Animal-Genome cDNA 20110601C-000083


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-000083
         (1684 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|YP_209214.1| NADH dehydrogenase subunit 4 [Bos taurus].           426   e-128
Alignment   gi|YP_209213.1| NADH dehydrogenase subunit 4L [Bos taurus].           99   9e-21

>ref|YP_209214.1| NADH dehydrogenase subunit 4 [Bos taurus].
          Length = 459

 Score =  426 bits (1095), Expect(2) = e-128
 Identities = 232/365 (63%), Positives = 264/365 (72%)
 Frame = +1

Query: 367  NATVHXXXXXXXXXXXXNQLGENSLNFSLTFFSDXXXXXXXXXXXXXXXXXXXXSQSHLS 546
            N+T H            NQ G+NSLNFSL FFSD                    SQ HLS
Sbjct: 26   NSTAHSLLISFTSLLLMNQFGDNSLNFSLLFFSDSLSTPLLILTMWLLPLMLMASQHHLS 85

Query: 547  KEXXXXXXXXXXXXXXXXXXXXXXXXATELILFYILFEATLVPTLIIITR*GNQTERLNA 726
            KE                        A ELILFYILFEATLVPTLIIITR GNQTERLNA
Sbjct: 86   KENLTRKKLFITMLISLQLFLIMTFTAMELILFYILFEATLVPTLIIITRWGNQTERLNA 145

Query: 727  GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXV 906
            GLYFLFYTLAGSLPLLVAL+YIQNT GSLNFL++ Y   P+ NS SN            V
Sbjct: 146  GLYFLFYTLAGSLPLLVALIYIQNTVGSLNFLMLQYWVQPVHNSWSNVFMWLACMMAFMV 205

Query: 907  KIPLYGLHL*LPKAHVEAPIAGSIVLAAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLX 1086
            K+PLYGLHL LPKAHVEAPIAGS+VLAAVLLKLGGYG++RIT ILNP+T+++AYPF+ML 
Sbjct: 206  KMPLYGLHLWLPKAHVEAPIAGSMVLAAVLLKLGGYGMLRITLILNPMTDFMAYPFIMLS 265

Query: 1087 XXXXXXXXXXCLRQTDLKSLIAYSSVSHIALVIVAIIIQTP*SFIGATALIIAHGLTSSI 1266
                      CLRQTDLKSLIAYSSVSH+ALVIVAI+IQTP S++GATAL+IAHGLTSS+
Sbjct: 266  LWGMIMTSSICLRQTDLKSLIAYSSVSHMALVIVAILIQTPWSYMGATALMIAHGLTSSM 325

Query: 1267 LFCLANTNYERVHSRTIILARGLQTLLPLIXT**LIASLTNLALPPSINLIGRIFIITAS 1446
            LFCLAN+NYER+HSRT+ILARGLQTLLPL+ T  L+ASLTNLALPP+INLIG +F++ ++
Sbjct: 326  LFCLANSNYERIHSRTMILARGLQTLLPLMATWWLLASLTNLALPPTINLIGELFVVMST 385

Query: 1447 FS*SN 1461
            FS SN
Sbjct: 386  FSWSN 390



 Score = 53.1 bits (126), Expect(2) = e-128
 Identities = 29/49 (59%), Positives = 31/49 (63%), Gaps = 1/49 (2%)
 Frame = +3

Query: 1500 AFYSLYLLITNPRGKYPXHINXIQPSFTRETP-SKPYYSTLLLLDLNPK 1643
            A YSLY+LI   RGKY  HIN I PSFTRE      +   LLLL LNPK
Sbjct: 404  ALYSLYMLIMTQRGKYTYHINNISPSFTRENALMSLHILPLLLLTLNPK 452


>ref|YP_209213.1| NADH dehydrogenase subunit 4L [Bos taurus].
          Length = 98

 Score = 99.4 bits (246), Expect = 9e-21
 Identities = 50/69 (72%), Positives = 56/69 (81%)
 Frame = +2

Query: 65  YRSHLISSLLCLEGMXXXXXXXXXXXXXNTHFTLANIIPIILLVFAACEAALGLSLLVIV 244
           YRSHL+SSLLCLEGM             N+HFTLA+++PIILLVFAACEAALGLSLLV+V
Sbjct: 22  YRSHLMSSLLCLEGMMLSLFVMAALTILNSHFTLASMMPIILLVFAACEAALGLSLLVMV 81

Query: 245 SNTYGTDYV 271
           SNTYGTDYV
Sbjct: 82  SNTYGTDYV 90


  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: 45,747,257
Number of extensions: 981003
Number of successful extensions: 2513
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 2482
Number of HSP's successfully gapped: 3
Length of query: 561
Length of database: 17,681,374
Length adjustment: 107
Effective length of query: 454
Effective length of database: 14,140,958
Effective search space: 6419994932
Effective search space used: 6419994932
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: 36 (18.5 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-000083
         (1684 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|NP_008480.1| NADH dehydrogenase subunit 4 [Canis lupus famil...   413   e-124
Alignment   gi|NP_008479.1| NADH dehydrogenase subunit 4L [Canis lupus fami...    96   8e-20

>ref|NP_008480.1| NADH dehydrogenase subunit 4 [Canis lupus familiaris].
          Length = 459

 Score =  413 bits (1061), Expect(2) = e-124
 Identities = 227/365 (62%), Positives = 258/365 (70%)
 Frame = +1

Query: 367  NATVHXXXXXXXXXXXXNQLGENSLNFSLTFFSDXXXXXXXXXXXXXXXXXXXXSQSHLS 546
            N T +            NQ  +N+LN SL FFSD                    SQ HLS
Sbjct: 26   NTTTYGLLISLISLFYLNQPNDNTLNSSLMFFSDSLSAPLLALTTWLLPLMLMASQHHLS 85

Query: 547  KEXXXXXXXXXXXXXXXXXXXXXXXXATELILFYILFEATLVPTLIIITR*GNQTERLNA 726
            KE                        A+ELI FYILFEATL+PTLIIITR GNQTERLNA
Sbjct: 86   KEPLTRKKLYISMLILLQLFLIMTFTASELIFFYILFEATLIPTLIIITRWGNQTERLNA 145

Query: 727  GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXV 906
            GLYFLFYTL GSLPLLVAL+YI N  GSLNFL+I Y   PL NS SN            V
Sbjct: 146  GLYFLFYTLMGSLPLLVALLYIHNFMGSLNFLMIQYWIQPLPNSWSNIFLWLACMMAFMV 205

Query: 907  KIPLYGLHL*LPKAHVEAPIAGSIVLAAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLX 1086
            K+PLYGLHL LPKAHVEAPIAGS+VLAAVLLKLGGYG+MRITT+LNPLTN++AYPF+ML 
Sbjct: 206  KMPLYGLHLWLPKAHVEAPIAGSMVLAAVLLKLGGYGMMRITTLLNPLTNFMAYPFMMLS 265

Query: 1087 XXXXXXXXXXCLRQTDLKSLIAYSSVSHIALVIVAIIIQTP*SFIGATALIIAHGLTSSI 1266
                      CLRQTDLKSLIAYSSVSH+ALVIVA++IQTP S++GATAL+IAHGLTSS+
Sbjct: 266  LWGMIMTSSICLRQTDLKSLIAYSSVSHMALVIVAVLIQTPWSYMGATALMIAHGLTSSM 325

Query: 1267 LFCLANTNYERVHSRTIILARGLQTLLPLIXT**LIASLTNLALPPSINLIGRIFIITAS 1446
            LFCLAN+NYER+HSRT+ILARGLQTLLPL+    L+ASLTNLALPP+INLIG +F++ +S
Sbjct: 326  LFCLANSNYERIHSRTMILARGLQTLLPLMAAWWLLASLTNLALPPTINLIGELFVVMSS 385

