Animal-Genome cDNA 20110601C-003151


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-003151
         (1117 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_001103552.1| RNA binding motif protein 34 [Bos taurus].        381   e-107

>ref|NP_001103552.1| RNA binding motif protein 34 [Bos taurus].
          Length = 272

 Score =  381 bits (979), Expect(2) = e-107
 Identities = 201/264 (76%), Positives = 220/264 (83%), Gaps = 4/264 (1%)
 Frame = +3

Query: 72  MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 251
           MA EGKNKR+KKQSAQEG+N D G+ GNL G Y +GQVANSL +GK+PS GS GRLASLF
Sbjct: 1   MALEGKNKREKKQSAQEGQNPDDGACGNLEGDYEVGQVANSLFRGKQPSRGSTGRLASLF 60

Query: 252 SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXXXXXX 431
            S+ PQLQP+YVP+P+E  KKRK+DEEE  S QIQRPLLQEPAK                
Sbjct: 61  GSVNPQLQPVYVPVPEEAIKKRKRDEEEESSPQIQRPLLQEPAKKMKVKKKLSDAEKKLA 120

Query: 432 NRENALASADLEEEIRQKQGQKRKNSQSGVTIA----LDDVDQTVVNPRRKIQTNKEEER 599
           NRE+ALASADLEEEI QKQGQKRKNSQ GVT+A    LDDV++TVVN R+KIQ N+EEER
Sbjct: 121 NREDALASADLEEEIHQKQGQKRKNSQPGVTVADKELLDDVEETVVNQRKKIQINQEEER 180

Query: 600 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD 779
           LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD
Sbjct: 181 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD 240

Query: 780 QKNINAYVVFKDESAAAKALERNG 851
           QKNINAYVVFKDESAA KA ++ G
Sbjct: 241 QKNINAYVVFKDESAATKAGKKWG 264



 Score = 26.2 bits (56), Expect(2) = e-107
 Identities = 10/12 (83%), Positives = 10/12 (83%)
 Frame = +2

Query: 839 GKKWGPNCRWIS 874
           GKKWGP CR IS
Sbjct: 260 GKKWGPICRRIS 271


  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: 35,038,967
Number of extensions: 825707
Number of successful extensions: 3664
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3647
Number of HSP's successfully gapped: 2
Length of query: 372
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 268
Effective length of database: 14,240,222
Effective search space: 3816379496
Effective search space used: 3816379496
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-003151
         (1117 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_536341.2| PREDICTED: similar to RNA binding motif protein...   433   e-137

>ref|XP_536341.2| PREDICTED: similar to RNA binding motif protein 34 [Canis
            familiaris].
          Length = 531

 Score =  433 bits (1113), Expect(3) = e-137
 Identities = 229/314 (72%), Positives = 256/314 (81%), Gaps = 3/314 (0%)
 Frame = +3

Query: 66   VRMAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLAS 245
            +RM  EGKNKRKKK  A+EGE  D   RG L G Y++GQVA SL QG+RPSG SA RLAS
Sbjct: 106  MRMLVEGKNKRKKKGGAEEGERPDDDVRGTLTGDYVVGQVARSLFQGRRPSGDSAARLAS 165

Query: 246  LFSSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXXXX 425
            LFSS EPQLQP+YVP+P+ETT KRK+DEEE  +SQIQRPLLQEP+K+             
Sbjct: 166  LFSSSEPQLQPVYVPVPRETTTKRKRDEEEESTSQIQRPLLQEPSKSVKAKKKLSDAH-- 223

Query: 426  XXNRENALASADLEEEIRQKQGQKRKNSQSGVTIA---LDDVDQTVVNPRRKIQTNKEEE 596
               R+N LAS DLEEEI QKQ QKR N QSG+ +A   + DVD  V+N R+KI+ N+EEE
Sbjct: 224  --KRKNTLASRDLEEEIHQKQEQKRNNFQSGINVADKKVLDVDHIVLNQRKKIEINQEEE 281

