Animal-Genome cDNA 20110601C-003518


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-003518
         (1043 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_001069483.1| 28S ribosomal protein S31, mitochondrial pre...   391   e-109

>ref|NP_001069483.1| 28S ribosomal protein S31, mitochondrial precursor [Bos taurus].
          Length = 386

 Score =  391 bits (1004), Expect = e-109
 Identities = 200/306 (65%), Positives = 229/306 (74%)
 Frame = +3

Query: 90   MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
            M PRVSAV+          CS GPE             GTVRT+ NIQRYFGTN+++YSK
Sbjct: 1    MFPRVSAVLPFRPLSRLPLCSAGPEASAATVVPLASPHGTVRTKCNIQRYFGTNSVIYSK 60

Query: 270  KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
            KD++S P CEISKETE++GS KEN KKDL+NIIKGMKVELSTVNVQTTKP N+ QLK+LE
Sbjct: 61   KDDKSVPACEISKETENQGSTKENKKKDLVNIIKGMKVELSTVNVQTTKPPNRGQLKSLE 120

Query: 450  TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
             AI R++K+PED PQK                    PFD++ TKSELLRQL++HEEDS+A
Sbjct: 121  AAIRRLQKSPEDAPQK-SKSLSPELVAAATAVADSLPFDKQTTKSELLRQLRQHEEDSKA 179

Query: 630  QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
            QKDGEKPKISFSNIISDMKVARS+TAR STRPVHQIQFDEG DDF D+E+T +L+K FRK
Sbjct: 180  QKDGEKPKISFSNIISDMKVARSSTARASTRPVHQIQFDEGADDFVDREETADLRKRFRK 239

Query: 810  NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
            NIFKG+RLNIF                SLWD+EFAKQLAAVTE+PFQNGFEEMIQWTK+G
Sbjct: 240  NIFKGKRLNIFELKPVTEEAPETEAAPSLWDVEFAKQLAAVTEQPFQNGFEEMIQWTKEG 299

Query: 990  KLWEFP 1007
            KLWEFP
Sbjct: 300  KLWEFP 305


  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: 29,533,875
Number of extensions: 624993
Number of successful extensions: 1961
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1957
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,273,310
Effective search space: 3482687640
Effective search space used: 3482687640
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-003518
         (1043 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_534486.1| PREDICTED: similar to 28S ribosomal protein S31...   349   3e-96

>ref|XP_534486.1| PREDICTED: similar to 28S ribosomal protein S31, mitochondrial
            precursor (S31mt) (MRP-S31) (Imogen 38) [Canis
            familiaris].
          Length = 386

 Score =  349 bits (895), Expect = 3e-96
 Identities = 186/306 (60%), Positives = 213/306 (69%)
 Frame = +3

Query: 90   MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
            MLPRVSAV           CSGG E              T RT+NN+QRYFGTNN + SK
Sbjct: 1    MLPRVSAVRPLRPLARFPLCSGGSEAPAAATVLLGAPHATARTKNNVQRYFGTNNTICSK 60

Query: 270  KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
            KDEQ     EISKETES+ SVKEN+KKDLL IIKGMK+ELSTVNVQTTKPS+ RQLK++E
Sbjct: 61   KDEQPASMHEISKETESQESVKENTKKDLLGIIKGMKIELSTVNVQTTKPSSTRQLKSVE 120

Query: 450  TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
              I +++KAP D P+KR                   PFD++ TKSELLRQLQ+HEE S+A
Sbjct: 121  ATINKLQKAPGDAPKKRTKSLSPELVAAASAIADFLPFDKQTTKSELLRQLQQHEEVSKA 180

Query: 630  QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
            QK+G + KIS SNIISDMKVA+SAT RVSTRPVHQIQFDEG+DD+  Q KT ++KKS RK
Sbjct: 181  QKNGGRAKISVSNIISDMKVAKSATIRVSTRPVHQIQFDEGSDDYMSQ-KTSDVKKSLRK 239

