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-009009
(1093 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_776567.1| phytanoyl-CoA dioxygenase, peroxisomal precurso... 207 1e-53
>ref|NP_776567.1| phytanoyl-CoA dioxygenase, peroxisomal precursor [Bos taurus].
Length = 337
Score = 207 bits (528), Expect = 1e-53
Identities = 104/139 (74%), Positives = 118/139 (84%), Gaps = 3/139 (2%)
Frame = +2
Query: 80 MERGRAYTRLNTLLQHLGGSSAGAVTAHPTSGA---AKFQPQQFQYTRDNNVLSLEQRQF 250
M+R R RL LL+HLG SAG + AH TSG A F PQQFQYTR+NNVLSLEQR+F
Sbjct: 1 MDRNRXSARLTVLLRHLGCRSAGTIIAHHTSGVGSLASFHPQQFQYTRENNVLSLEQRKF 60
Query: 251 YEENGFLVIKNLVSDADIERFRVQFERICREEVKPLGLMLMRDVSIGKSEYVPCEKMVSK 430
YEENGFLVIKNLVSDADI+RFR +FERICR+EVKPLGL +MRDV+I KSEYVP EK+VSK
Sbjct: 61 YEENGFLVIKNLVSDADIQRFRNEFERICRKEVKPLGLSVMRDVTITKSEYVPSEKVVSK 120
Query: 431 VQNFQEDKELFRYCTLPEV 487
VQ+FQED+ELFRYCTLPE+
Sbjct: 121 VQDFQEDEELFRYCTLPEI 139
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: 25,862,898
Number of extensions: 993135
Number of successful extensions: 2173
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2171
Number of HSP's successfully gapped: 1
Length of query: 364
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 260
Effective length of database: 14,240,222
Effective search space: 3702457720
Effective search space used: 3702457720
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-009009
(1093 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_849313.1| PREDICTED: similar to phytanoyl-CoA hydroxylase... 196 4e-50
Alignment gi|XP_535184.2| PREDICTED: similar to phytanoyl-CoA hydroxylase... 187 2e-47
Alignment gi|XP_849299.1| PREDICTED: similar to phytanoyl-CoA hydroxylase... 96 8e-20
>ref|XP_849313.1| PREDICTED: similar to phytanoyl-CoA hydroxylase precursor [Canis
familiaris].
Length = 438
Score = 196 bits (497), Expect = 4e-50
Identities = 102/165 (61%), Positives = 121/165 (73%), Gaps = 3/165 (1%)
Frame = +2
Query: 2 SHHPEAGSPAELNWAAARQPGVPTEPMERGRAYTRLNTLLQHLGGSSAGAVTAHPTSGAA 181
S P PA + +P P M + +A RL +L HLG +SA A+PTSGA
Sbjct: 76 SSAPTPPRPALQQLSGPAEPS-PVAAMNQRQAAARLRVVLGHLGQTSARTGVAYPTSGAV 134
Query: 182 K---FQPQQFQYTRDNNVLSLEQRQFYEENGFLVIKNLVSDADIERFRVQFERICREEVK 352
F P QFQYTRDN+VLSLEQR+FYEENGFLVIKNLVSDADI+RFR QFERICR EVK
Sbjct: 135 SPNSFHPPQFQYTRDNDVLSLEQRKFYEENGFLVIKNLVSDADIQRFRDQFERICRGEVK 194
Query: 353 PLGLMLMRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEV 487
P +M+MRDVSI KSEY+P E+M+SK+Q F++DKELFRYCTLPE+
Sbjct: 195 PEQMMIMRDVSIAKSEYIPSERMISKIQYFEDDKELFRYCTLPEI 239
>ref|XP_535184.2| PREDICTED: similar to phytanoyl-CoA hydroxylase precursor [Canis
familiaris].
Length = 540
Score = 187 bits (474), Expect = 2e-47
Identities = 102/163 (62%), Positives = 121/163 (74%), Gaps = 5/163 (3%)
Frame = +2
Query: 14 EAGSPAELNWAAARQPGVPTE--PMERGRAYTRLNTLLQHLGGSSAGAVTAHPTSGAAK- 184
EA + AE A AR P P+ M + +A RL +L HLG +SA A+ TS A
Sbjct: 182 EAEAEAE---ADARDPAEPSPVAAMNQRQAAARLRVVLGHLGQTSARTGVAYSTSRAVSP 238
Query: 185 --FQPQQFQYTRDNNVLSLEQRQFYEENGFLVIKNLVSDADIERFRVQFERICREEVKPL 358
F P QFQYT+ N VLSLEQR+FYEENGFLVIK+LVSDADI+RFR QFERICR EVKP
Sbjct: 239 NSFHPPQFQYTQHNAVLSLEQRKFYEENGFLVIKSLVSDADIQRFRDQFERICRGEVKPE 298
Query: 359 GLMLMRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEV 487
+M+MRDVSI KSEY+P E+M+SK+Q+FQEDKELFRYCTLPE+
Sbjct: 299 QMMIMRDVSIAKSEYIPSERMISKIQDFQEDKELFRYCTLPEI 341
>ref|XP_849299.1| PREDICTED: similar to phytanoyl-CoA hydroxylase precursor [Canis
familiaris].