Query: 597  RLKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHP 776
            +LKNERTVFVGNLPVTCNKKKLKSFF+EYGQI+SVRFRSLIPAEGTLSKKLAAIKRKIHP
Sbjct: 282  KLKNERTVFVGNLPVTCNKKKLKSFFREYGQIDSVRFRSLIPAEGTLSKKLAAIKRKIHP 341

Query: 777  DQKNINAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVE 956
            DQK INAYVVFKDES+A KAL+RNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVE
Sbjct: 342  DQKYINAYVVFKDESSATKALKRNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVE 401

Query: 957  ESAVENTFWTVGAL 998
            ESAVE  F   G++
Sbjct: 402  ESAVEEHFLDCGSI 415



 Score = 62.0 bits (149), Expect(3) = e-137
 Identities = 27/32 (84%), Positives = 31/32 (96%)
 Frame = +2

Query: 971  KHFLDCGSVVAVRIVRDPVTGVGKGFGYLLFE 1066
            +HFLDCGS+VAVRIVRD VTGVG+GFGY+LFE
Sbjct: 407  EHFLDCGSIVAVRIVRDRVTGVGRGFGYVLFE 438



 Score = 34.3 bits (77), Expect(3) = e-137
 Identities = 15/17 (88%), Positives = 17/17 (100%)
 Frame = +1

Query: 1066 DTDAVHLALKINNSELM 1116
            +TDAVHLALK+NNSELM
Sbjct: 439  NTDAVHLALKLNNSELM 455


  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: 36,750,266
Number of extensions: 861863
Number of successful extensions: 4691
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4611
Number of HSP's successfully gapped: 3
Length of query: 372
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 268
Effective length of database: 15,407,560
Effective search space: 4129226080
Effective search space used: 4129226080
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-003151
         (1117 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_055829.2| RNA-binding protein 34 isoform 1 [Homo sapiens].     434   e-137
Alignment   gi|NP_001155005.1| RNA-binding protein 34 isoform 2 [Homo sapie...   278   6e-75

>ref|NP_055829.2| RNA-binding protein 34 isoform 1 [Homo sapiens].
          Length = 430

 Score =  434 bits (1117), Expect(3) = e-137
 Identities = 229/313 (73%), Positives = 258/313 (82%), Gaps = 4/313 (1%)
 Frame = +3

Query: 72  MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 251
           MA EG +KRK+K+S QEGEN D G RG+    Y +GQVA+SL +G+  S G  GRLASLF
Sbjct: 1   MALEGMSKRKRKRSVQEGENPDDGVRGSPPEDYRLGQVASSLFRGEHHSRGGTGRLASLF 60

Query: 252 SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXXXXXX 431
           SSLEPQ+QP+YVP+PK+T KK K++EEE  +SQI+RPL QEPAK                
Sbjct: 61  SSLEPQIQPVYVPVPKQTIKKTKRNEEEESTSQIERPLSQEPAKKVKAKKKHTNAEKKLA 120

Query: 432 NRENALASADLEEEIRQKQGQKRKNSQSGVTIA----LDDVDQTVVNPRRKIQTNKEEER 599
           +RE+ALASADLEEEI QKQGQKRKNSQ GV +A    LDD + TVV+ R+KIQ N+EEER
Sbjct: 121 DRESALASADLEEEIHQKQGQKRKNSQPGVKVADRKILDDTEDTVVSQRKKIQINQEEER 180

Query: 600 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD 779
           LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD
Sbjct: 181 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPD 240

Query: 780 QKNINAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEE 959
           QKNINAYVVFK+ESAA +AL+RNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEE
Sbjct: 241 QKNINAYVVFKEESAATQALKRNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEE 300