Query: 1447 FS*SN 1461
            FS SN
Sbjct: 386  FSWSN 390



 Score = 53.9 bits (128), Expect(2) = e-124
 Identities = 29/49 (59%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
 Frame = +3

Query: 1500 AFYSLYLLITNPRGKYPXHINXIQPSFTRETPSKP-YYSTLLLLDLNPK 1643
            A YSLY+LIT  RGKY  HI  I+PSFTRE      +   LLLL LNPK
Sbjct: 404  ALYSLYMLITTQRGKYSHHIKNIKPSFTRENALMTLHLLPLLLLSLNPK 452


>ref|NP_008479.1| NADH dehydrogenase subunit 4L [Canis lupus familiaris].
          Length = 98

 Score = 96.3 bits (238), Expect = 8e-20
 Identities = 48/69 (69%), Positives = 54/69 (78%)
 Frame = +2

Query: 65  YRSHLISSLLCLEGMXXXXXXXXXXXXXNTHFTLANIIPIILLVFAACEAALGLSLLVIV 244
           YRSHL+SSLLCLEGM             N H TLA+++PI+LLVFAACEAALGLSLLV+V
Sbjct: 22  YRSHLMSSLLCLEGMMLSLFVMMSVTILNNHLTLASMMPIVLLVFAACEAALGLSLLVMV 81

Query: 245 SNTYGTDYV 271
           SNTYGTDYV
Sbjct: 82  SNTYGTDYV 90


  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: 47,743,477
Number of extensions: 1001767
Number of successful extensions: 2477
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 2434
Number of HSP's successfully gapped: 3
Length of query: 561
Length of database: 18,874,504
Length adjustment: 108
Effective length of query: 453
Effective length of database: 15,274,216
Effective search space: 6919219848
Effective search space used: 6919219848
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: 36 (18.5 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-000083
         (1684 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|YP_003024035.1| NADH dehydrogenase subunit 4 [Homo sapiens].      368   e-108
Alignment   gi|YP_003024034.1| NADH dehydrogenase subunit 4L [Homo sapiens].      91   4e-18

>ref|YP_003024035.1| NADH dehydrogenase subunit 4 [Homo sapiens].
          Length = 459

 Score =  368 bits (945), Expect(2) = e-108
 Identities = 203/365 (55%), Positives = 238/365 (65%)
 Frame = +1

Query: 367  NATVHXXXXXXXXXXXXNQLGENSLNFSLTFFSDXXXXXXXXXXXXXXXXXXXXSQSHLS 546
            N T H            NQ+  N  + S TF SD                    SQ HLS
Sbjct: 26   NTTTHSLIISIIPLLFFNQINNNLFSCSPTFSSDPLTTPLLMLTTWLLPLTIMASQRHLS 85

Query: 547  KEXXXXXXXXXXXXXXXXXXXXXXXXATELILFYILFEATLVPTLIIITR*GNQTERLNA 726
             E                        ATELI+FYI FE TL+PTL IITR GNQ ERLNA
Sbjct: 86   SEPLSRKKLYLSMLISLQISLIMTFTATELIMFYIFFETTLIPTLAIITRWGNQPERLNA 145

Query: 727  GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXV 906
            G YFLFYTL GSLPLL+AL+Y  NT GSLN L++   +  LSNS +N            V
Sbjct: 146  GTYFLFYTLVGSLPLLIALIYTHNTLGSLNILLLTLTAQELSNSWANNLMWLAYTMAFMV 205

Query: 907  KIPLYGLHL*LPKAHVEAPIAGSIVLAAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLX 1086
            K+PLYGLHL LPKAHVEAPIAGS+VLAAVLLKLGGYG+MR+T ILNPLT ++AYPFL+L 
Sbjct: 206  KMPLYGLHLWLPKAHVEAPIAGSMVLAAVLLKLGGYGMMRLTLILNPLTKHMAYPFLVLS 265

Query: 1087 XXXXXXXXXXCLRQTDLKSLIAYSSVSHIALVIVAIIIQTP*SFIGATALIIAHGLTSSI 1266
                      CLRQTDLKSLIAYSS+SH+ALV+ AI+IQTP SF GA  L+IAHGLTSS+
Sbjct: 266  LWGMIMTSSICLRQTDLKSLIAYSSISHMALVVTAILIQTPWSFTGAVILMIAHGLTSSL 325

Query: 1267 LFCLANTNYERVHSRTIILARGLQTLLPLIXT**LIASLTNLALPPSINLIGRIFIITAS 1446
            LFCLAN+NYER HSR +IL++GLQTLLPL+    L+ASL NLALPP+INL+G + ++  +
Sbjct: 326  LFCLANSNYERTHSRIMILSQGLQTLLPLMAFWWLLASLANLALPPTINLLGELSVLVTT 385

Query: 1447 FS*SN 1461
            FS SN
Sbjct: 386  FSWSN 390



 Score = 43.5 bits (101), Expect(2) = e-108
 Identities = 24/48 (50%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
 Frame = +3

Query: 1500 AFYSLYLLITNPRGKYPXHINXIQPSFTRE-TPSKPYYSTLLLLDLNP 1640
            A YSLY+  T   G    HIN ++PSFTRE T    + S +LLL LNP
Sbjct: 404  ALYSLYMFTTTQWGSLTHHINNMKPSFTRENTLMFMHLSPILLLSLNP 451


>ref|YP_003024034.1| NADH dehydrogenase subunit 4L [Homo sapiens].
          Length = 98

 Score = 90.5 bits (223), Expect = 4e-18
 Identities = 45/69 (65%), Positives = 51/69 (73%)
 Frame = +2

Query: 65  YRSHLISSLLCLEGMXXXXXXXXXXXXXNTHFTLANIIPIILLVFAACEAALGLSLLVIV 244
           YRSHL+SSLLCLEGM             NTH  LANI+PI +LVFAACEAA+GL+LLV +
Sbjct: 22  YRSHLMSSLLCLEGMMLSLFIMATLMTLNTHSLLANIVPIAMLVFAACEAAVGLALLVSI 81

Query: 245 SNTYGTDYV 271
           SNTYG DYV
Sbjct: 82  SNTYGLDYV 90


  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: 47,083,628
Number of extensions: 1001691
Number of successful extensions: 2568
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 2558
Number of HSP's successfully gapped: 3
Length of query: 561
Length of database: 18,297,164
Length adjustment: 108
Effective length of query: 453
Effective length of database: 14,737,052
Effective search space: 6675884556
Effective search space used: 6675884556
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: 36 (18.5 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-000083
         (1684 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_904337.1| NADH dehydrogenase subunit 4 [Mus musculus].         371   e-107
Alignment   gi|NP_904336.1| NADH dehydrogenase subunit 4L [Mus musculus].         77   4e-14
Alignment   gi|NP_904338.1| NADH dehydrogenase subunit 5 [Mus musculus].          50   7e-06

>ref|NP_904337.1| NADH dehydrogenase subunit 4 [Mus musculus].
          Length = 459

 Score =  371 bits (952), Expect(2) = e-107
 Identities = 200/347 (57%), Positives = 242/347 (69%)
 Frame = +1

Query: 421  QLGENSLNFSLTFFSDXXXXXXXXXXXXXXXXXXXXSQSHLSKEXXXXXXXXXXXXXXXX 600
            Q  EN  NFS  F SD                    SQ+HL K+                
Sbjct: 44   QTDENYKNFSNMFSSDPLSTPLIILTAWLLPLMLMASQNHLKKDNNVLQKLYISMLISLQ 103

