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-000176
(751 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_001001439.1| cytochrome c oxidase subunit 4 isoform 1, mi... 335 2e-92
Alignment gi|NP_001180115.1| cytochrome c oxidase subunit IV isoform 2 [B... 159 2e-39
Alignment gi|XP_002692478.1| PREDICTED: cytochrome c oxidase subunit IV-l... 159 2e-39
Alignment gi|XP_002692477.1| PREDICTED: cytochrome c oxidase subunit IV-l... 159 2e-39
Alignment gi|XP_002701163.1| PREDICTED: cytochrome c oxidase subunit IV-l... 159 2e-39
>ref|NP_001001439.1| cytochrome c oxidase subunit 4 isoform 1, mitochondrial precursor
[Bos taurus].
Length = 169
Score = 335 bits (860), Expect = 2e-92
Identities = 162/169 (95%), Positives = 166/169 (98%)
Frame = +3
Query: 117 MLATRVFNLIGRRAISTSVCVRAHGSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQK 296
MLATRVF+LIGRRAISTSVCVRAHGSVVKSEDYALP YVDRRDYPLPDVAHVKNLSASQK
Sbjct: 1 MLATRVFSLIGRRAISTSVCVRAHGSVVKSEDYALPSYVDRRDYPLPDVAHVKNLSASQK 60
Query: 297 ALKEKEKASWSSLSMDEKVELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIW 476
ALKEKEKASWSSLS+DEKVELYRLKF ESFAEMNRSTNEWKT+VG A+FFIGFTALLLIW
Sbjct: 61 ALKEKEKASWSSLSIDEKVELYRLKFKESFAEMNRSTNEWKTVVGAAMFFIGFTALLLIW 120
Query: 477 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK
Sbjct: 121 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 169
>ref|NP_001180115.1| cytochrome c oxidase subunit IV isoform 2 [Bos taurus].
Length = 171
Score = 159 bits (402), Expect = 2e-39
Identities = 73/151 (48%), Positives = 104/151 (68%), Gaps = 2/151 (1%)
Frame = +3
Query: 177 VRAHGSVVKSEDYALPV--YVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEK 350
+ + GS ++ P Y +R YP+P+ L+A Q+ALKEKEK SW+ LS EK
Sbjct: 21 IHSPGSTAHGKEKMPPYTNYHAQRSYPMPEEPFCMELNAEQRALKEKEKGSWTQLSHAEK 80
Query: 351 VELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWV 530
V LYRL+F+++FAEMNR +NEWKT++G FF GFT LL+ W++ YV+ P T +EW
Sbjct: 81 VALYRLQFHQTFAEMNRRSNEWKTVMGCVFFFCGFTGLLIWWQRVYVFRKKPITLTDEWK 140
Query: 531 AKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
A+Q +R+LDMK P+QG +++WDY++ EWKK
Sbjct: 141 AQQLQRILDMKGNPVQGLASRWDYERKEWKK 171
>ref|XP_002692478.1| PREDICTED: cytochrome c oxidase subunit IV-like isoform 2 [Bos
taurus].
Length = 171
Score = 159 bits (402), Expect = 2e-39
Identities = 73/151 (48%), Positives = 104/151 (68%), Gaps = 2/151 (1%)
Frame = +3
Query: 177 VRAHGSVVKSEDYALPV--YVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEK 350
+ + GS ++ P Y +R YP+P+ L+A Q+ALKEKEK SW+ LS EK
Sbjct: 21 IHSPGSTAHGKEKMPPYTNYHAQRSYPMPEEPFCMELNAEQRALKEKEKGSWTQLSHAEK 80
Query: 351 VELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWV 530
V LYRL+F+++FAEMNR +NEWKT++G FF GFT LL+ W++ YV+ P T +EW
Sbjct: 81 VALYRLQFHQTFAEMNRRSNEWKTVMGCVFFFCGFTGLLIWWQRVYVFRKKPITLTDEWK 140
Query: 531 AKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
A+Q +R+LDMK P+QG +++WDY++ EWKK
Sbjct: 141 AQQLQRILDMKGNPVQGLASRWDYERKEWKK 171
>ref|XP_002692477.1| PREDICTED: cytochrome c oxidase subunit IV-like isoform 1 [Bos
taurus].
