofa].
          Length = 835

 Score = 60.5 bits (145), Expect = 2e-09
 Identities = 27/55 (49%), Positives = 34/55 (61%)
 Frame = +2

Query: 98  MAELTALESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPLATP 262
           M + + +  L+EMGFP     KA+  TGN G EAAM+W+M H DDPD   PL  P
Sbjct: 631 MLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILP 685


>ref|XP_003359023.1| PREDICTED: ubiquitin-associated and SH3 domain-containing protein A
           [Sus scrofa].
          Length = 623

 Score = 52.8 bits (125), Expect = 4e-07
 Identities = 24/46 (52%), Positives = 32/46 (69%)
 Frame = +2

Query: 116 LESLIEMGFPRGRAEKALALTGNQGIEAAMDWLMEHEDDPDVDEPL 253
           LE L++MGFP   A KALA TG + +E A DWL  H +DP +D+P+
Sbjct: 25  LEPLLDMGFPAHTALKALAATGRKTVEEASDWLRCHCNDPSLDDPI 70


  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: 25,132,615
Number of extensions: 777601
Number of successful extensions: 3760
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 3723
Number of HSP's successfully gapped: 5
Length of query: 373
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 273
Effective length of database: 8,854,232
Effective search space: 2417205336
Effective search space used: 2417205336
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-002203
         (1119 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_Chr02                                                         389   e-105

>Sscrofa_Chr02 
||          Length = 162569375

 Score =  389 bits (196), Expect = e-105
 Identities = 196/196 (100%)
 Strand = Plus / Plus

                                                                           
Query: 750     aggtcaggctgccagatgggacttccctgacccagacgttccgggcacgggaacagctgg 809
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8420831 aggtcaggctgccagatgggacttccctgacccagacgttccgggcacgggaacagctgg 8420890

                                                                           
Query: 810     cggccgtcaggctctatgtggagctccaccgtggggaggagctaggagggggccaggacc 869
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8420891 cggccgtcaggctctatgtggagctccaccgtggggaggagctaggagggggccaggacc 8420950

                                                                           
Query: 870     ctgtgcagttgctcagtggcttcccccggcgggccttctcagaagctgacatggagcggc 929
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8420951 ctgtgcagttgctcagtggcttcccccggcgggccttctcagaagctgacatggagcggc 8421010

                               
Query: 930     ctctgcaggagctggg 945
               ||||||||||||||||
Sbjct: 8421011 ctctgcaggagctggg 8421026



 Score =  385 bits (194), Expect = e-104
 Identities = 194/194 (100%)
 Strand = Plus / Plus

                                                                           
Query: 386     aggatgttggagctgctggcccagaagcagcgggaacgtgaagagagagaggagcgggag 445
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8419735 aggatgttggagctgctggcccagaagcagcgggaacgtgaagagagagaggagcgggag 8419794

                                                                           
Query: 446     gccctggaacgcgaacggcagcgcaggagacaagggcaggagttgtcagctgcccgacag 505
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8419795 gccctggaacgcgaacggcagcgcaggagacaagggcaggagttgtcagctgcccgacag 8419854

                                                                           
Query: 506     cggctccaggaggatgagatgcgccgggctgctgaggagcggcggagggaaaaggctgaa 565
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8419855 cggctccaggaggatgagatgcgccgggctgctgaggagcggcggagggaaaaggctgaa 8419914

                             
Query: 566     gagttagcggccag 579
               ||||||||||||||
Sbjct: 8419915 gagttagcggccag 8419928



 Score =  218 bits (110), Expect = 5e-54
 Identities = 113/114 (99%)
 Strand = Plus / Plus

                                                                           
Query: 210     ggttgatggagcacgaagacgaccccgatgtggacgagccactagcgaccccccttggac 269
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8419246 ggttgatggagcacgaagacgaccccgatgtggacgagccactagcgaccccccttggac 8419305

                                                                     
Query: 270     atgtcctgggacgggaacccaccccttcggagcaaagtagccccgaaggacctg 323
               ||||||||||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 8419306 atgtcctgggacgggaacccaccccttcggagcaaagtagccccgaaggtcctg 8419359



 Score =  218 bits (110), Expect = 5e-54
 Identities = 121/124 (97%), Gaps = 3/124 (2%)
 Strand = Plus / Plus