Length = 269
Score = 95.5 bits (236), Expect = 8e-20
Identities = 42/56 (75%), Positives = 50/56 (89%)
Frame = +2
Query: 320 QFERICREEVKPLGLMLMRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEV 487
QFERICR EVKP +++MRDVSI KSEY+P E+M+SK+Q FQEDKELFRYCTLPE+
Sbjct: 7 QFERICRGEVKPKQMIIMRDVSIAKSEYIPSERMISKIQGFQEDKELFRYCTLPEI 62
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: 24,803,285
Number of extensions: 606259
Number of successful extensions: 2099
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 2096
Number of HSP's successfully gapped: 3
Length of query: 364
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 260
Effective length of database: 15,407,560
Effective search space: 4005965600
Effective search space used: 4005965600
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-009009
(1093 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_001106918.1| phytanoyl-CoA dioxygenase, peroxisomal [Sus ... 84 2e-16
>ref|NP_001106918.1| phytanoyl-CoA dioxygenase, peroxisomal [Sus scrofa].
Length = 237
Score = 83.6 bits (205), Expect = 2e-16
Identities = 38/39 (97%), Positives = 39/39 (100%)
Frame = +2
Query: 371 MRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEV 487
MRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPE+
Sbjct: 1 MRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEI 39
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: 20,503,302
Number of extensions: 1303033
Number of successful extensions: 1330
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1329
Number of HSP's successfully gapped: 1
Length of query: 364
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 264
Effective length of database: 8,854,232
Effective search space: 2337517248
Effective search space used: 2337517248
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 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-009009
(1093 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_034856.1| phytanoyl-CoA dioxygenase, peroxisomal precurso... 189 4e-48
>ref|NP_034856.1| phytanoyl-CoA dioxygenase, peroxisomal precursor [Mus musculus].
Length = 338
Score = 189 bits (479), Expect = 4e-48
Identities = 92/139 (66%), Positives = 111/139 (79%), Gaps = 3/139 (2%)
Frame = +2
Query: 80 MERGRAYTRLNTLLQHLGGSSAGAVTAHPTSGAAK---FQPQQFQYTRDNNVLSLEQRQF 250
M RA RL LL HLG SA + A P SG A FQP+QFQYT DNNVL+LEQR+F
Sbjct: 1 MNLTRAGARLQVLLGHLGRPSAPTIVAQPVSGLASPASFQPEQFQYTLDNNVLTLEQRKF 60
Query: 251 YEENGFLVIKNLVSDADIERFRVQFERICREEVKPLGLMLMRDVSIGKSEYVPCEKMVSK 430
YEENGFLVIKNLVSD DI+RFR +FERICREEVKP G+++MRDV++ K +Y+P ++MVSK
Sbjct: 61 YEENGFLVIKNLVSDDDIQRFRAEFERICREEVKPPGIVIMRDVALAKQDYMPSDRMVSK 120
Query: 431 VQNFQEDKELFRYCTLPEV 487
+Q+FQED+ELFRYC LPE+
Sbjct: 121 IQDFQEDEELFRYCLLPEI 139
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: 20,549,914
Number of extensions: 487715
Number of successful extensions: 1592
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1591
Number of HSP's successfully gapped: 1
Length of query: 364
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 261
Effective length of database: 12,523,851
Effective search space: 3268725111
Effective search space used: 3268725111
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 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-009009
(1093 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_006205.1| phytanoyl-CoA dioxygenase, peroxisomal isoform ... 207 2e-53
Alignment gi|NP_001032626.1| phytanoyl-CoA dioxygenase, peroxisomal isofo... 71 2e-12
>ref|NP_006205.1| phytanoyl-CoA dioxygenase, peroxisomal isoform a precursor [Homo
sapiens].
Length = 338
Score = 207 bits (526), Expect = 2e-53
Identities = 103/139 (74%), Positives = 118/139 (84%), Gaps = 3/139 (2%)
Frame = +2
Query: 80 MERGRAYTRLNTLLQHLGGSSAGAVTAHPTSG---AAKFQPQQFQYTRDNNVLSLEQRQF 250
ME+ RA RL +L HLG SAGAV AHPTSG +A F PQQFQYT DNNVL+LEQR+F
Sbjct: 1 MEQLRAAARLQIVLGHLGRPSAGAVVAHPTSGTISSASFHPQQFQYTLDNNVLTLEQRKF 60
Query: 251 YEENGFLVIKNLVSDADIERFRVQFERICREEVKPLGLMLMRDVSIGKSEYVPCEKMVSK 430
YEENGFLVIKNLV DADI+RFR +FE+ICR+EVKPLGL +MRDV+I KSEY P EKM++K
Sbjct: 61 YEENGFLVIKNLVPDADIQRFRNEFEKICRKEVKPLGLTVMRDVTISKSEYAPSEKMITK 120
Query: 431 VQNFQEDKELFRYCTLPEV 487
VQ+FQEDKELFRYCTLPE+
Sbjct: 121 VQDFQEDKELFRYCTLPEI 139
>ref|NP_001032626.1| phytanoyl-CoA dioxygenase, peroxisomal isoform b precursor [Homo
sapiens].