Length = 171
Score = 159 bits (402), Expect = 2e-39
Identities = 73/151 (48%), Positives = 104/151 (68%), Gaps = 2/151 (1%)
Frame = +3
Query: 177 VRAHGSVVKSEDYALPV--YVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEK 350
+ + GS ++ P Y +R YP+P+ L+A Q+ALKEKEK SW+ LS EK
Sbjct: 21 IHSPGSTAHGKEKMPPYTNYHAQRSYPMPEEPFCMELNAEQRALKEKEKGSWTQLSHAEK 80
Query: 351 VELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWV 530
V LYRL+F+++FAEMNR +NEWKT++G FF GFT LL+ W++ YV+ P T +EW
Sbjct: 81 VALYRLQFHQTFAEMNRRSNEWKTVMGCVFFFCGFTGLLIWWQRVYVFRKKPITLTDEWK 140
Query: 531 AKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
A+Q +R+LDMK P+QG +++WDY++ EWKK
Sbjct: 141 AQQLQRILDMKGNPVQGLASRWDYERKEWKK 171
>ref|XP_002701163.1| PREDICTED: cytochrome c oxidase subunit IV-like [Bos taurus].
Length = 171
Score = 159 bits (402), Expect = 2e-39
Identities = 73/151 (48%), Positives = 104/151 (68%), Gaps = 2/151 (1%)
Frame = +3
Query: 177 VRAHGSVVKSEDYALPV--YVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEK 350
+ + GS ++ P Y +R YP+P+ L+A Q+ALKEKEK SW+ LS EK
Sbjct: 21 IHSPGSTAHGKEKMPPYTNYHAQRSYPMPEEPFCMELNAEQRALKEKEKGSWTQLSHAEK 80
Query: 351 VELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWV 530
V LYRL+F+++FAEMNR +NEWKT++G FF GFT LL+ W++ YV+ P T +EW
Sbjct: 81 VALYRLQFHQTFAEMNRRSNEWKTVMGCVFFFCGFTGLLIWWQRVYVFRKKPITLTDEWK 140
Query: 531 AKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
A+Q +R+LDMK P+QG +++WDY++ EWKK
Sbjct: 141 AQQLQRILDMKGNPVQGLASRWDYERKEWKK 171
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: 20,903,380
Number of extensions: 473773
Number of successful extensions: 1986
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 1986
Number of HSP's successfully gapped: 5
Length of query: 250
Length of database: 17,681,374
Length adjustment: 100
Effective length of query: 150
Effective length of database: 14,372,574
Effective search space: 2155886100
Effective search space used: 2155886100
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: 33 (17.3 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-000176
(751 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_536759.1| PREDICTED: similar to Cytochrome c oxidase subu... 333 8e-92
Alignment gi|XP_542949.2| PREDICTED: similar to cytochrome c oxidase subu... 166 2e-41
>ref|XP_536759.1| PREDICTED: similar to Cytochrome c oxidase subunit IV isoform 1,
mitochondrial precursor (COX IV-1) (Cytochrome c oxidase
polypeptide IV) [Canis familiaris].
Length = 169
Score = 333 bits (855), Expect = 8e-92
Identities = 159/169 (94%), Positives = 167/169 (98%)
Frame = +3
Query: 117 MLATRVFNLIGRRAISTSVCVRAHGSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQK 296
MLATRVF+LIG+RA STSVCVRAHGSVVKSED+ALP YVDRRDYPLPDVAHVKNLSASQK
Sbjct: 1 MLATRVFSLIGKRAFSTSVCVRAHGSVVKSEDFALPSYVDRRDYPLPDVAHVKNLSASQK 60
Query: 297 ALKEKEKASWSSLSMDEKVELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIW 476
ALKEKEKASWSSLS+DEKVELYR+KFNESFAEMNRSTNEWKT+VGTALFFIGFTAL+LIW
Sbjct: 61 ALKEKEKASWSSLSIDEKVELYRIKFNESFAEMNRSTNEWKTVVGTALFFIGFTALILIW 120
Query: 477 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
EKHYVYGPIPHTFEEEWVAKQTKRMLDMKV+PIQGFSAKWDYDKNEWKK
Sbjct: 121 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVSPIQGFSAKWDYDKNEWKK 169
>ref|XP_542949.2| PREDICTED: similar to cytochrome c oxidase subunit IV isoform 2
precursor [Canis familiaris].