                                                                           
Query: 630     agtatgggggtagtgtgggttctcagccacccccacctacgacgacagagccaggtcctg 689
               ||||||||||||||||||||||||||||||||||||||||||   |||||||||||||||
Sbjct: 8420189 agtatgggggtagtgtgggttctcagccacccccacctacga---cagagccaggtcctg 8420245

                                                                           
Query: 690     ttcccgcctctcccagccaggagcctcccacgaagcgggagtatgaccagtgtcgcatcc 749
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8420246 ttcccgcctctcccagccaggagcctcccacgaagcgggagtatgaccagtgtcgcatcc 8420305

                   
Query: 750     aggt 753
               ||||
Sbjct: 8420306 aggt 8420309



 Score =  186 bits (94), Expect = 2e-44
 Identities = 111/114 (97%), Gaps = 2/114 (1%)
 Strand = Plus / Plus

                                                                           
Query: 944     ggacttgtgccttctgctgtcctcattgtggcca-gaaatgtcccagctgaaaggccttt 1002
               |||||||||||||||||||||||||||||||||| |||||||||||||||| ||||||||
Sbjct: 8421196 ggacttgtgccttctgctgtcctcattgtggccaagaaatgtcccagctgagaggccttt 8421255

                                                                     
Query: 1003    tccc-ccatccctctctgacttttccatctttgataaagcactgacatcttcct 1055
               |||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8421256 tcccaccatccctctctgacttttccatctttgataaagcactgacatcttcct 8421309



 Score =  178 bits (90), Expect = 4e-42
 Identities = 90/90 (100%)
 Strand = Plus / Plus

                                                                           
Query: 68      ggtccccgcggaagcggcggtggcggcgtcatggcggagctgacggctctggagagtctc 127
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8418875 ggtccccgcggaagcggcggtggcggcgtcatggcggagctgacggctctggagagtctc 8418934

                                             
Query: 128     atcgagatgggcttccccaggggacgcgcg 157
               ||||||||||||||||||||||||||||||
Sbjct: 8418935 atcgagatgggcttccccaggggacgcgcg 8418964



 Score =  139 bits (70), Expect = 4e-30
 Identities = 70/70 (100%)
 Strand = Plus / Plus

                                                                           
Query: 1       acagattcgggcacttccgcttcccccgggctttcttctcgtcagtgtccgcggccgggc 60
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8418710 acagattcgggcacttccgcttcccccgggctttcttctcgtcagtgtccgcggccgggc 8418769

                         
Query: 61      cgctgccggt 70
               ||||||||||
Sbjct: 8418770 cgctgccggt 8418779



 Score =  137 bits (69), Expect = 1e-29
 Identities = 72/73 (98%)
 Strand = Plus / Plus

                                                                           
Query: 316     aggacctgggtctgctgccggagaaggcaaacccccgctgagtgaagaggaaagacagga 375
               ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 8419438 aggacctgggtctgctgccggagaaggcaaacccccgttgagtgaagaggaaagacagga 8419497

                            
Query: 376     acagactaagagg 388
               |||||||||||||
Sbjct: 8419498 acagactaagagg 8419510



 Score =  111 bits (56), Expect = 8e-22
 Identities = 56/56 (100%)
 Strand = Plus / Plus

                                                                       
Query: 157     ggagaaggctctggccctcacagggaaccagggcatcgaggctgcgatggactggt 212
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8419103 ggagaaggctctggccctcacagggaaccagggcatcgaggctgcgatggactggt 8419158



 Score =  111 bits (56), Expect = 8e-22
 Identities = 56/56 (100%)
 Strand = Plus / Plus

                                                                       
Query: 576     ccagacaaagagtccgagaaaagatcgaaagggacaaagcagagagagccaagaag 631
               ||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8420017 ccagacaaagagtccgagaaaagatcgaaagggacaaagcagagagagccaagaag 8420072


  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: 28,406,600
Number of extensions: 200
Number of successful extensions: 200
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 197
Number of HSP's successfully gapped: 10
Length of query: 1119
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1098
Effective length of database: 2,808,413,156
Effective search space: 3083637645288
Effective search space used: 3083637645288
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)