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-013417
(951 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_541631.2| PREDICTED: similar to 28S ribosomal protein S12... 224 1e-58
Alignment gi|XP_536303.1| PREDICTED: similar to ribosomal protein S23 iso... 51 2e-06
>ref|XP_541631.2| PREDICTED: similar to 28S ribosomal protein S12, mitochondrial
precursor (S12mt) (MRP-S12) (MT-RPS12) [Canis
familiaris].
Length = 167
Score = 224 bits (570), Expect = 1e-58
Identities = 117/159 (73%), Positives = 120/159 (75%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSWSGLLRGL SL+ G AL + W TR MATLNQMHR TAGRPQLKG
Sbjct: 1 MSWSGLLRGLRASLSYGQALASQLWTTRTMATLNQMHRRGLPKWPPPPLGPTAGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG
Sbjct: 61 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKKK*PPGTWWQLGVHAEEELSPG 551
VKLTVVRGKYDCGH G +Q H LSPG
Sbjct: 121 VKLTVVRGKYDCGHACSIL---GKLFQFWKHLVLGLSPG 156
>ref|XP_536303.1| PREDICTED: similar to ribosomal protein S23 isoform 1 [Canis
familiaris].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
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: 46,661,380
Number of extensions: 1675455
Number of successful extensions: 8516
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 8351
Number of HSP's successfully gapped: 2
Length of query: 317
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 214
Effective length of database: 15,440,896
Effective search space: 3304351744
Effective search space used: 3304351744
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)
Animal-Genome cDNA 20110601C-013417
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-013417
(951 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_001070569.1| 28S ribosomal protein S12, mitochondrial pre... 241 7e-64
Alignment gi|XP_002700162.1| PREDICTED: ribosomal protein S23-like [Bos t... 51 1e-06
Alignment gi|XP_001255064.3| PREDICTED: ribosomal protein S23-like [Bos t... 51 1e-06
Alignment gi|NP_001029862.1| 40S ribosomal protein S23 [Bos taurus]. 51 2e-06
Alignment gi|XP_002691398.1| PREDICTED: ribosomal protein S23-like [Bos t... 51 2e-06
Alignment gi|XP_001790061.1| PREDICTED: ribosomal protein S23-like isofor... 51 2e-06
Alignment gi|XP_001251998.1| PREDICTED: ribosomal protein S23-like isofor... 51 2e-06
Alignment gi|XP_002691555.1| PREDICTED: ribosomal protein S23-like [Bos t... 49 8e-06
Alignment gi|XP_590901.1| PREDICTED: ribosomal protein S23-like [Bos taur... 49 8e-06
>ref|NP_001070569.1| 28S ribosomal protein S12, mitochondrial precursor [Bos taurus].
Length = 139
Score = 241 bits (615), Expect = 7e-64
Identities = 117/139 (84%), Positives = 119/139 (85%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSWSGLLRGL SLN GLAL PRPW TRPMATLNQ+HR T GRPQLKG
Sbjct: 1 MSWSGLLRGLSMSLNYGLALAPRPWGTRPMATLNQLHRRGPPKFPPSKPGPTEGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGH+LQEHHVVLVQGGRTQDLPG
Sbjct: 61 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHNLQEHHVVLVQGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKKK 491
VKL VVRGKYDCGHVQKKK
Sbjct: 121 VKLKVVRGKYDCGHVQKKK 139
>ref|XP_002700162.1| PREDICTED: ribosomal protein S23-like [Bos taurus].
Length = 155
Score = 51.2 bits (121), Expect = 1e-06
Identities = 34/82 (41%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KGVVL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 55 GASHAKGVVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 114
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 115 AGFGRKGHAVGDIPGVRFKVVK 136
>ref|XP_001255064.3| PREDICTED: ribosomal protein S23-like [Bos taurus].
Length = 155
Score = 51.2 bits (121), Expect = 1e-06
Identities = 34/82 (41%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KGVVL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 55 GASHAKGVVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 114
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 115 AGFGRKGHAVGDIPGVRFKVVK 136
>ref|NP_001029862.1| 40S ribosomal protein S23 [Bos taurus].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|XP_002691398.1| PREDICTED: ribosomal protein S23-like [Bos taurus].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|XP_001790061.1| PREDICTED: ribosomal protein S23-like isoform 1 [Bos taurus].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|XP_001251998.1| PREDICTED: ribosomal protein S23-like isoform 1 [Bos taurus].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|XP_002691555.1| PREDICTED: ribosomal protein S23-like [Bos taurus].