Query: 960 SAVENTFWTVGAL 998
           SA+E  F   G++
Sbjct: 301 SAIEKHFLDCGSI 313



 Score = 62.4 bits (150), Expect(3) = e-137
 Identities = 26/32 (81%), Positives = 31/32 (96%)
 Frame = +2

Query: 971  KHFLDCGSVVAVRIVRDPVTGVGKGFGYLLFE 1066
            KHFLDCGS++AVRIVRD +TG+GKGFGY+LFE
Sbjct: 305  KHFLDCGSIMAVRIVRDKMTGIGKGFGYVLFE 336



 Score = 33.1 bits (74), Expect(3) = e-137
 Identities = 14/17 (82%), Positives = 17/17 (100%)
 Frame = +1

Query: 1066 DTDAVHLALKINNSELM 1116
            +TD+VHLALK+NNSELM
Sbjct: 337  NTDSVHLALKLNNSELM 353


>ref|NP_001155005.1| RNA-binding protein 34 isoform 2 [Homo sapiens].
          Length = 225

 Score =  278 bits (711), Expect = 6e-75
 Identities = 147/220 (66%), Positives = 171/220 (77%), Gaps = 4/220 (1%)
 Frame = +3

Query: 72  MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 251
           MA EG +KRK+K+S QEGEN D G RG+    Y +GQVA+SL +G+  S G  GRLASLF
Sbjct: 1   MALEGMSKRKRKRSVQEGENPDDGVRGSPPEDYRLGQVASSLFRGEHHSRGGTGRLASLF 60

Query: 252 SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXXXXXX 431
           SSLEPQ+QP+YVP+PK+T KK K++EEE  +SQI+RPL QEPAK                
Sbjct: 61  SSLEPQIQPVYVPVPKQTIKKTKRNEEEESTSQIERPLSQEPAKKVKAKKKHTNAEKKLA 120

Query: 432 NRENALASADLEEEIRQKQGQKRKNSQSGVTIA----LDDVDQTVVNPRRKIQTNKEEER 599
           +RE+ALASADLEEEI QKQGQKRKNSQ GV +A    LDD + TVV+ R+KIQ N+EEER
Sbjct: 121 DRESALASADLEEEIHQKQGQKRKNSQPGVKVADRKILDDTEDTVVSQRKKIQINQEEER 180

Query: 600 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLI 719
           LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSL+
Sbjct: 181 LKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLV 220


  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: 36,066,466
Number of extensions: 845150
Number of successful extensions: 3798
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 3768
Number of HSP's successfully gapped: 4
Length of query: 372
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 268
Effective length of database: 14,868,908
Effective search space: 3984867344
Effective search space used: 3984867344
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-003151
         (1117 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_766350.2| RNA-binding protein 34 [Mus musculus].               354   e-113

>ref|NP_766350.2| RNA-binding protein 34 [Mus musculus].
          Length = 442

 Score =  354 bits (909), Expect(3) = e-113
 Identities = 195/320 (60%), Positives = 238/320 (74%), Gaps = 11/320 (3%)
 Frame = +3

Query: 72  MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 251
           MA  G+ ++++K S +   + DG S    A  YL+GQVA+SL  G RP GG  GRLA+LF
Sbjct: 1   MALGGEERKRRKGSERRQSSGDGVSCA--ASDYLVGQVADSLRGGPRPPGGGTGRLAALF 58

Query: 252 SSLEPQLQPLYVPLPKETTKKRK----QDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXX 419
           S+ EP   P++VP+P+ET+KKRK     D+EE   SQ ++P+LQEP++            
Sbjct: 59  STAEPSAPPVFVPVPQETSKKRKLDDDDDDEEESVSQTKKPVLQEPSRKVKVKKLSDADK 118

Query: 420 XXXXNRENALASADLEEEIRQKQGQ-KRKNSQSGVTIALDDVDQTVVN------PRRKIQ 578
               NRE+ALASADLEEE+ Q QGQ +R+ SQS   +A  +     ++       R KI 
Sbjct: 119 RLA-NRESALASADLEEELHQDQGQGRRRRSQSRGKVADGEALDVALSLAKDGGQRTKIP 177