Length = 151
Score = 166 bits (421), Expect = 2e-41
Identities = 79/147 (53%), Positives = 103/147 (70%), Gaps = 2/147 (1%)
Frame = +3
Query: 189 GSVVKSEDYALPV--YVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVELY 362
GS SE P Y +R YP+PD L+A Q+ALKEKEK SW+ LS EKV LY
Sbjct: 5 GSAANSEGKMPPYTNYHAQRSYPMPDEPFCTELNAEQRALKEKEKGSWTQLSHAEKVALY 64
Query: 363 RLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQT 542
RL+F+E+FAEMNR +NEWKT++G FF GFTALL+ W++ YV+ P T +EW A+Q
Sbjct: 65 RLQFHETFAEMNRRSNEWKTVMGCVFFFFGFTALLIWWQRVYVFPKKPITLTDEWKAQQL 124
Query: 543 KRMLDMKVAPIQGFSAKWDYDKNEWKK 623
+R+LDMK P+QG +++WDY+K EWKK
Sbjct: 125 QRILDMKGNPVQGLASRWDYEKKEWKK 151
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: 21,797,057
Number of extensions: 472456
Number of successful extensions: 2178
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 2176
Number of HSP's successfully gapped: 2
Length of query: 250
Length of database: 18,874,504
Length adjustment: 100
Effective length of query: 150
Effective length of database: 15,540,904
Effective search space: 2331135600
Effective search space used: 2331135600
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: 33 (17.3 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-000176
(751 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_001852.1| cytochrome c oxidase subunit 4 isoform 1, mitoc... 298 3e-81
Alignment gi|NP_115998.2| cytochrome c oxidase subunit 4 isoform 2, mitoc... 159 2e-39
>ref|NP_001852.1| cytochrome c oxidase subunit 4 isoform 1, mitochondrial precursor
[Homo sapiens].
Length = 169
Score = 298 bits (764), Expect = 3e-81
Identities = 137/169 (81%), Positives = 161/169 (95%)
Frame = +3
Query: 117 MLATRVFNLIGRRAISTSVCVRAHGSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQK 296
MLATRVF+L+G+RAISTSVCVRAH SVVKSED++LP Y+DRRD+PLP+VAHVK+LSASQK
Sbjct: 1 MLATRVFSLVGKRAISTSVCVRAHESVVKSEDFSLPAYMDRRDHPLPEVAHVKHLSASQK 60
Query: 297 ALKEKEKASWSSLSMDEKVELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIW 476
ALKEKEKASWSSLSMDEKVELYR+KF ESFAEMNR +NEWKT+VG A+FFIGFTAL+++W
Sbjct: 61 ALKEKEKASWSSLSMDEKVELYRIKFKESFAEMNRGSNEWKTVVGGAMFFIGFTALVIMW 120
Query: 477 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
+KHYVYGP+P +F++EWVAKQTKRMLDMKV PIQG ++KWDY+KNEWKK
Sbjct: 121 QKHYVYGPLPQSFDKEWVAKQTKRMLDMKVNPIQGLASKWDYEKNEWKK 169
>ref|NP_115998.2| cytochrome c oxidase subunit 4 isoform 2, mitochondrial precursor
[Homo sapiens].
Length = 171
Score = 159 bits (403), Expect = 2e-39
Identities = 71/129 (55%), Positives = 98/129 (75%)
Frame = +3
Query: 237 RRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVELYRLKFNESFAEMNRSTNEW 416
+R YP+P+ L+A ++ALKEKEK SW+ L+ EKV LYRL+FNE+FAEMNR +NEW
Sbjct: 43 QRYYPMPEEPFCTELNAEEQALKEKEKGSWTQLTHAEKVALYRLQFNETFAEMNRRSNEW 102
Query: 417 KTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKW 596
KT++G FFIGF AL++ W++ YV+ P P T +E A+Q +RMLDMKV P+QG +++W
Sbjct: 103 KTVMGCVFFFIGFAALVIWWQRVYVFPPKPITLTDERKAQQLQRMLDMKVNPVQGLASRW 162
Query: 597 DYDKNEWKK 623
DY+K +WKK
Sbjct: 163 DYEKKQWKK 171
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: 21,290,587
Number of extensions: 463901
Number of successful extensions: 1940
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1940
Number of HSP's successfully gapped: 2
Length of query: 250
Length of database: 18,297,164
Length adjustment: 100
Effective length of query: 150
Effective length of database: 15,000,764
Effective search space: 2250114600
Effective search space used: 2250114600
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: 33 (17.3 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-000176
(751 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_034071.1| cytochrome c oxidase subunit 4 isoform 1, mitoc... 300 1e-81
Alignment gi|NP_444321.1| cytochrome c oxidase subunit 4 isoform 2, mitoc... 157 1e-38
>ref|NP_034071.1| cytochrome c oxidase subunit 4 isoform 1, mitochondrial precursor
[Mus musculus].