Length = 151
Score = 48.5 bits (114), Expect = 8e-06
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRV-RLSTGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV R+ G++ F+ +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKRPNSAIRKCVRVQRIKNGKKITAFVSNDGCLNFIEENDEVLV 102
Query: 405 -----QGGRTQDLPGVKLTVVR 455
+G D+PGV+ VV+
Sbjct: 103 AGFGGKGHAVGDIPGVRFKVVK 124
>ref|XP_590901.1| PREDICTED: ribosomal protein S23-like [Bos taurus].
Length = 151
Score = 48.5 bits (114), Expect = 8e-06
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRV-RLSTGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV R+ G++ F+ +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKRPNSAIRKCVRVQRIKNGKKITAFVSNDGCLNFIEENDEVLV 102
Query: 405 -----QGGRTQDLPGVKLTVVR 455
+G D+PGV+ VV+
Sbjct: 103 AGFGGKGHAVGDIPGVRFKVVK 124
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: 44,773,796
Number of extensions: 1622765
Number of successful extensions: 8289
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 8096
Number of HSP's successfully gapped: 9
Length of query: 317
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 215
Effective length of database: 14,306,398
Effective search space: 3075875570
Effective search space used: 3075875570
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-013417
(951 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_003127172.2| PREDICTED: 28S ribosomal protein S12, mitoch... 226 1e-59
Alignment gi|NP_998929.1| 40S ribosomal protein S23 [Sus scrofa]. 51 1e-06
Alignment gi|XP_003121525.1| PREDICTED: 40S ribosomal protein S23-like [S... 50 1e-06
>ref|XP_003127172.2| PREDICTED: 28S ribosomal protein S12, mitochondrial-like isoform 1
[Sus scrofa].
Length = 135
Score = 226 bits (576), Expect = 1e-59
Identities = 110/122 (90%), Positives = 110/122 (90%)
Frame = +3
Query: 126 LALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSAN 305
LALVPRPWATRPMATLNQMHRL TAGRPQLKGVVLRTFIRKPKKPNSAN
Sbjct: 14 LALVPRPWATRPMATLNQMHRLGPPKHPPGKMGPTAGRPQLKGVVLRTFIRKPKKPNSAN 73
Query: 306 RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK 485
RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK
Sbjct: 74 RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK 133
Query: 486 KK 491
KK
Sbjct: 134 KK 135
>ref|NP_998929.1| 40S ribosomal protein S23 [Sus scrofa].
Length = 143
Score = 50.8 bits (120), Expect = 1e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|XP_003121525.1| PREDICTED: 40S ribosomal protein S23-like [Sus scrofa].
Length = 143
Score = 50.4 bits (119), Expect = 1e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL+ + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLKKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV VV+
Sbjct: 103 AGFGRKGHAVGDIPGVHFKVVK 124
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: 29,018,018
Number of extensions: 1054071
Number of successful extensions: 5416
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 5249
Number of HSP's successfully gapped: 3
Length of query: 317
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 218
Effective length of database: 8,879,129
Effective search space: 1935650122
Effective search space used: 1935650122
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-013417
(951 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_036015.1| 28S ribosomal protein S12, mitochondrial precur... 228 5e-60
Alignment gi|XP_003084798.1| PREDICTED: 40S ribosomal protein S23-like [M... 52 5e-07
Alignment gi|XP_003086717.1| PREDICTED: 40S ribosomal protein S23-like [M... 52 5e-07
Alignment gi|NP_001094078.1| predicted gene 15450 [Mus musculus]. 51 1e-06
Alignment gi|NP_077137.1| 40S ribosomal protein S23 [Mus musculus]. 51 1e-06
>ref|NP_036015.1| 28S ribosomal protein S12, mitochondrial precursor [Mus musculus].