Query: 810  NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
            N+ KG+RLNIF                SLWDIEFAKQLAAV E+P QNGF EMIQWTK G
Sbjct: 240  NMLKGKRLNIFDLKAVTEETSETETTPSLWDIEFAKQLAAVNEQPLQNGFAEMIQWTKDG 299

Query: 990  KLWEFP 1007
            KLWEFP
Sbjct: 300  KLWEFP 305


  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: 30,810,110
Number of extensions: 639378
Number of successful extensions: 2111
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2107
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 243
Effective length of database: 15,407,560
Effective search space: 3744037080
Effective search space used: 3744037080
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-003518
         (1043 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_005821.2| 28S ribosomal protein S31, mitochondrial precur...   321   8e-88

>ref|NP_005821.2| 28S ribosomal protein S31, mitochondrial precursor [Homo sapiens].
          Length = 395

 Score =  321 bits (822), Expect = 8e-88
 Identities = 178/316 (56%), Positives = 211/316 (66%), Gaps = 10/316 (3%)
 Frame = +3

Query: 90   MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVR---------TENNIQRYF 242
            M PRVS  +           SG PE             GTVR         T+NNIQRYF
Sbjct: 1    MFPRVSTFLPLRPLSRHPLSSGSPETSAAAIMLLTVRHGTVRYRSSALLARTKNNIQRYF 60

Query: 243  GTNNLVYSKKDEQSGPTCEISKET-ESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKP 419
            GTN+++ SKKD+QS  T E SKET ES+ S KEN+KKDLL IIKGMKVELSTVNV+TTKP
Sbjct: 61   GTNSVICSKKDKQSVRTEETSKETSESQDSEKENTKKDLLGIIKGMKVELSTVNVRTTKP 120

Query: 420  SNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQ 599
              +R LK+LE  +GR+++A E  P+KR                   PFD++ TKSELL Q
Sbjct: 121  PKRRPLKSLEATLGRLRRATEYAPKKRIEPLSPELVAAASAVADSLPFDKQTTKSELLSQ 180

Query: 600  LQKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEK 779
            LQ+HEE+SRAQ+D ++PKISFSNIISDMKVARSATARV +RP  +IQFDEG D++  QEK
Sbjct: 181  LQQHEEESRAQRDAKRPKISFSNIISDMKVARSATARVRSRPELRIQFDEGYDNYPGQEK 240

Query: 780  TLNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGF 959
            T +LKK  RKNIF G+RLNIF                SLWD+EFAKQLA V E+P QNGF
Sbjct: 241  TDDLKK--RKNIFTGKRLNIFDMMAVTKEAPETDTSPSLWDVEFAKQLATVNEQPLQNGF 298

Query: 960  EEMIQWTKKGKLWEFP 1007
            EE+IQWTK+GKLWEFP
Sbjct: 299  EELIQWTKEGKLWEFP 314


  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: 30,363,158
Number of extensions: 634053
Number of successful extensions: 2023
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2018
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 244
Effective length of database: 14,901,872
Effective search space: 3636056768
Effective search space used: 3636056768
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-003518
         (1043 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_065585.1| 28S ribosomal protein S31, mitochondrial precur...   278   7e-75

>ref|NP_065585.1| 28S ribosomal protein S31, mitochondrial precursor [Mus musculus].
          Length = 384

 Score =  278 bits (710), Expect = 7e-75
 Identities = 148/269 (55%), Positives = 185/269 (68%), Gaps = 1/269 (0%)
 Frame = +3

Query: 204  GTVRTENNIQRYFGTNNLVYSKKDEQSGPTCEIS-KETESKGSVKENSKKDLLNIIKGMK 380
            G VRTENNIQR+F T+  + SKK +QS P  EIS K  ES+G  KE  KKDLL+IIK MK
Sbjct: 37   GAVRTENNIQRHFCTSRSICSKKVDQSVPANEISQKAAESQGRGKETLKKDLLDIIKDMK 96

Query: 381  VELSTVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXP 560
            V+LST NV+T KP  ++   +LE  + R++KAPED P+KR                   P
Sbjct: 97   VDLSTANVKTPKPRGRKPSASLEATVDRLQKAPEDPPKKRNEFLSPELVAAASAVADSLP 156

Query: 561  FDRRMTKSELLRQLQKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQ 740
            FD++ TKSELLRQLQ+HEE+ RAQKD EK +ISF++IIS+MK+A+S + R STRP HQIQ
Sbjct: 157  FDKQTTKSELLRQLQQHEEELRAQKDREKRRISFTHIISNMKIAKSPSGRASTRPQHQIQ 216

Query: 741  FDEGTDDFADQEKTLNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQ 920
            FDE  D    QEK  + +K  RK +FKG+RL+IF                SLW+IEFAKQ
Sbjct: 217  FDEDMDSSLKQEKPTDFRK--RKYLFKGKRLSIFADKAFADEPPEPEASPSLWEIEFAKQ 274

Query: 921  LAAVTERPFQNGFEEMIQWTKKGKLWEFP 1007
            LA+V ++PF+NGFEEMIQWTK+GKLWEFP
Sbjct: 275  LASVADQPFENGFEEMIQWTKEGKLWEFP 303


  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: 26,052,149
Number of extensions: 549150
Number of successful extensions: 1745
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1741
Number of HSP's successfully gapped: 1
Length of query: 347
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 245
Effective length of database: 12,553,887
Effective search space: 3075702315
Effective search space used: 3075702315
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-003518
         (1043 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_001926138.2| PREDICTED: 28S ribosomal protein S31, mitoch...   471   e-133
Alignment   gi|XP_001926166.2| PREDICTED: 28S ribosomal protein S31, mitoch...   454   e-128
Alignment   gi|XP_003130991.2| PREDICTED: 28S ribosomal protein S31, mitoch...   250   8e-67

>ref|XP_001926138.2| PREDICTED: 28S ribosomal protein S31, mitochondrial isoform 1 [Sus
            scrofa].
          Length = 387

 Score =  471 bits (1212), Expect = e-133
 Identities = 246/306 (80%), Positives = 248/306 (81%)
 Frame = +3

Query: 90   MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVRTENNIQRYFGTNNLVYSK 269
            MLPRVSAVI          CSGGPE            RGTVRTENNIQRYFGTNNLVYSK
Sbjct: 1    MLPRVSAVIPLRPLSRLPLCSGGPEASAAAILLLDSLRGTVRTENNIQRYFGTNNLVYSK 60

Query: 270  KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 449
            KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE
Sbjct: 61   KDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPSNKRQLKNLE 120

Query: 450  TAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQLQKHEEDSRA 629
            TAIGRIKKAPED PQKR                   PFDRRMTKSELLRQLQKHEEDS+A
Sbjct: 121  TAIGRIKKAPEDAPQKRSESLSSELVAAVSAVADSLPFDRRMTKSELLRQLQKHEEDSKA 180

Query: 630  QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 809
            QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK
Sbjct: 181  QKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKTLNLKKSFRK 240

Query: 810  NIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKKG 989
            NIFKGRRLNIF                SLWDIEFAKQLAAVTERPFQNGFEEMIQWTK+G
Sbjct: 241  NIFKGRRLNIFEPQAVTEEAPETEAVPSLWDIEFAKQLAAVTERPFQNGFEEMIQWTKEG 300

Query: 990  KLWEFP 1007
            KLWEFP
Sbjct: 301  KLWEFP 306


>ref|XP_001926166.2| PREDICTED: 28S ribosomal protein S31, mitochondrial isoform 2 [Sus
            scrofa].
          Length = 394

 Score =  454 bits (1169), Expect = e-128
 Identities = 244/315 (77%), Positives = 246/315 (78%), Gaps = 9/315 (2%)
 Frame = +3

Query: 90   MLPRVSAVIXXXXXXXXXXCSGGPEXXXXXXXXXXXXRGTVR---------TENNIQRYF 242
            MLPRVSAVI          CSGGPE            RGTVR         TENNIQRYF
Sbjct: 1    MLPRVSAVIPLRPLSRLPLCSGGPEASAAAILLLDSLRGTVRYRISALLAPTENNIQRYF 60