Length = 169
Score = 300 bits (767), Expect = 1e-81
Identities = 141/169 (83%), Positives = 153/169 (90%)
Frame = +3
Query: 117 MLATRVFNLIGRRAISTSVCVRAHGSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQK 296
MLA+R +LIG+RAISTSVC+RAHGSVVKSEDYA P Y DRRDYPLPDVAHV LSASQK
Sbjct: 1 MLASRALSLIGKRAISTSVCLRAHGSVVKSEDYAFPTYADRRDYPLPDVAHVTMLSASQK 60
Query: 297 ALKEKEKASWSSLSMDEKVELYRLKFNESFAEMNRSTNEWKTIVGTALFFIGFTALLLIW 476
ALKEKEKA WSSLS DEKV+LYR++FNESFAEMNR TNEWKT+VG A+FFIGFTAL+LIW
Sbjct: 61 ALKEKEKADWSSLSRDEKVQLYRIQFNESFAEMNRGTNEWKTVVGMAMFFIGFTALVLIW 120
Query: 477 EKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQGFSAKWDYDKNEWKK 623
EK YVYGPIPHTF+ +WVA QTKRMLDMK PIQGFSAKWDYDKNEWKK
Sbjct: 121 EKSYVYGPIPHTFDRDWVAMQTKRMLDMKANPIQGFSAKWDYDKNEWKK 169
>ref|NP_444321.1| cytochrome c oxidase subunit 4 isoform 2, mitochondrial isoform 2
precursor [Mus musculus].
Length = 172
Score = 157 bits (396), Expect = 1e-38
Identities = 76/135 (56%), Positives = 96/135 (71%), Gaps = 3/135 (2%)
Frame = +3
Query: 228 YVD---RRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVELYRLKFNESFAEMN 398
YVD +R YP+PD LS Q+ALKEKEK SW+ LS EKV LYRL+F+E+FAEMN
Sbjct: 38 YVDCYAQRSYPMPDEPFCTELSEEQRALKEKEKGSWTQLSQAEKVALYRLQFHETFAEMN 97
Query: 399 RSTNEWKTIVGTALFFIGFTALLLIWEKHYVYGPIPHTFEEEWVAKQTKRMLDMKVAPIQ 578
+NEWKT++G FFIGFTAL++ W++ YV+ T EE A+Q +R+LDMK PIQ
Sbjct: 98 HRSNEWKTVMGCVFFFIGFTALVIWWQRVYVFPKKVVTLTEERKAQQLQRLLDMKSNPIQ 157
Query: 579 GFSAKWDYDKNEWKK 623
G +A WDY+K EWKK
Sbjct: 158 GLAAHWDYEKKEWKK 172
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: 18,026,324
Number of extensions: 387213
Number of successful extensions: 1620
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1605
Number of HSP's successfully gapped: 2
Length of query: 250
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 151
Effective length of database: 12,643,995
Effective search space: 1909243245
Effective search space used: 1909243245
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: 33 (17.3 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-000176
(751 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_003355778.1| PREDICTED: hypothetical protein LOC100624067... 113 1e-25
>ref|XP_003355778.1| PREDICTED: hypothetical protein LOC100624067 [Sus scrofa].