Query: 601  XXXXXXXXATELILFYILFEATLVPTLIIITR*GNQTERLNAGLYFLFYTLAGSLPLLVA 780
                    ATELI+FYILFEATL+PTLIIITR GNQTERLNAG+YFLFYTL GS+PLL+A
Sbjct: 104  ILLIMTFSATELIMFYILFEATLIPTLIIITRWGNQTERLNAGIYFLFYTLIGSIPLLIA 163

Query: 781  LVYIQNTTGSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXVKIPLYGLHL*LPKAHVEA 960
            L+ IQN  G+LN +I+ + +H L  S SN            +K+PLYG+HL LPKAHVEA
Sbjct: 164  LILIQNHVGTLNLMILSFTTHTLDASWSNNLLWLACMMAFLIKMPLYGVHLWLPKAHVEA 223

Query: 961  PIAGSIVLAAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLXXXXXXXXXXXCLRQTDLK 1140
            PIAGS++LAA+LLKLG YG++RI+ IL+PLT Y+AYPF++L           CLRQTDLK
Sbjct: 224  PIAGSMILAAILLKLGSYGMIRISIILDPLTKYMAYPFILLSLWGMIMTSSICLRQTDLK 283

Query: 1141 SLIAYSSVSHIALVIVAIIIQTP*SFIGATALIIAHGLTSSILFCLANTNYERVHSRTII 1320
            SLIAYSSVSH+ALVI +I+IQTP SF+GAT L+IAHGLTSS+LFCLAN+NYER+HSRT+I
Sbjct: 284  SLIAYSSVSHMALVIASIMIQTPWSFMGATMLMIAHGLTSSLLFCLANSNYERIHSRTMI 343

Query: 1321 LARGLQTLLPLIXT**LIASLTNLALPPSINLIGRIFIITASFS*SN 1461
            +ARGLQ + PL+ T  L+ASL NLALPPSINL+G +FI  + FS SN
Sbjct: 344  MARGLQMVFPLMATWWLMASLANLALPPSINLMGELFITMSLFSWSN 390



 Score = 39.3 bits (90), Expect(2) = e-107
 Identities = 21/47 (44%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
 Frame = +3

Query: 1506 YSLYLLITNPRGKYPXHINXIQPSFTRE-TPSKPYYSTLLLLDLNPK 1643
            YS+Y++IT  RGK   H+  +QPS TRE T    +   L+LL  +PK
Sbjct: 406  YSMYMIITTQRGKLTNHMINLQPSHTRELTLMALHMIPLILLTTSPK 452


>ref|NP_904336.1| NADH dehydrogenase subunit 4L [Mus musculus].
          Length = 98

 Score = 77.0 bits (188), Expect = 4e-14
 Identities = 40/69 (57%), Positives = 49/69 (71%)
 Frame = +2

Query: 65  YRSHLISSLLCLEGMXXXXXXXXXXXXXNTHFTLANIIPIILLVFAACEAALGLSLLVIV 244
           +RSHL+S+LLCLEGM             N++   +  IPI +LVFAACEAA+GL+LLV V
Sbjct: 22  FRSHLMSTLLCLEGMVLSLFIMTSVTSLNSNSMSSMPIPITILVFAACEAAVGLALLVKV 81

Query: 245 SNTYGTDYV 271
           SNTYGTDYV
Sbjct: 82  SNTYGTDYV 90


>ref|NP_904338.1| NADH dehydrogenase subunit 5 [Mus musculus].
          Length = 607

 Score = 49.7 bits (117), Expect = 7e-06
 Identities = 59/274 (21%), Positives = 106/274 (38%), Gaps = 1/274 (0%)
 Frame = +1

Query: 625  ATELILFYILFEATLVPTLIIITR*GNQTERLNAGLYFLFYTLAGSLPLLVALVYIQNTT 804
            A  +   +I +E   + + ++I     +T+   A L  + Y   G +  ++A+V+     
Sbjct: 134  ANNMFQLFIGWEGVGIMSFLLIGWWYGRTDANTAALQAILYNRIGDIGFILAMVWFSLNM 193

Query: 805  GSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXVKIPLYGLHL*LPKAHVEAPIAGSIVL 984
             S     I +     SN+  N             K   +GLH  LP A +E P   S +L
Sbjct: 194  NSWELQQIMF-----SNNNDNLIPLMGLLIAATGKSAQFGLHPWLPSA-MEGPTPVSALL 247

Query: 985  AAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLXXXXXXXXXXXCLRQTDLKSLIAYSSV 1164
             +  + + G  ++     L    N+I    L L            L Q D+K +IA+S+ 
Sbjct: 248  HSSTMVVAGIFLLVRFHPLTTNNNFILTTMLCLGALTTLFTAICALTQNDIKKIIAFSTS 307

Query: 1165 SHIALVIVAIIIQTP*SFIGATALIIAHGLTSSILF-CLANTNYERVHSRTIILARGLQT 1341
            S + L++V + +  P     A   I  H    ++LF C  +  +     + I     +  
Sbjct: 308  SQLGLMMVTLGMNQPHL---AFLHICTHAFFKAMLFMCSGSIIHSLADEQDIRKMGNITK 364

Query: 1342 LLPLIXT**LIASLTNLALPPSINLIGRIFIITA 1443
            ++P   +  +I SL    +P       +  II A
Sbjct: 365  IMPFTSSCLVIGSLALTGMPFLTGFYSKDLIIEA 398


  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: 40,453,176
Number of extensions: 867242
Number of successful extensions: 2456
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2444
Number of HSP's successfully gapped: 4
Length of query: 561
Length of database: 15,617,559
Length adjustment: 107
Effective length of query: 454
Effective length of database: 12,403,707
Effective search space: 5631282978
Effective search space used: 5631282978
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: 36 (18.5 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-000083
         (1684 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|NP_008643.1| NADH dehydrogenase subunit 4 [Sus scrofa].           471   e-142
Alignment   gi|NP_008642.1| NADH dehydrogenase subunit 4L [Sus scrofa].          102   5e-22

>ref|NP_008643.1| NADH dehydrogenase subunit 4 [Sus scrofa].
          Length = 459

 Score =  471 bits (1212), Expect(2) = e-142
 Identities = 263/365 (72%), Positives = 276/365 (75%)
 Frame = +1

Query: 367  NATVHXXXXXXXXXXXXNQLGENSLNFSLTFFSDXXXXXXXXXXXXXXXXXXXXSQSHLS 546
            NATVH            NQLGENSLNFSLTFFSD                    SQSHLS
Sbjct: 26   NATVHSLLISLISLSLLNQLGENSLNFSLTFFSDSLSAPLLVLTTWLLPLMLMASQSHLS 85

Query: 547  KEXXXXXXXXXXXXXXXXXXXXXXXXATELILFYILFEATLVPTLIIITR*GNQTERLNA 726
            KE                        ATELILFYILFEATLVPTLIIITR GNQTERLNA
Sbjct: 86   KETTTRKKLYITMLILLQLFLIMTFTATELILFYILFEATLVPTLIIITRWGNQTERLNA 145

Query: 727  GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHY*SHPLSNS*SNXXXXXXXXXXXXV 906
            GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHY SHPLSNS SN            V
Sbjct: 146  GLYFLFYTLAGSLPLLVALVYIQNTTGSLNFLIIHYWSHPLSNSWSNIFMWLACIMAFMV 205