Query: 243  GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS 422
            GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS
Sbjct: 61   GTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELSTVNVQTTKPS 120

Query: 423  NKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRRMTKSELLRQL 602
            NKRQLKNLETAIGRIKKAPED PQKR                   PFDRRMTKSELLRQL
Sbjct: 121  NKRQLKNLETAIGRIKKAPEDAPQKRSESLSSELVAAVSAVADSLPFDRRMTKSELLRQL 180

Query: 603  QKHEEDSRAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT 782
            QKHEEDS+AQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT
Sbjct: 181  QKHEEDSKAQKDGEKPKISFSNIISDMKVARSATARVSTRPVHQIQFDEGTDDFADQEKT 240

Query: 783  LNLKKSFRKNIFKGRRLNIFXXXXXXXXXXXXXXXXSLWDIEFAKQLAAVTERPFQNGFE 962
            LNLKK  RKNIFKGRRLNIF                SLWDIEFAKQLAAVTERPFQNGFE
Sbjct: 241  LNLKK--RKNIFKGRRLNIFEPQAVTEEAPETEAVPSLWDIEFAKQLAAVTERPFQNGFE 298

Query: 963  EMIQWTKKGKLWEFP 1007
            EMIQWTK+GKLWEFP
Sbjct: 299  EMIQWTKEGKLWEFP 313


>ref|XP_003130991.2| PREDICTED: 28S ribosomal protein S31, mitochondrial-like isoform 2
           [Sus scrofa].
          Length = 260

 Score =  250 bits (639), Expect = 8e-67
 Identities = 129/153 (84%), Positives = 131/153 (85%)
 Frame = +3

Query: 213 RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS 392
           RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS
Sbjct: 15  RTENNIQRYFGTNNLVYSKKDEQSGPTCEISKETESKGSVKENSKKDLLNIIKGMKVELS 74

Query: 393 TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRXXXXXXXXXXXXXXXXXXXPFDRR 572
           TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKR                   PFDRR
Sbjct: 75  TVNVQTTKPSNKRQLKNLETAIGRIKKAPEDTPQKRSESLSSELVAAVSAVADSLPFDRR 134

Query: 573 MTKSELLRQLQKHEEDSRAQKDGEKPKISFSNI 671
           MTKSELLRQLQKHEEDSRAQKDGEKPKI  + +
Sbjct: 135 MTKSELLRQLQKHEEDSRAQKDGEKPKIRSAGV 167


  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: 18,922,946
Number of extensions: 396252
Number of successful extensions: 1310
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 1299
Number of HSP's successfully gapped: 3
Length of query: 347
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 247
Effective length of database: 8,854,232
Effective search space: 2186995304
Effective search space used: 2186995304
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-003518
         (1043 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_Chr11                                                         575   e-161
Sscrofa_Chr09                                                         115   5e-23
Sscrofa_Chr04                                                         101   8e-19

>Sscrofa_Chr11 
||          Length = 87690581

 Score =  575 bits (290), Expect = e-161
 Identities = 290/290 (100%)
 Strand = Plus / Minus

                                                                            
Query: 211      tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 270
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757405 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 15757346

                                                                            
Query: 271      aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 330
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757345 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 15757286

                                                                            
Query: 331      taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 390
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757285 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 15757226

                                                                            
Query: 391      gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 450
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757225 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 15757166

                                                                  
Query: 451      ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 500
                ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15757165 ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 15757116



 Score =  567 bits (286), Expect = e-159
 Identities = 289/290 (99%)
 Strand = Plus / Minus

                                                                            
Query: 211      tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 270
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773471 tcaggacagaaaataatatccaaagatattttggcactaacaacttggtctatagcaaga 15773412

                                                                            
Query: 271      aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 330
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773411 aagatgagcagtctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtg 15773352

                                                                            
Query: 331      taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 390
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773351 taaaggagaattcgaaaaaagacttgctaaatattattaagggcatgaaagttgaattaa 15773292