Query: 579 TNKEEERLKNERTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAI 758
            N EEERLKNERTVFVGNLPVTCNKKKLKSFFKEYGQ+ESVRFRS++PAEGTL+KKLAAI
Sbjct: 178 VNPEEERLKNERTVFVGNLPVTCNKKKLKSFFKEYGQVESVRFRSVMPAEGTLTKKLAAI 237

Query: 759 KRKIHPDQKNINAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGN 938
           KRK HPDQK+INAYVVFKDESAAAKAL+RNGAQIA+GFRIRVDLASET+SRDKRSVFVGN
Sbjct: 238 KRKFHPDQKSINAYVVFKDESAAAKALQRNGAQIAEGFRIRVDLASETASRDKRSVFVGN 297

Query: 939 LPYKVEESAVENTFWTVGAL 998
           LPYK+E+SA+E  F   G++
Sbjct: 298 LPYKIEDSALEEHFLDCGSI 317



 Score = 62.4 bits (150), Expect(3) = e-113
 Identities = 26/32 (81%), Positives = 32/32 (100%)
 Frame = +2

Query: 971  KHFLDCGSVVAVRIVRDPVTGVGKGFGYLLFE 1066
            +HFLDCGS+VAVRIVR+P+TGVG+GFGY+LFE
Sbjct: 309  EHFLDCGSIVAVRIVRNPLTGVGRGFGYVLFE 340



 Score = 34.3 bits (77), Expect(3) = e-113
 Identities = 15/17 (88%), Positives = 17/17 (100%)
 Frame = +1

Query: 1066 DTDAVHLALKINNSELM 1116
            +TDAVHLALK+NNSELM
Sbjct: 341  NTDAVHLALKLNNSELM 357


  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: 30,761,268
Number of extensions: 715502
Number of successful extensions: 3113
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3090
Number of HSP's successfully gapped: 3
Length of query: 372
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 269
Effective length of database: 12,523,851
Effective search space: 3368915919
Effective search space used: 3368915919
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-003151
         (1117 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_001925470.1| PREDICTED: RNA-binding protein 34 [Sus scrof...   549   e-173

>ref|XP_001925470.1| PREDICTED: RNA-binding protein 34 [Sus scrofa].
          Length = 424

 Score =  549 bits (1415), Expect(3) = e-173
 Identities = 287/309 (92%), Positives = 289/309 (93%)
 Frame = +3

Query: 72  MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 251
           MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF
Sbjct: 1   MAPEGKNKRKKKQSAQEGENVDGGSRGNLAGGYLIGQVANSLSQGKRPSGGSAGRLASLF 60

Query: 252 SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTXXXXXXXXXXXXXXX 431
           SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKT               
Sbjct: 61  SSLEPQLQPLYVPLPKETTKKRKQDEEEARSSQIQRPLLQEPAKTVKVKKKLSDADKKLA 120

Query: 432 NRENALASADLEEEIRQKQGQKRKNSQSGVTIALDDVDQTVVNPRRKIQTNKEEERLKNE 611
           NRENALASADLEEEIRQKQGQKRKNSQSGVTIALDDVDQTVVNPRRKIQTNKEEERLKNE
Sbjct: 121 NRENALASADLEEEIRQKQGQKRKNSQSGVTIALDDVDQTVVNPRRKIQTNKEEERLKNE 180

Query: 612 RTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPDQKNI 791
           RTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPDQKNI
Sbjct: 181 RTVFVGNLPVTCNKKKLKSFFKEYGQIESVRFRSLIPAEGTLSKKLAAIKRKIHPDQKNI 240