Query: 907  KIPLYGLHL*LPKAHVEAPIAGSIVLAAVLLKLGGYGIMRITTILNPLTNYIAYPFLMLX 1086
            K+PLYGLHL LPKAHVEAPIAGS+VLAAVLLKLGGYG+MRITTILNPLTNY+AYPFLML 
Sbjct: 206  KMPLYGLHLWLPKAHVEAPIAGSMVLAAVLLKLGGYGMMRITTILNPLTNYMAYPFLMLS 265

Query: 1087 XXXXXXXXXXCLRQTDLKSLIAYSSVSHIALVIVAIIIQTP*SFIGATALIIAHGLTSSI 1266
                      CLRQTDLKSLIAYSSVSH+ALVIVAI+IQTP SF+GATAL+IAHGLTSS+
Sbjct: 266  MWGMIMTSSICLRQTDLKSLIAYSSVSHMALVIVAIMIQTPWSFMGATALMIAHGLTSSM 325

Query: 1267 LFCLANTNYERVHSRTIILARGLQTLLPLIXT**LIASLTNLALPPSINLIGRIFIITAS 1446
            LFCLANTNYERVHSRT+ILARGLQTLLPL+ T  L+ASLTNLALPPSINLIG +FIITAS
Sbjct: 326  LFCLANTNYERVHSRTMILARGLQTLLPLMATWWLMASLTNLALPPSINLIGELFIITAS 385

Query: 1447 FS*SN 1461
            FS SN
Sbjct: 386  FSWSN 390



 Score = 52.8 bits (125), Expect(2) = e-142
 Identities = 29/49 (59%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
 Frame = +3

Query: 1500 AFYSLYLLITNPRGKYPXHINXIQPSFTRETPSKP-YYSTLLLLDLNPK 1643
            A YSLY+LIT  RGKY  HIN I+ SFTRE      +   LLLL LNPK
Sbjct: 404  ALYSLYMLITTQRGKYTHHINNIKASFTRENALMALHILPLLLLTLNPK 452


>ref|NP_008642.1| NADH dehydrogenase subunit 4L [Sus scrofa].
          Length = 98

 Score =  102 bits (255), Expect = 5e-22
 Identities = 52/69 (75%), Positives = 56/69 (81%)
 Frame = +2

Query: 65  YRSHLISSLLCLEGMXXXXXXXXXXXXXNTHFTLANIIPIILLVFAACEAALGLSLLVIV 244
           YRSHL+SSLLCLEGM             NTHFTLAN++PIILLVFAACEAALGLSLLV+V
Sbjct: 22  YRSHLMSSLLCLEGMMLSLFIMSTLIILNTHFTLANMMPIILLVFAACEAALGLSLLVMV 81

Query: 245 SNTYGTDYV 271
           SNTYGTDYV
Sbjct: 82  SNTYGTDYV 90


  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: 29,420,886
Number of extensions: 639355
Number of successful extensions: 1514
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1505
Number of HSP's successfully gapped: 3
Length of query: 561
Length of database: 11,343,932
Length adjustment: 104
Effective length of query: 457
Effective length of database: 8,754,644
Effective search space: 4000872308
Effective search space used: 4000872308
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 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-000083
         (1684 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                                                        1740   0.0  
Sscrofa_Chr17                                                         470   e-129
Sscrofa_Chr16                                                         198   7e-48
Sscrofa_Chr14                                                         188   7e-45
Sscrofa_Chr05                                                         174   1e-40
Sscrofa_Chr18                                                         143   4e-31
Sscrofa_Chr06                                                         113   3e-22
Sscrofa_ChrX                                                           90   5e-15
Sscrofa_Chr13                                                          64   3e-07

>Sscrofa_Chr02 
||          Length = 162569375

 Score = 1740 bits (878), Expect = 0.0
 Identities = 1414/1591 (88%), Gaps = 6/1591 (0%)
 Strand = Plus / Plus

                                                                             
Query: 2         gtgccattagtatatataaacatcattatagcattcgcgatcgcccttgcagggttactt 61
                 |||||||||||||| |||||||| ||| ||||||||||  ||||||||  |||  |||| 
Sbjct: 120056497 gtgccattagtatacataaacattattgtagcattcgcagtcgcccttataggactactc 120056556

                                                                             
Query: 62        atatatcgatctcacttaatatcttcactactatgcctagaaggaatgatactatcacta 121
                 ||||| |||||||||||||||||||||||||| |||||||| ||||||||| ||||||| 
Sbjct: 120056557 atataccgatctcacttaatatcttcactactgtgcctagagggaatgatattatcactt 120056616

                                                                             
Query: 122       ttcatcatatcgactctaattatcctaaacacacacttcaccctagctaacataataccc 181
                 ||||||||||| ||| ||||  || ||| |||||||||||||||||||| ||||||||| 
Sbjct: 120056617 ttcatcatatctactttaatcgtcttaagcacacacttcaccctagctagcataatacct 120056676

                                                                             
Query: 182       attattttactagtgtttgcagcctgcgaagctgcactaggcctgtcactactagtaata 241
                 ||||||||| |||| |||||||||||||| || ||||| || |||||| |||||||||||
Sbjct: 120056677 attattttattagtatttgcagcctgcgaggccgcactcggtctgtcattactagtaata 120056736

                                                                             
Query: 242       gtatccaacacatacggtaccgattacgtccaaaacttaaaccttttacaatgctaaaaa 301
                 ||||| || ||||| ||||| |||||| |||||||  |||| || |||||||||||||||
Sbjct: 120056737 gtatctaatacatatggtacggattacatccaaaatctaaatctcttacaatgctaaaaa 120056796

                                                                             
Query: 302       ttattatcccaacaacaatactactacccataacatgaatatctaaacacaacataatct 361
                 |||||||||||||||||||||||||||||||||||||||||||||||||||  |||||||
Sbjct: 120056797 ttattatcccaacaacaatactactacccataacatgaatatctaaacacagtataatct 120056856

                                                                             
Query: 362       gaatcaatgcaacagtacatagtctcctcattagcctgatcagtctatccctactaaacc 421
                 |||| ||||||||||||||||| ||||| |||||||| || || || |||||| ||||||
Sbjct: 120056857 gaattaatgcaacagtacatagcctccttattagcctaattagcctctccctattaaacc 120056916

                                                                             
Query: 422       aactaggcgaaaacagccttaatttttccttaacattcttctccgactcactatcagcac 481
                 |||||  ||| ||||| |||||||| ||  | ||||| ||||||||||||||||||  ||
Sbjct: 120056917 aactaaacgacaacagtcttaatttctctctgacatttttctccgactcactatcaatac 120056976

                                                                             
Query: 482       ccctactagttctaaccacatgactcctcccccttatactaatagctagccaatctcacc 541
                 |||||||||||||||||| |||||||||||||||||||||||||||||| ||||| ||| 
Sbjct: 120056977 ccctactagttctaaccatatgactcctcccccttatactaatagctagtcaatcccact 120057036

                                                                             
Query: 542       tatcaaaagaaaccacaacccgnnnnnnnctatatattaccatactaatcctactacaac 601
                 ||||||||||||| ||||||||       ||||| || || |||||||||||||||||||
Sbjct: 120057037 tatcaaaagaaacaacaacccgaaaaaaactatacatcactatactaatcctactacaac 120057096

                                                                             
Query: 602       tattcctaattataaccttcaccgccaccgaactaatcctattctatatcctattcgaag 661
                 |||||||||| ||||||||||| ||||||||||||||| |||| ||||| ||||||||||
Sbjct: 120057097 tattcctaatcataaccttcactgccaccgaactaatcttattttatattctattcgaag 120057156

                                                                             
Query: 662       caacactagtacccacactaattatcatcacacgctgaggaaaccaaacagaacgactca 721
                 |||||||||| |||||| ||||||| || |||||||||||||| ||||||||||||||||
Sbjct: 120057157 caacactagtgcccacattaattattattacacgctgaggaaatcaaacagaacgactca 120057216