                                                                            
Query: 391      gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 450
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15773291 gcacagtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggaga 15773232

                                                                  
Query: 451      ctgcaattggcagaattaaaaaagcgccagaagatactccgcaaaagagg 500
                ||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 15773231 ctgcaattggcagaattaaaaaagcgccagaagatgctccgcaaaagagg 15773182



 Score =  426 bits (215), Expect = e-116
 Identities = 215/215 (100%)
 Strand = Plus / Minus

                                                                            
Query: 1        gactgggaagcggaagtaggagtggagggcgtgtttggcgggggacgcaccttcgctgca 60
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775714 gactgggaagcggaagtaggagtggagggcgtgtttggcgggggacgcaccttcgctgca 15775655

                                                                            
Query: 61       gcgttcccggttttgatggtttctctgcgatgcttccgagggtctctgctgtcatccctc 120
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775654 gcgttcccggttttgatggtttctctgcgatgcttccgagggtctctgctgtcatccctc 15775595

                                                                            
Query: 121      ttcgccccctttcccgcctccctctgtgctccggaggcccagaggcatcggcggctgcca 180
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15775594 ttcgccccctttcccgcctccctctgtgctccggaggcccagaggcatcggcggctgcca 15775535

                                                   
Query: 181      tcctgctgctcgattctctgcgtggaacggtcagg 215
                |||||||||||||||||||||||||||||||||||
Sbjct: 15775534 tcctgctgctcgattctctgcgtggaacggtcagg 15775500



 Score =  319 bits (161), Expect = 2e-84
 Identities = 161/161 (100%)
 Strand = Plus / Minus

                                                                            
Query: 498      aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 557
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755911 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 15755852

                                                                            
Query: 558      ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 617
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755851 ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 15755792

                                                         
Query: 618      gactcaagggctcagaaggatggagagaagcctaaaattag 658
                |||||||||||||||||||||||||||||||||||||||||
Sbjct: 15755791 gactcaagggctcagaaggatggagagaagcctaaaattag 15755751



 Score =  303 bits (153), Expect = 1e-79
 Identities = 159/161 (98%)
 Strand = Plus / Minus

                                                                            
Query: 498      aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 557
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15771978 aggagtgagtctctgagctctgagttggtggcggctgtgtctgctgttgcagactctctc 15771919

                                                                            
Query: 558      ccttttgacagacggatgaccaagtcagagctgctcaggcagctgcagaagcatgaggaa 617
                |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 15771918 ccttttgacagacggatgaccaagtcagagctgctcaggcagctccagaagcatgaggaa 15771859

                                                         
Query: 618      gactcaagggctcagaaggatggagagaagcctaaaattag 658
                ||||||| |||||||||||||||||||||||||||||||||
Sbjct: 15771858 gactcaaaggctcagaaggatggagagaagcctaaaattag 15771818



 Score =  268 bits (135), Expect = 6e-69
 Identities = 135/135 (100%)
 Strand = Plus / Minus

                                                                            
Query: 657      agtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagttagt 716
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15769901 agtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagttagt 15769842

                                                                            
Query: 717      acaagaccagtgcatcagattcagtttgatgaaggaaccgatgattttgctgaccaagag 776
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15769841 acaagaccagtgcatcagattcagtttgatgaaggaaccgatgattttgctgaccaagag 15769782

                               
Query: 777      aagactctcaatctt 791
                |||||||||||||||
Sbjct: 15769781 aagactctcaatctt 15769767



 Score =  236 bits (119), Expect = 2e-59
 Identities = 128/131 (97%)
 Strand = Plus / Minus

                                                                            
Query: 877      cagaggcagtgccttctctttgggatatagaatttgctaagcagttagcagcagtcactg 936
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15749398 cagaggcagtgccttctctttgggatatagaatttgctaagcagttagcagcagtcactg 15749339

                                                                            
Query: 937      aacggccctttcaaaatggttttgaagagatgattcagtggacaaagaaggggaagttgt 996
                ||||||||||||| ||||||||||||||||||||||||||||||||  ||||||||||||
Sbjct: 15749338 aacggccctttcagaatggttttgaagagatgattcagtggacaaaagaggggaagttgt 15749279