Query: 792 NAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEESAVE 971
           NAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEESAVE
Sbjct: 241 NAYVVFKDESAAAKALERNGAQIADGFRIRVDLASETSSRDKRSVFVGNLPYKVEESAVE 300

Query: 972 NTFWTVGAL 998
             F   G++
Sbjct: 301 KHFLDCGSV 309



 Score = 67.4 bits (163), Expect(3) = e-173
 Identities = 30/32 (93%), Positives = 32/32 (100%)
 Frame = +2

Query: 971  KHFLDCGSVVAVRIVRDPVTGVGKGFGYLLFE 1066
            KHFLDCGSVVAVRIVRDPVTGVG+GFGY+LFE
Sbjct: 301  KHFLDCGSVVAVRIVRDPVTGVGRGFGYVLFE 332



 Score = 34.3 bits (77), Expect(3) = e-173
 Identities = 15/17 (88%), Positives = 17/17 (100%)
 Frame = +1

Query: 1066 DTDAVHLALKINNSELM 1116
            +TDAVHLALK+NNSELM
Sbjct: 333  NTDAVHLALKLNNSELM 349


  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: 22,518,653
Number of extensions: 528562
Number of successful extensions: 2453
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2428
Number of HSP's successfully gapped: 3
Length of query: 372
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 272
Effective length of database: 8,854,232
Effective search space: 2408351104
Effective search space used: 2408351104
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-003151
         (1117 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_Chr14                                                         440   e-121
Sscrofa_Chr03                                                         438   e-120

>Sscrofa_Chr14 
||          Length = 153851969

 Score =  440 bits (222), Expect = e-121
 Identities = 222/222 (100%)
 Strand = Plus / Plus

                                                                            
Query: 435      agagaaaatgctttagcaagtgctgatttagaagaagaaattcgccagaaacaaggacag 494
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60200332 agagaaaatgctttagcaagtgctgatttagaagaagaaattcgccagaaacaaggacag 60200391

                                                                            
Query: 495      aaaaggaaaaattctcaatctggtgttacaatagcacttgatgatgtagatcagacagtt 554
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60200392 aaaaggaaaaattctcaatctggtgttacaatagcacttgatgatgtagatcagacagtt 60200451

                                                                            
Query: 555      gtaaatccaagaaggaaaatccaaaccaacaaagaagaagagagattaaagaatgagaga 614
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60200452 gtaaatccaagaaggaaaatccaaaccaacaaagaagaagagagattaaagaatgagaga 60200511

                                                          
Query: 615      actgtgtttgttgggaatttgccagtcacctgtaataagaag 656
                ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60200512 actgtgtttgttgggaatttgccagtcacctgtaataagaag 60200553



 Score =  351 bits (177), Expect = 5e-94
 Identities = 177/177 (100%)
 Strand = Plus / Plus

                                                                            
Query: 124      gagagaacgtggacggcggcagtcgtgggaatctggccggaggctatctgattggacaag 183
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193511 gagagaacgtggacggcggcagtcgtgggaatctggccggaggctatctgattggacaag 60193570

                                                                            
Query: 184      tcgccaacagtttatcccaaggcaagaggccctccggaggcagcgccggccggctggctt 243
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193571 tcgccaacagtttatcccaaggcaagaggccctccggaggcagcgccggccggctggctt 60193630

                                                                         
Query: 244      ccctcttcagctctttggagcctcagcttcaacccctgtacgtgcctctgcctaaag 300
                |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193631 ccctcttcagctctttggagcctcagcttcaacccctgtacgtgcctctgcctaaag 60193687



 Score =  246 bits (124), Expect = 2e-62
 Identities = 124/124 (100%)
 Strand = Plus / Plus

                                                                            
Query: 1        gagtgcgcaggggcagggacccggaagtgcggcctagcctgttgcagcggtctgggagct 60
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193278 gagtgcgcaggggcagggacccggaagtgcggcctagcctgttgcagcggtctgggagct 60193337