                                                                             
Query: 722       atgcaggactttatttcctattctacaccctagcaggatccctaccactgctagtagcac 781
                 |||||||||| |||||| ||||||| ||||||||||||||||||||||| || |||||||
Sbjct: 120057217 atgcaggactgtatttcttattctataccctagcaggatccctaccactactggtagcac 120057276

                                                                             
Query: 782       tagtttatatccaaaataccacaggctcactaaacttcttaattatccattactgatccc 841
                 |||| || || |||||||| |||||||||||||| ||||||||||| || |||||  |||
Sbjct: 120057277 tagtctacattcaaaatactacaggctcactaaatttcttaattattcactactgggccc 120057336

                                                                             
Query: 842       acccattatccaactcttgatcaaacatttttatatgattagcatgcatcatagccttca 901
                 ||||| || | ||  |||||||||| |||||||||||| ||||||||||||| |||||||
Sbjct: 120057337 acccactacctaatacttgatcaaatatttttatatgactagcatgcatcatggccttca 120057396

                                                                             
Query: 902       tagtaaaaatacctctgtacggactccatctttgactgccaaaagcccatgtagaagccc 961
                 ||||||||||||| ||||| |||||||| |||||||||||||||||||||||||||||||
Sbjct: 120057397 tagtaaaaataccactgtatggactccacctttgactgccaaaagcccatgtagaagccc 120057456

                                                                             
Query: 962       ccattgcaggttcaatagtacttgcagccgtactgctaaaactcggaggctatggcataa 1021
                 | |||||||||||||||||||||||||||||||||||||| || ||||||||||| ||||
Sbjct: 120057457 ctattgcaggttcaatagtacttgcagccgtactgctaaagcttggaggctatggtataa 120057516

                                                                             
Query: 1022      tgcgaatcactactattctaaacccactaacaaactacatagcctatccattcctcatgc 1081
                 | ||||| || |||||||||||||||||||||||||||||||| || ||||| || || |
Sbjct: 120057517 tacgaattaccactattctaaacccactaacaaactacatagcttacccatttcttatac 120057576

                                                                             
Query: 1082      tttccatatgaggcataatcataaccagctctatctgcttacgtcaaaccgacctaaaat 1141
                 |||||||||| |||||||| |||||||||||||| |||||||||||||| ||||||||||
Sbjct: 120057577 tttccatatggggcataattataaccagctctatttgcttacgtcaaactgacctaaaat 120057636

                                                                             
Query: 1142      ccttaatcgcctattcatcagtaagtcatatagcacttgtaatcgtagcaatcataattc 1201
                 || |||| || || ||||||||||| ||||||||||||||||| ||||||||||||||||
Sbjct: 120057637 ccctaattgcttactcatcagtaagccatatagcacttgtaattgtagcaatcataattc 120057696

                                                                             
Query: 1202      aaaccccctgaagcttcataggggccacagctctcataattgcccacggactaacatcct 1261
                 |||||||| ||||||||||||| ||||||||||| ||||| ||||||||| |||||||||
Sbjct: 120057697 aaaccccccgaagcttcataggagccacagctcttataatcgcccacggattaacatcct 120057756

                                                                             
Query: 1262      ccatactattctgcctagccaacactaactatgaacgagtacacagccgaaccataatcc 1321
                 ||||||||||||||||||| || |||||||| ||||||||||| || ||||| |||||||
Sbjct: 120057757 ccatactattctgcctagctaatactaactacgaacgagtacatagtcgaactataatcc 120057816

                                                                             
Query: 1322      tggcccgaggactgcaaacactcctaccactcatagncacatgatgactaatagcaagcc 1381
                 | ||||||||||| |||||| |||||||||| ||||  ||||||||||||||||||||||
Sbjct: 120057817 tagcccgaggactacaaacattcctaccacttatagcaacatgatgactaatagcaagcc 120057876

                                                                             
Query: 1382      tcacaaacctagccctacccccatccatcaatctaatcggaagaatatttatcatcacag 1441
                 ||||||| |||||||||||||||||||||||| |||| |||  | |||| ||||| ||||
Sbjct: 120057877 tcacaaatctagccctacccccatccatcaatttaattggagaattattcatcattacag 120057936

                                                                             
Query: 1442      catcattttcatgatccaacatcacaattattctcataggaataaacataataatta-ag 1500
                 |||||||||| ||||||||||||||||||||||| |||||| |||| ||| |||||| ||
Sbjct: 120057937 catcattttcctgatccaacatcacaattattcttataggactaaatatactaattacag 120057996

                                                                             
Query: 1501      ccttctactctctctacttactaattactaac-ccacgaggaaaatacccccancacatt 1559
                 || |||||||||||||| ||||||||| |||| | ||||||||||||  |||| | ||||
Sbjct: 120057997 ccctctactctctctacatactaatta-taacacaacgaggaaaatatacccaccccatt 120058055

                                                
Query: 1560      aacnacatccaaccctcattcacacgagaaa 1590
                 |   ||||| |||||||||| ||||||||||
Sbjct: 120058056 a---acatcaaaccctcatttacacgagaaa 120058083



 Score = 1723 bits (869), Expect = 0.0
 Identities = 1412/1591 (88%), Gaps = 9/1591 (0%)
 Strand = Plus / Minus

                                                                            
Query: 2        gtgccattagtatatataaacatcattatagcattcgcgatcgcccttgcagggttactt 61
                ||||||||||||||||||||||| ||  ||||||||||  ||||||||  |||  |||| 
Sbjct: 96268603 gtgccattagtatatataaacattatcgtagcattcgcagtcgcccttataggactactc 96268544

                                                                            
Query: 62       atatatcgatctcacttaatatcttcactactatgcctagaaggaatgatactatcacta 121
                ||||| |||||||||||||| |||||||||||||||||||| ||||| ||| ||||||| 
Sbjct: 96268543 atataccgatctcacttaatgtcttcactactatgcctagagggaataatattatcactt 96268484

                                                                            
Query: 122      ttcatcatatcgactctaattatcctaaacacacacttcaccctagctaacataataccc 181
                ||||||||||| ||| ||||| || ||||||||||||||||||| |||| ||||||||||
Sbjct: 96268483 ttcatcatatctactttaattgtcttaaacacacacttcacccttgctagcataataccc 96268424

                                                                            
Query: 182      attattttactagtgtttgcagcctgcgaagctgcactaggcctgtcactactagtaata 241
                |||||| || |||| |||||||| ||||| || ||||| || || ||  ||||||| |||
Sbjct: 96268423 attattctattagtatttgcagcttgcgaggccgcactcggtctatcgttactagtgata 96268364

                                                                            
Query: 242      gtatccaacacatacggtaccgattacgtccaaaacttaaaccttttacaatgctaaaaa 301
                |||||||| ||||| |||||||| |||||||||||| |||| || |||||||||||| ||
Sbjct: 96268363 gtatccaatacatatggtaccgactacgtccaaaacctaaatctcttacaatgctaataa 96268304

                                                                            
Query: 302      ttattatcccaacaacaatactactacccataacatgaatatctaaacacaacataatct 361
                ||||||| ||||||| |||||||||||||||||||||||||||||||||||  |||||||
Sbjct: 96268303 ttattattccaacaa-aatactactacccataacatgaatatctaaacacagtataatct 96268245

                                                                            
Query: 362      gaatcaatgcaacagtacatagtctcctcattagcctgatcagtctatccctactaaacc 421
                |||| ||||||||||||||||| ||||| |||||||| || ||||| |||||| ||||||
Sbjct: 96268244 gaattaatgcaacagtacatagcctccttattagcctaattagtctctccctattaaacc 96268185