                           
Query: 997      gggagttccca 1007
                |||||||||||
Sbjct: 15749278 gggagttccca 15749268



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

                                                                            
Query: 702      acagctagagttagtacaagaccagtgcatcagattcagtttgatgaaggaaccgatgat 761
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15753936 acagctagagttagtacaagaccagtgcatcagattcagtttgatgaaggaaccgatgat 15753877

                                              
Query: 762      tttgctgaccaagagaagactctcaatctt 791
                ||||||||||||||||||||||||||||||
Sbjct: 15753876 tttgctgaccaagagaagactctcaatctt 15753847



 Score =  161 bits (81), Expect = 9e-37
 Identities = 81/81 (100%)
 Strand = Plus / Minus

                                                                            
Query: 799      gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 858
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15752767 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 15752708

                                     
Query: 859      ctgaagaggcacctgaaacag 879
                |||||||||||||||||||||
Sbjct: 15752707 ctgaagaggcacctgaaacag 15752687



 Score =  161 bits (81), Expect = 9e-37
 Identities = 81/81 (100%)
 Strand = Plus / Minus

                                                                            
Query: 799      gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 858
                ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15768686 gttttaggaaaaatatattcaagggaaggagacttaatatttttgagcctcaggcagtta 15768627

                                     
Query: 859      ctgaagaggcacctgaaacag 879
                |||||||||||||||||||||
Sbjct: 15768626 ctgaagaggcacctgaaacag 15768606


>Sscrofa_Chr09 
||          Length = 153670197

 Score =  115 bits (58), Expect = 5e-23
 Identities = 130/150 (86%), Gaps = 3/150 (2%)
 Strand = Plus / Plus

                                                                            
Query: 225      aatatccaaagatattttggcactaaca-act-tggtctatagcaagaaagatgagcagt 282
                |||| ||||||||||||||| ||||||| | | || |||||||||||||||||| ||| |
Sbjct: 10172551 aatacccaaagatattttggtactaacatagtgtgatctatagcaagaaagatgtgcatt 10172610

                                                                            
Query: 283      ctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtgtaaaggagaatt 342
                ||| |||||||| ||||||| ||||||||| ||||||| ||| |||||||||||||||| 
Sbjct: 10172611 ctgctccaacctatgagattaccaaggagagagagagccaagacagtgtaaaggagaata 10172670

                                              
Query: 343      cg-aaaaaagacttgctaaatattattaag 371
                 | |||||||||||| | |||| |||||||
Sbjct: 10172671 agaaaaaaagacttgattaatactattaag 10172700



 Score =  115 bits (58), Expect = 5e-23
 Identities = 130/150 (86%), Gaps = 3/150 (2%)
 Strand = Plus / Minus

                                                                            
Query: 225      aatatccaaagatattttggcactaaca-act-tggtctatagcaagaaagatgagcagt 282
                |||| ||||||||||||||| ||||||| | | || |||||||||||||||||| ||| |
Sbjct: 10254009 aatacccaaagatattttggtactaacatagtgtgatctatagcaagaaagatgtgcatt 10253950

                                                                            
Query: 283      ctggtccaacctgtgagatttccaaggagacagagagcaaaggcagtgtaaaggagaatt 342
                ||| |||||||| ||||||| ||||||||| ||||||| ||| |||||||||||||||| 
Sbjct: 10253949 ctgctccaacctatgagattaccaaggagagagagagccaagacagtgtaaaggagaata 10253890

                                              
Query: 343      cg-aaaaaagacttgctaaatattattaag 371
                 | |||||||||||| | |||| |||||||
Sbjct: 10253889 agaaaaaaagacttgattaatactattaag 10253860



 Score =  101 bits (51), Expect = 8e-19
 Identities = 169/207 (81%), Gaps = 1/207 (0%)
 Strand = Plus / Plus