Length = 238
Score = 71.2 bits (173), Expect = 2e-12
Identities = 31/39 (79%), Positives = 36/39 (92%)
Frame = +2
Query: 371 MRDVSIGKSEYVPCEKMVSKVQNFQEDKELFRYCTLPEV 487
MRDV+I KSEY P EKM++KVQ+FQEDKELFRYCTLPE+
Sbjct: 1 MRDVTISKSEYAPSEKMITKVQDFQEDKELFRYCTLPEI 39
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: 24,141,274
Number of extensions: 558464
Number of successful extensions: 2046
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 2043
Number of HSP's successfully gapped: 2
Length of query: 364
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 260
Effective length of database: 14,868,908
Effective search space: 3865916080
Effective search space used: 3865916080
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-009009
(1093 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL894817.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 585 e-164
gb|GL896181.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 105 5e-20
>gb|GL894817.1| Sus scrofa unplaced genomic scaffold chrU_scaffold3444
Length = 35093
Score = 585 bits (295), Expect = e-164
Identities = 295/295 (100%)
Strand = Plus / Plus
Query: 313 tagggttcagtttgaaagaatctgcagagaggaggtgaaaccactgggattgatgctgat 372
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4719 tagggttcagtttgaaagaatctgcagagaggaggtgaaaccactgggattgatgctgat 4778
Query: 373 gagagatgtgtccattggcaaatctgaatatgttccatgtgagaaaatggtctccaaggt 432
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4779 gagagatgtgtccattggcaaatctgaatatgttccatgtgagaaaatggtctccaaggt 4838
Query: 433 ccaaaatttccaagaagataaggagctcttcagatactgcacccttcctgaggttcaaga 492
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4839 ccaaaatttccaagaagataaggagctcttcagatactgcacccttcctgaggttcaaga 4898
Query: 493 acgtctcatgttttctttctctttaacagcccacctgcacccctgcctctgcaatcttct 552
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4899 acgtctcatgttttctttctctttaacagcccacctgcacccctgcctctgcaatcttct 4958
Query: 553 aattttattttttactttatctagcccctttctcctggggccctagagctgtggt 607
|||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4959 aattttattttttactttatctagcccctttctcctggggccctagagctgtggt 5013
Score = 289 bits (146), Expect = 2e-75
Identities = 152/154 (98%)
Strand = Plus / Plus
Query: 1 gtcacaccacccggaggcggggtcgccagcagagttaaactgggcggcggcccggcagcc 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 863 gtcacaccacccggaggcggggtcgccagcagagttaaactgggcggcggcccggcagcc 922
Query: 61 tggggtccccaccgagcccatggagagaggccgcgcgtacacccgcctgaacaccttgct 120
||||||||||||||||||||||||||||||||||| |||||||||||| |||||||||||
Sbjct: 923 tggggtccccaccgagcccatggagagaggccgcgagtacacccgcctcaacaccttgct 982
Query: 121 gcaacaccttggcggcagctccgctggggccgtc 154
||||||||||||||||||||||||||||||||||
Sbjct: 983 gcaacaccttggcggcagctccgctggggccgtc 1016
Score = 222 bits (112), Expect = 3e-55
Identities = 112/112 (100%)
Strand = Plus / Plus
Query: 205 gtatactcgggataataatgttctaagcctagaacagagacaattttatgaagaaaatgg 264
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3997 gtatactcgggataataatgttctaagcctagaacagagacaattttatgaagaaaatgg 4056
Query: 265 gtttcttgtcattaaaaatttggtatctgatgctgatattgaacgctttagg 316
||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 4057 gtttcttgtcattaaaaatttggtatctgatgctgatattgaacgctttagg 4108
Score = 95.6 bits (48), Expect = 5e-17
Identities = 48/48 (100%)
Strand = Plus / Plus
Query: 800 ctcataattttgcaaattatttttggttaagaagagcaggaattctgt 847
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5206 ctcataattttgcaaattatttttggttaagaagagcaggaattctgt 5253
>gb|GL896181.1| Sus scrofa unplaced genomic scaffold chrU_scaffold547
Length = 760
Score = 105 bits (53), Expect = 5e-20
Identities = 53/53 (100%)
Strand = Plus / Plus
Query: 155 acagctcatcccacttcaggggctgccaagttccaacctcaacaattccagta 207
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 480 acagctcatcccacttcaggggctgccaagttccaacctcaacaattccagta 532
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: 25,155,151
Number of extensions: 360
Number of successful extensions: 360
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 360
Number of HSP's successfully gapped: 5
Length of query: 1093
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1072
Effective length of database: 2,808,413,156
Effective search space: 3010618903232
Effective search space used: 3010618903232
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)