                                                                            
Query: 422      aactaggcgaaaacagccttaatttttccttaacattcttctccgactcactatcagcac 481
                | |||  ||| ||||| ||||| || |    |||||| |||||||||||||||||| |||
Sbjct: 96268184 agctaaacgacaacagtcttaacttct----aacatttttctccgactcactatcaacac 96268129

                                                                            
Query: 482      ccctactagttctaaccacatgactcctcccccttatactaatagctagccaatctcacc 541
                | ||||||||||||||||||||||| || ||||||||||||| |||||| ||||| ||| 
Sbjct: 96268128 ctctactagttctaaccacatgacttcttccccttatactaacagctagtcaatcccact 96268069

                                                                            
Query: 542      tatcaaaagaaaccacaacccgnnnnnnnctatatattaccatactaatcctactacaac 601
                ||||||||||||| ||||||||       ||||| || ||||||||||||||||||||||
Sbjct: 96268068 tatcaaaagaaacaacaacccgaaaaaaactatacatcaccatactaatcctactacaac 96268009

                                                                            
Query: 602      tattcctaattataaccttcaccgccaccgaactaatcctattctatatcctattcgaag 661
                |||||||||||||||||||||||||||||||||||||| |||| ||||| ||||||||||
Sbjct: 96268008 tattcctaattataaccttcaccgccaccgaactaatcttattttatattctattcgaag 96267949

                                                                            
Query: 662      caacactagtacccacactaattatcatcacacgctgaggaaaccaaacagaacgactca 721
                ||||||||||||||||| |||||||||| |||||||||||||| ||||||||||||||||
Sbjct: 96267948 caacactagtacccacattaattatcattacacgctgaggaaatcaaacagaacgactca 96267889

                                                                            
Query: 722      atgcaggactttatttcctattctacaccctagcaggatccctaccactgctagtagcac 781
                |||||||||| || ||| ||||||| |||||||| |||||||||||||| || |||||||
Sbjct: 96267888 atgcaggactatacttcttattctataccctagcgggatccctaccactactggtagcac 96267829

                                                                            
Query: 782      tagtttatatccaaaataccacaggctcactaaacttcttaattatccattactgatccc 841
                |||| || ||||| ||||| |||||||||||||| ||||||||||| || ||||||||||
Sbjct: 96267828 tagtctacatccagaatactacaggctcactaaatttcttaattattcactactgatccc 96267769

                                                                            
Query: 842      acccattatccaactcttgatcaaacatttttatatgattagcatgcatcatagccttca 901
                |||||||||| ||  |||||||||| |||||||||||| ||||||||||||| |||||||
Sbjct: 96267768 acccattatctaatacttgatcaaatatttttatatgactagcatgcatcatggccttca 96267709

                                                                            
Query: 902      tagtaaaaatacctctgtacggactccatctttgactgccaaaagcccatgtagaagccc 961
                ||||||||||||| || || |||||||| |||||||||||||||||||||||||||||||
Sbjct: 96267708 tagtaaaaataccactatatggactccacctttgactgccaaaagcccatgtagaagccc 96267649

                                                                            
Query: 962      ccattgcaggttcaatagtacttgcagccgtactgctaaaactcggaggctatggcataa 1021
                ||||||||||||||||||||||||||||| |||||||||| || ||||||||||| ||||
Sbjct: 96267648 ccattgcaggttcaatagtacttgcagccatactgctaaagcttggaggctatggtataa 96267589

                                                                            
Query: 1022     tgcgaatcactactattctaaacccactaacaaactacatagcctatccattcctcatgc 1081
                | ||||| || |||||||||||||||||||||||||||||||| || ||||| || || |
Sbjct: 96267588 tacgaattaccactattctaaacccactaacaaactacatagcttacccatttcttatac 96267529

                                                                            
Query: 1082     tttccatatgaggcataatcataaccagctctatctgcttacgtcaaaccgacctaaaat 1141
                |||||||||||||||| || |||||||||||||| |||||||||||||| ||||||||||
Sbjct: 96267528 tttccatatgaggcatgattataaccagctctatttgcttacgtcaaactgacctaaaat 96267469

                                                                            
Query: 1142     ccttaatcgcctattcatcagtaagtcatatagcacttgtaatcgtagcaatcataattc 1201
                || ||||||| || ||||||||||| ||||||||||||||||| ||||||||||||||||
Sbjct: 96267468 ccctaatcgcttactcatcagtaagccatatagcacttgtaattgtagcaatcataattc 96267409

                                                                            
Query: 1202     aaaccccctgaagcttcataggggccacagctctcataattgcccacggactaacatcct 1261
                |||||||||||||||||||||| || |||||||| ||||| |||||||||||||||||||
Sbjct: 96267408 aaaccccctgaagcttcataggagctacagctcttataatcgcccacggactaacatcct 96267349

                                                                            
Query: 1262     ccatactattctgcctagccaacactaactatgaacgagtacacagccgaaccataatcc 1321
                |||||||||||||||| || || ||||| ||  ||||||||||||| ||||| |||||||
Sbjct: 96267348 ccatactattctgcctggctaatactaattacaaacgagtacacagtcgaactataatcc 96267289

                                                                            
Query: 1322     tggcccgaggactgcaaacactcctaccactcatagncacatgatgactaatagcaagcc 1381
                | ||||||||  | |||||| |||||||||||||||  ||||||||||||||||||||||
Sbjct: 96267288 tagcccgagggttacaaacattcctaccactcatagcaacatgatgactaatagcaagcc 96267229

                                                                            
Query: 1382     tcacaaacctagccctacccccatccatcaatctaatcggaagaatatttatcatcacag 1441
                ||||||| |||||||||||||||||||||||| |||| |||  | | || ||||||||||
Sbjct: 96267228 tcacaaatctagccctacccccatccatcaatttaattggagaattgttcatcatcacag 96267169

                                                                            
Query: 1442     catcattttcatgatccaacatcacaattattctcataggaataaacataataatta-ag 1500
                |||||||||| ||||||||||||||||||||||| ||||||||||| |||||||||| ||
Sbjct: 96267168 catcattttcctgatccaacatcacaattattcttataggaataaatataataattacag 96267109

                                                                            
Query: 1501     ccttctactctctctacttactaattactaac-ccacgaggaaaatacccccancacatt 1559
                || |||||||||||||| |||||||   |||| | ||||||||||||  |||| ||||||
Sbjct: 96267108 ccctctactctctctacatactaat--ataacacaacgaggaaaatatacccaccacatt 96267051

                                               
Query: 1560     aacnacatccaaccctcattcacacgagaaa 1590
                ||| ||| | |||||||||| ||| ||||||
Sbjct: 96267050 aacaacagcaaaccctcatttacatgagaaa 96267020


>Sscrofa_Chr17 
||          Length = 69701581

 Score =  470 bits (237), Expect = e-129
 Identities = 740/905 (81%), Gaps = 6/905 (0%)
 Strand = Plus / Plus

                                                                            
Query: 583      atactaatcctactacaactattcctaattataaccttcaccgccaccgaactaatccta 642
                |||||| | ||||| | ||||||| || | ||||||||  | |||||| |||||||| ||
Sbjct: 15219372 atactagtgctactgccactattcttagtaataacctttcctgccaccaaactaatctta 15219431

                                                                            
Query: 643      ttctatatcctattcgaagcaacactagtacccacactaattatcatcacacgctgagga 702
                || || | |||||| ||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 15219432 tt-tacaccctatttgaagcaacattagtacccacactaattatcatcacacgctgagga 15219490