                                                                            
Query: 61       ttcgggtaagaatggcgccggaagggaagaacaagcggaagaaaaagcagagcgcgcagg 120
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193338 ttcgggtaagaatggcgccggaagggaagaacaagcggaagaaaaagcagagcgcgcagg 60193397

                    
Query: 121      aggg 124
                ||||
Sbjct: 60193398 aggg 60193401



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

                                                                            
Query: 316      ggaaacaggatgaggaggaagcacgttcatcccaaattcaaagaccacttttacaagaac 375
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193902 ggaaacaggatgaggaggaagcacgttcatcccaaattcaaagaccacttttacaagaac 60193961

                                                                            
Query: 376      ctgcaaaaacagtgaaagtgaagaagaaactttctgatgcagacaaaaagttggcaaaca 435
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60193962 ctgcaaaaacagtgaaagtgaagaagaaactttctgatgcagacaaaaagttggcaaaca 60194021

                 
Query: 436      g 436
                |
Sbjct: 60194022 g 60194022



 Score =  204 bits (103), Expect = 7e-50
 Identities = 116/119 (97%), Gaps = 1/119 (0%)
 Strand = Plus / Plus

                                                                            
Query: 949      aagttgaagaatctgctgttga-aaacactttctggactgtgggagcgttgtggctgtaa 1007
                |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 60211238 aagttgaagaatctgctgttgagaaacactttctggactgtgggagcgttgtggctgtaa 60211297

                                                                           
Query: 1008     ggatcgtgcgagatccagtgacaggagttggcaaagggtttggctacctgctctttgag 1066
                ||||||||||||||||||||||||||||||||| ||||||||||||| |||||||||||
Sbjct: 60211298 ggatcgtgcgagatccagtgacaggagttggcagagggtttggctacgtgctctttgag 60211356



 Score =  167 bits (84), Expect = 2e-38
 Identities = 84/84 (100%)
 Strand = Plus / Plus

                                                                            
Query: 761      acgtaaaattcatccagatcagaaaaatattaatgcttacgttgtgtttaaggatgagag 820
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60208119 acgtaaaattcatccagatcagaaaaatattaatgcttacgttgtgtttaaggatgagag 60208178

                                        
Query: 821      tgctgctgcaaaagcattggaaag 844
                ||||||||||||||||||||||||
Sbjct: 60208179 tgctgctgcaaaagcattggaaag 60208202



 Score =  131 bits (66), Expect = 9e-28
 Identities = 66/66 (100%)
 Strand = Plus / Plus

                                                                            
Query: 843      agaaatggggcccaaattgcagatggatttcgtattagagtggatcttgcatctgagacc 902
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60208348 agaaatggggcccaaattgcagatggatttcgtattagagtggatcttgcatctgagacc 60208407

                      
Query: 903      tcatct 908
                ||||||
Sbjct: 60208408 tcatct 60208413



 Score =  123 bits (62), Expect = 2e-25
 Identities = 62/62 (100%)
 Strand = Plus / Plus

                                                                            
Query: 655      agaaactgaagtcattttttaaagagtatggacaaatagaatctgtacgatttcgttctc 714
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60202376 agaaactgaagtcattttttaaagagtatggacaaatagaatctgtacgatttcgttctc 60202435

                  
Query: 715      tg 716
                ||
Sbjct: 60202436 tg 60202437



 Score = 89.7 bits (45), Expect = 3e-15
 Identities = 45/45 (100%)
 Strand = Plus / Plus

                                                             
Query: 716      gattccagcagaaggaactttatccaaaaagctggcagcaataaa 760
                |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60206126 gattccagcagaaggaactttatccaaaaagctggcagcaataaa 60206170



 Score = 85.7 bits (43), Expect = 5e-14
 Identities = 49/51 (96%)
 Strand = Plus / Plus