                                                                            
Query: 395      agtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggagactgc 454
                ||||||||||||||| | ||||||  |||||| |  ||||||||||  ||||||| ||  
Sbjct: 10172984 agtaaatgtacaaacaataaagccgcccaacagagaacaacttaaatgtttggaggctat 10173043

                                                                            
Query: 455      aattggcagaattaaaaaagcgccagaagatactccgcaaaagaggagtgagtctctgag 514
                || ||||||| || ||||||| ||||||||| | |   ||||||| ||||||||||||||
Sbjct: 10173044 aactggcagacttcaaaaagccccagaagatgc-ctaaaaaagagaagtgagtctctgag 10173102

                                                                            
Query: 515      ctctgagttggtggcggctgtgtctgctgttgcagactctctcccttttgacagacggat 574
                  || ||||||| |  ||||   ||||| |||||||||||||||||||||||| || || 
Sbjct: 10173103 tcctcagttggtagtagctgcacctgctattgcagactctctcccttttgacacacagac 10173162

                                           
Query: 575      gaccaagtcagagctgctcaggcagct 601
                 ||||||||  ||||||||||||||||
Sbjct: 10173163 aaccaagtccaagctgctcaggcagct 10173189



 Score =  101 bits (51), Expect = 8e-19
 Identities = 169/207 (81%), Gaps = 1/207 (0%)
 Strand = Plus / Minus

                                                                            
Query: 395      agtaaatgtacaaactacaaagccatccaacaaaagacaacttaaaaatttggagactgc 454
                ||||||||||||||| | ||||||  |||||| |  ||||||||||  ||||||| ||  
Sbjct: 10253576 agtaaatgtacaaacaataaagccgcccaacagagaacaacttaaatgtttggaggctat 10253517

                                                                            
Query: 455      aattggcagaattaaaaaagcgccagaagatactccgcaaaagaggagtgagtctctgag 514
                || ||||||| || ||||||| ||||||||| | |   ||||||| ||||||||||||||
Sbjct: 10253516 aactggcagacttcaaaaagccccagaagatgc-ctaaaaaagagaagtgagtctctgag 10253458

                                                                            
Query: 515      ctctgagttggtggcggctgtgtctgctgttgcagactctctcccttttgacagacggat 574
                  || ||||||| |  ||||   ||||| |||||||||||||||||||||||| || || 
Sbjct: 10253457 tcctcagttggtagtagctgcacctgctattgcagactctctcccttttgacacacagac 10253398

                                           
Query: 575      gaccaagtcagagctgctcaggcagct 601
                 ||||||||  ||||||||||||||||
Sbjct: 10253397 aaccaagtccaagctgctcaggcagct 10253371


>Sscrofa_Chr04 
||          Length = 143465943

 Score =  101 bits (51), Expect = 8e-19
 Identities = 124/146 (84%), Gaps = 3/146 (2%)
 Strand = Plus / Minus

                                                                            
Query: 594      aggcagctgcagaagcatgaggaagactcaagggctcagaaggatggagagaagcctaaa 653
                |||||||| ||| |||||||||||||  |||| ||  || | || ||||| |  ||||||
Sbjct: 27345004 aggcagctccaggagcatgaggaagatgcaagagcatagcaagacggagaaatacctaaa 27344945

                                                                            
Query: 654      attagtttcagtaacatcatatcagatatgaaagttgccagatctgccacagctagagtt 713
                ||||||||||||||||| |||||| | || |||||||||| ||||||  |||||||  ||
Sbjct: 27344944 attagtttcagtaacataatatca-agataaaagttgccatatctgctccagctag--tt 27344888

                                          
Query: 714      agtacaagaccagtgcatcagattca 739
                ||||||||||||||||||||||||||
Sbjct: 27344887 agtacaagaccagtgcatcagattca 27344862


  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: 36,363,112
Number of extensions: 350
Number of successful extensions: 350
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 345
Number of HSP's successfully gapped: 19
Length of query: 1043
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1022
Effective length of database: 2,808,413,156
Effective search space: 2870198245432
Effective search space used: 2870198245432
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)