                                                                            
Query: 703      aaccaaacagaacgactcaatgcaggactttatttcctattctacaccctagcaggatcc 762
                | |||||||||| |||| || |||||| | || || || |||||||  ||||||||||||
Sbjct: 15219491 agccaaacagaatgacttaacgcaggattatactttctgttctacatgctagcaggatcc 15219550

                                                                            
Query: 763      ctaccactgctagtagcactagtttatatccaaaataccacaggctcactaaacttctta 822
                || ||||| |||||| |  |||||||||||||||| ||||  ||||||||||||||||||
Sbjct: 15219551 ctcccacttctagtaacgttagtttatatccaaaacaccatgggctcactaaacttctta 15219610

                                                                            
Query: 823      attatccatt-actgatcccacccattatccaactcttgatcaaacatttttatatgatt 881
                || || |||| |||||   ||| || |  | ||| | |||||||| || || ||||||||
Sbjct: 15219611 atcatacattaactgaattcacgcactgcctaacacctgatcaaatatcttcatatgatt 15219670

                                                                            
Query: 882      agcatgcatcatagccttcatagtaaaaatacctctgtacggactccatctttgactgcc 941
                |||||| || ||||||||||||||||||||||| || |||||||| ||||||||| | ||
Sbjct: 15219671 agcatgtattatagccttcatagtaaaaataccactatacggacttcatctttgattacc 15219730

                                                                            
Query: 942      aaaagcccatgtagaagcccccattgcaggttcaatagtacttgcagccgtactgctaaa 1001
                 ||||||||||| |||||||  || ||||| |||||||||||||||||||| ||  ||||
Sbjct: 15219731 caaagcccatgtggaagcccgtatcgcaggctcaatagtacttgcagccgtcctattaaa 15219790

                                                                            
Query: 1002     actcggaggctatggcataatgcgaatcactactattctaaacccactaacaaactacat 1061
                ||| |||||||| |||||| |||   | ||| | ||||| ||||||||||||| || |||
Sbjct: 15219791 acttggaggctacggcatactgcaggtgactgccattctcaacccactaacaagcttcat 15219850

                                                                            
Query: 1062     agcctatccattcctcatgctttccatatgaggcataatcataaccagctctatctgctt 1121
                |||||| |||||  | |  || ||| | || |||||||||||||||||||| |||| |||
Sbjct: 15219851 agcctacccatttttaacactctccctgtggggcataatcataaccagctcaatcttctt 15219910

                                                                            
Query: 1122     acgtcaaaccgacctaaaatccttaatcgcctattcatcagtaagtcatatagcacttgt 1181
                | | |||| | |||| ||||||  |||| |  | ||||||||||||||||||||||||||
Sbjct: 15219911 aggccaaatcaacctgaaatccccaatcactcactcatcagtaagtcatatagcacttgt 15219970

                                                                            
Query: 1182     aatcgtagcaatcataattcaaaccccctgaagcttcataggggccacagctctcataat 1241
                ||| ||||||| | |||| |||||||| |||||||| |||| ||| ||||| || |||||
Sbjct: 15219971 aattgtagcaagcctaatccaaaccccatgaagctttatagaggcaacagccctaataat 15220030

                                                                            
Query: 1242     tgcccacggactaacatcctccatactattctgcctagccaacactaactatgaacgagt 1301
                |||||||||  ||||||  || |||| ||||||| | || ||||| ||||| || |  ||
Sbjct: 15220031 tgcccacggcttaacattgtctataccattctgcttcgcaaacaccaactacgagcacgt 15220090

                                                                            
Query: 1302     acacagccgaaccataatcctggcccgaggactgcaaacactcctaccactcatagncac 1361
                ||| || |||||||| ||||| ||||| || || || ||| | |||||||| |  |  ||
Sbjct: 15220091 acatagtcgaaccatgatcctagcccggggcctacagacatttctaccacttacggcaac 15220150

                                                                            
Query: 1362     atgatgactaat----agcaagcctcacaaacctagccctacccccatccatcaatctaa 1417
                ||||||| ||||    |||||||||| |||||||||| ||||||||| |||| || ||||
Sbjct: 15220151 atgatgattaatagcaagcaagcctcgcaaacctagctctacccccaaccattaacctaa 15220210

                                                                            
Query: 1418     tcggaagaatatttatcatcacagcatcattttcatgatccaacatcacaattattctca 1477
                | |||  | | || ||||||||||||||||| || ||||| || ||||| || || ||||
Sbjct: 15220211 ttggagaactcttcatcatcacagcatcattctcctgatctaatatcaccatcatcctca 15220270

                     
Query: 1478     tagga 1482
                |||||
Sbjct: 15220271 tagga 15220275


>Sscrofa_Chr16 
||          Length = 86898991

 Score =  198 bits (100), Expect = 7e-48
 Identities = 205/240 (85%)
 Strand = Plus / Minus

                                                                           
Query: 74      cacttaatatcttcactactatgcctagaaggaatgatactatcactattcatcatatcg 133
               ||||||||||| |||||  | |||||||||||||||||||||||||| || || ||||| 
Sbjct: 7699384 cacttaatatcgtcactgttgtgcctagaaggaatgatactatcactttttattatatct 7699325

                                                                           
Query: 134     actctaattatcctaaacacacacttcaccctagctaacataatacccattattttacta 193
               |||||||| ||| |||| ||||| ||||| |  || | |||||||||||| ||| | |||
Sbjct: 7699324 actctaatcatcttaaatacacatttcactccggccagcataatacccatcattctgcta 7699265

                                                                           
Query: 194     gtgtttgcagcctgcgaagctgcactaggcctgtcactactagtaatagtatccaacaca 253
               || || ||||||||||| || ||||| || || ||| ||||||||| |||||| || |||
Sbjct: 7699264 gtattcgcagcctgcgaggccgcacttggtctatcattactagtaacagtatcaaataca 7699205

                                                                           
Query: 254     tacggtaccgattacgtccaaaacttaaaccttttacaatgctaaaaattattatcccaa 313
               || |||||||| |||||||||||||||||||| ||||||||||||||||||||| |||||
Sbjct: 7699204 tatggtaccgactacgtccaaaacttaaacctcttacaatgctaaaaattattaccccaa 7699145


>Sscrofa_Chr14 
||          Length = 153851969

 Score =  188 bits (95), Expect = 7e-45
 Identities = 198/231 (85%), Gaps = 1/231 (0%)
 Strand = Plus / Plus

                                                                            
Query: 1090     tgaggcataatcataaccagctctatctgcttacgtcaaaccgacctaaaatccttaatc 1149
                ||||||||||||||||||||||| | ||||||||  ||||||||| | |||||| || ||
Sbjct: 43110063 tgaggcataatcataaccagctcaacctgcttacaccaaaccgacttgaaatccctagtc 43110122

                                                                            
Query: 1150     gcctattcatcagt-aagtcatatagcacttgtaatcgtagcaatcataattcaaacccc 1208
                || |  |||||||| ||||||||||||||||||||| | ||||||| |||| ||||||||
Sbjct: 43110123 gctttctcatcagttaagtcatatagcacttgtaattgcagcaatcctaatccaaacccc 43110182

                                                                            
Query: 1209     ctgaagcttcataggggccacagctctcataattgcccacggactaacatcctccatact 1268
                 |||||||| ||||| || |||||||| |||| || ||||||  |||||||||| ||  |
Sbjct: 43110183 atgaagctttataggagcaacagctctaataactggccacggcttaacatcctctatgat 43110242

                                                                   
Query: 1269     attctgcctagccaacactaactatgaacgagtacacagccgaaccataat 1319
                ||||||||| || |||||||||||||||||  |||| ||||||||||||||
Sbjct: 43110243 attctgcctcgcaaacactaactatgaacgcctacatagccgaaccataat 43110293