                                                                   
Query: 1067     atacagatgctgttcatcttgctctgaaaattaataattctgaactgatgg 1117
                ||||||||||||||||||||||||||||| | |||||||||||||||||||
Sbjct: 60213370 atacagatgctgttcatcttgctctgaaattaaataattctgaactgatgg 60213420



 Score = 79.8 bits (40), Expect = 3e-12
 Identities = 40/40 (100%)
 Strand = Plus / Plus

                                                        
Query: 909      agggacaagagatcagtgttcgtggggaatctcccataca 948
                ||||||||||||||||||||||||||||||||||||||||
Sbjct: 60210976 agggacaagagatcagtgttcgtggggaatctcccataca 60211015


>Sscrofa_Chr03 
||          Length = 144787322

 Score =  438 bits (221), Expect = e-120
 Identities = 389/441 (88%), Gaps = 3/441 (0%)
 Strand = Plus / Plus

                                                                            
Query: 678      gagtatggacaaatagaatctgtacgatttcgttctctgattccagcagaaggaacttta 737
                |||| ||||||||||||||||||| |||||| |||||| ||||||||||| |||||||  
Sbjct: 98274888 gagtgtggacaaatagaatctgtatgatttcattctctaattccagcagatggaacttcg 98274947

                                                                            
Query: 738      tccaaaaagctggcagcaataaaacgtaaaattcatccagatcagaaaaatattaatgct 797
                ||||||||||||||||||||||||| |||| || |||| ||||||| ||  |||||||||
Sbjct: 98274948 tccaaaaagctggcagcaataaaacataaagtttatcctgatcagagaac-attaatgct 98275006

                                                                            
Query: 798      tacgttgtgtttaaggatgagagtgctgctgcaaaagcattggaaagaaatggggcccaa 857
                || ||||||||||||||  ||||||  ||||||||||||||||||||||||| |||||||
Sbjct: 98275007 tatgttgtgtttaaggacaagagtgtggctgcaaaagcattggaaagaaatgtggcccaa 98275066

                                                                            
Query: 858      attgcagatggatttcgtattagagtggatcttgcatctgagacctcatctagggacaag 917
                ||||||||||||||| |||||||||||||||| |||||| |||||||||||||| |||||
Sbjct: 98275067 attgcagatggattttgtattagagtggatctcgcatctaagacctcatctaggaacaag 98275126

                                                                            
Query: 918      agatcagtgttcgtggggaatctcccatacaaagttgaagaatctgctgtt-gaaaacac 976
                ||||  ||||| ||||||||||||||| || |||||||||||| ||| ||| ||||| ||
Sbjct: 98275127 agattggtgtttgtggggaatctcccaaaccaagttgaagaatttgcagttggaaaagac 98275186

                                                                            
Query: 977      tttctggactgtgggagcgttgtggctgtaaggatcgtgcgagatccagtgacaggagtt 1036
                ||| ||||||||||||| |||||||| |||||||| ||| |||||| ||| |||||||||
Sbjct: 98275187 tttttggactgtgggagtgttgtggcagtaaggattgtgtgagatcgagttacaggagtt 98275246

                                                                            
Query: 1037     ggcaaagggtttggctacctgctctttgagatacagatgctgttcatcttgctctgaaaa 1096
                |||| ||||||| ||| | |||| ||    ||||||||||||||||||||||||||||| 
Sbjct: 98275247 ggcagagggttt-gctccatgctgttcagaatacagatgctgttcatcttgctctgaaat 98275305

                                     
Query: 1097     ttaataattctgaactgatgg 1117
                | ||||||||| |||||||||
Sbjct: 98275306 taaataattcttaactgatgg 98275326


  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: 39,744,097
Number of extensions: 297
Number of successful extensions: 297
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 294
Number of HSP's successfully gapped: 13
Length of query: 1117
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1096
Effective length of database: 2,808,413,156
Effective search space: 3078020818976
Effective search space used: 3078020818976
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)