Length = 262
Score = 113 bits (283), Expect = 1e-25
Identities = 56/56 (100%), Positives = 56/56 (100%)
Frame = +3
Query: 189 GSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVE 356
GSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVE
Sbjct: 143 GSVVKSEDYALPVYVDRRDYPLPDVAHVKNLSASQKALKEKEKASWSSLSMDEKVE 198
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: 13,650,487
Number of extensions: 327995
Number of successful extensions: 1294
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1294
Number of HSP's successfully gapped: 1
Length of query: 250
Length of database: 11,343,932
Length adjustment: 96
Effective length of query: 154
Effective length of database: 8,953,820
Effective search space: 1378888280
Effective search space used: 1378888280
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: 33 (17.3 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-000176
(751 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_Chr06 470 e-130
>Sscrofa_Chr06
|| Length = 157765593
Score = 470 bits (237), Expect = e-130
Identities = 237/237 (100%)
Strand = Plus / Minus
Query: 489 gtgtacggccccatcccgcacacctttgaggaggagtgggtggccaagcagaccaagagg 548
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3453799 gtgtacggccccatcccgcacacctttgaggaggagtgggtggccaagcagaccaagagg 3453740
Query: 549 atgctggacatgaaggtggcccccatccagggcttctcggccaagtgggactacgacaag 608
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3453739 atgctggacatgaaggtggcccccatccagggcttctcggccaagtgggactacgacaag 3453680
Query: 609 aacgagtggaagaagtgaggcccgaccccacctgtcctgtcgccgccctgcagcgcagcg 668
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3453679 aacgagtggaagaagtgaggcccgaccccacctgtcctgtcgccgccctgcagcgcagcg 3453620
Query: 669 ccttggctgcgcaccgtcacgtgacacgaccagtgctaataaacgagcaggtgaccc 725
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3453619 ccttggctgcgcaccgtcacgtgacacgaccagtgctaataaacgagcaggtgaccc 3453563
Score = 321 bits (162), Expect = 3e-85
Identities = 165/166 (99%)
Strand = Plus / Minus
Query: 192 agcgtcgtgaagagtgaggactacgccctcccggtctacgtcgaccggcgcgactacccc 251
||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 3455348 agcgtcgtgaagagtgaggactatgccctcccggtctacgtcgaccggcgcgactacccc 3455289
Query: 252 ttgcccgacgtggcccacgtcaagaacctctccgccagccagaaggccttgaaggagaag 311
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3455288 ttgcccgacgtggcccacgtcaagaacctctccgccagccagaaggccttgaaggagaag 3455229
Query: 312 gagaaggcctcctggagcagcctctccatggatgagaaagtggaac 357
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3455228 gagaaggcctcctggagcagcctctccatggatgagaaagtggaac 3455183
Score = 254 bits (128), Expect = 6e-65
Identities = 131/132 (99%)
Strand = Plus / Minus
Query: 358 tgtaccgcctgaagttcaacgagagcttcgccgagatgaacaggagcacgaacgagtgga 417
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3454619 tgtaccgcctgaagttcaacgagagcttcgccgagatgaacaggagcacgaacgagtgga 3454560
Query: 418 agacgatcgtgggcaccgcgctgttcttcatcggcttcaccgccctcctcctcatctggg 477
||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 3454559 agacgatcgtgggcaccgcgctgttcttcatcggcttcaccgccctcatcctcatctggg 3454500
Query: 478 agaagcactatg 489
||||||||||||
Sbjct: 3454499 agaagcactatg 3454488
Score = 155 bits (78), Expect = 4e-35
Identities = 78/78 (100%)
Strand = Plus / Minus
Query: 113 caggatgttggctaccagagtatttaacctcattggcaggcgagcaatttccacctcggt 172
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3458880 caggatgttggctaccagagtatttaacctcattggcaggcgagcaatttccacctcggt 3458821
Query: 173 gtgtgtgcgagcacatgg 190
||||||||||||||||||
Sbjct: 3458820 gtgtgtgcgagcacatgg 3458803
Score = 85.7 bits (43), Expect = 3e-14
Identities = 76/87 (87%)
Strand = Plus / Minus
Query: 2 ctctcgatcccgtggtgctccgcggcagggtcgcgctctcttccggtcgcgggcagccgg 61
|||||||||||||| ||||||||||||||||| ||||||| || |||||||| | ||||
Sbjct: 3460252 ctctcgatcccgtgttgctccgcggcagggtcacgctctcgtcaggtcgcggactgccgc 3460193
Query: 62 ggcgtagagggcggtcgcgacaggcgc 88
||| ||||||||| ||||||| ||||
Sbjct: 3460192 ggcttagagggcgagcgcgacatgcgc 3460166
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: 14,742,774
Number of extensions: 640
Number of successful extensions: 640
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 640
Number of HSP's successfully gapped: 5
Length of query: 751
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 730
Effective length of database: 2,808,413,156
Effective search space: 2050141603880
Effective search space used: 2050141603880
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 17 (34.2 bits)
S2: 29 (58.0 bits)