 Score = 83.8 bits (42), Expect = 3e-13
 Identities = 135/164 (82%), Gaps = 4/164 (2%)
 Strand = Plus / Plus

                                                                            
Query: 571      ctatatattaccatactaatcctactacaactattcctaattataaccttcaccgccacc 630
                ||||||||||| ||||||||| | |||||  | |||||||||||||| ||||| ||||| 
Sbjct: 36163735 ctatatattacaatactaatcatgctacagatgttcctaattataacattcacggccaca 36163794

                                                                            
Query: 631      gaactaatcctattctatatcctattcgaagcaacactagtacccacactaattatcatc 690
                 |||| || ||||||||  || |||| ||||||||||||||   |||| | ||||| || 
Sbjct: 36163795 taactgattctattctacctcttattagaagcaacactagt---cacaat-attattatt 36163850

                                                            
Query: 691      acacgctgaggaaaccaaacagaacgactcaatgcaggacttta 734
                || | |||||||||| ||||||||| | | ||||||||||||||
Sbjct: 36163851 acccactgaggaaacgaaacagaacaatttaatgcaggacttta 36163894



 Score = 83.8 bits (42), Expect = 3e-13
 Identities = 135/164 (82%), Gaps = 4/164 (2%)
 Strand = Plus / Plus

                                                                            
Query: 571      ctatatattaccatactaatcctactacaactattcctaattataaccttcaccgccacc 630
                ||||||||||| ||||||||| | |||||  | |||||||||||||| ||||| ||||| 
Sbjct: 36164505 ctatatattacaatactaatcatgctacagatgttcctaattataacattcacggccaca 36164564

                                                                            
Query: 631      gaactaatcctattctatatcctattcgaagcaacactagtacccacactaattatcatc 690
                 |||| || ||||||||  || |||| ||||||||||||||   |||| | ||||| || 
Sbjct: 36164565 taactgattctattctacctcttattagaagcaacactagt---cacaat-attattatt 36164620

                                                            
Query: 691      acacgctgaggaaaccaaacagaacgactcaatgcaggacttta 734
                || | |||||||||| ||||||||| | | ||||||||||||||
Sbjct: 36164621 acccactgaggaaacgaaacagaacaatttaatgcaggacttta 36164664


>Sscrofa_Chr05 
||          Length = 111506441

 Score =  174 bits (88), Expect = 1e-40
 Identities = 159/183 (86%)
 Strand = Plus / Plus

                                                                            
Query: 1213     agcttcataggggccacagctctcataattgcccacggactaacatcctccatactattc 1272
                |||||||||||||| ||||| || ||| | ||||||||| |||||||||||||| |||||
Sbjct: 53826134 agcttcataggggcaacagccctaatagtcgcccacggattaacatcctccatattattc 53826193

                                                                            
Query: 1273     tgcctagccaacactaactatgaacgagtacacagccgaaccataatcctggcccgagga 1332
                |||||||| ||||| ||||| ||  |||||||||||| |||||||||||| ||| |||| 
Sbjct: 53826194 tgcctagcaaacaccaactaggagtgagtacacagccaaaccataatcctagcctgaggc 53826253

                                                                            
Query: 1333     ctgcaaacactcctaccactcatagncacatgatgactaatagcaagcctcacaaaccta 1392
                ||||||||| | |||||||||||||  ||||| ||| ||||||||||||| |||||| ||
Sbjct: 53826254 ctgcaaacatttctaccactcatagcaacatggtgattaatagcaagccttacaaactta 53826313

                   
Query: 1393     gcc 1395
                |||
Sbjct: 53826314 gcc 53826316


>Sscrofa_Chr18 
||          Length = 61220071

 Score =  143 bits (72), Expect = 4e-31
 Identities = 117/132 (88%)
 Strand = Plus / Minus

                                                                            
Query: 191      ctagtgtttgcagcctgcgaagctgcactaggcctgtcactactagtaatagtatccaac 250
                ||||| |||||||| || ||||||||||| ||||| |||| | || |||||||||| |||
Sbjct: 60928060 ctagtatttgcagcttgtgaagctgcacttggcctatcacgattactaatagtatcaaac 60928001

                                                                            
Query: 251      acatacggtaccgattacgtccaaaacttaaaccttttacaatgctaaaaattattatcc 310
                |||||  |||||||||| ||||||| |||||||||  |||||||||||||||||||||||
Sbjct: 60928000 acatatagtaccgattatgtccaaatcttaaacctcctacaatgctaaaaattattatcc 60927941

                            
Query: 311      caacaacaatac 322
                ||||||||||||
Sbjct: 60927940 caacaacaatac 60927929


>Sscrofa_Chr06 
||          Length = 157765593

 Score =  113 bits (57), Expect = 3e-22
 Identities = 78/85 (91%)
 Strand = Plus / Minus

                                                                            
Query: 231      tactagtaatagtatccaacacatacggtaccgattacgtccaaaacttaaaccttttac 290
                |||||||||||||||| || ||||| ||||||||||| ||||||||| ||||||| ||||
Sbjct: 78758426 tactagtaatagtatcaaatacatatggtaccgattatgtccaaaacctaaacctcttac 78758367

                                         
Query: 291      aatgctaaaaattattatcccaaca 315
                ||||||||||||||| |||||||||
Sbjct: 78758366 aatgctaaaaattatcatcccaaca 78758342


>Sscrofa_ChrX 
||          Length = 144288218

 Score = 89.7 bits (45), Expect = 5e-15
 Identities = 89/104 (85%)
 Strand = Plus / Plus

                                                                            
Query: 1345     ctaccactcatagncacatgatgactaatagcaagcctcacaaacctagccctaccccca 1404
                |||||||||||||  ||||||||||||||||||||||| ||||||  ||| |||||||||
Sbjct: 23484444 ctaccactcatagcaacatgatgactaatagcaagccttacaaactgagctctaccccca 23484503

                                                            
Query: 1405     tccatcaatctaatcggaagaatatttatcatcacagcatcatt 1448
                  ||| || ||||| |||  | |||| |||||||||||||||||
Sbjct: 23484504 atcattaacctaattggagaactattcatcatcacagcatcatt 23484547


>Sscrofa_Chr13 
||          Length = 218635234

 Score = 63.9 bits (32), Expect = 3e-07
 Identities = 103/126 (81%), Gaps = 1/126 (0%)
 Strand = Plus / Minus

                                                                             
Query: 1466      caattattctcataggaataaacataataatta-agccttctactctctctacttactaa 1524
                 ||||||||||||||||| | || ||| |||||| |||| ||||||| |||||  ||||||
Sbjct: 112014470 caattattctcataggactgaatatactaattacagccctctactccctctatatactaa 112014411

                                                                             
Query: 1525      ttactaacccacgaggaaaatacccccancacattaacnacatccaaccctcattcacac 1584
                 |||| |  | ||||||||||||  | ||  |||| ||| | ||| | |||||||||||||
Sbjct: 112014410 ttacaacacaacgaggaaaatatacacactacatcaacaatatcaagccctcattcacac 112014351

                       
Query: 1585      gagaaa 1590
                 ||||||
Sbjct: 112014350 gagaaa 112014345


  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: 46,763,877
Number of extensions: 209
Number of successful extensions: 209
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 200
Number of HSP's successfully gapped: 16
Length of query: 1684
Length of database: 2,808,509,378
Length adjustment: 22
Effective length of query: 1662
Effective length of database: 2,808,408,574
Effective search space: 4667575049988
Effective search space used: 4667575049988
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)