Length = 139
Score = 228 bits (581), Expect = 5e-60
Identities = 112/139 (80%), Positives = 117/139 (84%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSW GLL GL TSL+ GLAL P+ WA R MATLNQMHRL T GRPQLKG
Sbjct: 1 MSWPGLLYGLTTSLSRGLALAPQLWAARSMATLNQMHRLGPRKEPPKRLGPTEGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVLRTFIRKPKKPNSANRKCCRVRLSTG+EAVCFIPGEGH+LQEHHVVLV+GGRTQDLPG
Sbjct: 61 VVLRTFIRKPKKPNSANRKCCRVRLSTGKEAVCFIPGEGHTLQEHHVVLVEGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKKK 491
VKL VVRGKYDCGHVQKKK
Sbjct: 121 VKLKVVRGKYDCGHVQKKK 139
>ref|XP_003084798.1| PREDICTED: 40S ribosomal protein S23-like [Mus musculus].
Length = 143
Score = 52.4 bits (124), Expect = 5e-07
Identities = 32/82 (39%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QGGRTQ-----DLPGVKLTVVR 455
G R + D+PGV+ VV+
Sbjct: 103 AGFRRKGHAVGDIPGVRFKVVK 124
>ref|XP_003086717.1| PREDICTED: 40S ribosomal protein S23-like [Mus musculus].
Length = 143
Score = 52.4 bits (124), Expect = 5e-07
Identities = 32/82 (39%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QGGRTQ-----DLPGVKLTVVR 455
G R + D+PGV+ VV+
Sbjct: 103 AGFRRKGHAVGDIPGVRFKVVK 124
>ref|NP_001094078.1| predicted gene 15450 [Mus musculus].
Length = 143
Score = 50.8 bits (120), Expect = 1e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
>ref|NP_077137.1| 40S ribosomal protein S23 [Mus musculus].
Length = 143
Score = 50.8 bits (120), Expect = 1e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
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: 38,081,292
Number of extensions: 1312046
Number of successful extensions: 6052
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 5887
Number of HSP's successfully gapped: 5
Length of query: 317
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 216
Effective length of database: 12,583,923
Effective search space: 2718127368
Effective search space used: 2718127368
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-013417
(951 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_203527.1| 28S ribosomal protein S12, mitochondrial precur... 228 6e-60
Alignment gi|NP_066930.1| 28S ribosomal protein S12, mitochondrial precur... 228 6e-60
Alignment gi|NP_203526.1| 28S ribosomal protein S12, mitochondrial precur... 228 6e-60
Alignment gi|NP_001016.1| 40S ribosomal protein S23 [Homo sapiens]. 51 2e-06
>ref|NP_203527.1| 28S ribosomal protein S12, mitochondrial precursor [Homo sapiens].
Length = 138
Score = 228 bits (581), Expect = 6e-60
Identities = 112/138 (81%), Positives = 115/138 (83%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSWSGLL GL TSL CG ALVPR WAT MATLNQMHRL T GRPQLKG
Sbjct: 1 MSWSGLLHGLNTSLTCGPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVL TF RKPKKPNSANRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPG
Sbjct: 61 VVLCTFTRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKK 488
VKLTVVRGKYDCGHVQKK
Sbjct: 121 VKLTVVRGKYDCGHVQKK 138
>ref|NP_066930.1| 28S ribosomal protein S12, mitochondrial precursor [Homo sapiens].
Length = 138
Score = 228 bits (581), Expect = 6e-60
Identities = 112/138 (81%), Positives = 115/138 (83%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSWSGLL GL TSL CG ALVPR WAT MATLNQMHRL T GRPQLKG
Sbjct: 1 MSWSGLLHGLNTSLTCGPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVL TF RKPKKPNSANRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPG
Sbjct: 61 VVLCTFTRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKK 488
VKLTVVRGKYDCGHVQKK
Sbjct: 121 VKLTVVRGKYDCGHVQKK 138
>ref|NP_203526.1| 28S ribosomal protein S12, mitochondrial precursor [Homo sapiens].
Length = 138
Score = 228 bits (581), Expect = 6e-60
Identities = 112/138 (81%), Positives = 115/138 (83%)
Frame = +3
Query: 75 MSWSGLLRGLGTSLNCGLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKG 254
MSWSGLL GL TSL CG ALVPR WAT MATLNQMHRL T GRPQLKG
Sbjct: 1 MSWSGLLHGLNTSLTCGPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKG 60
Query: 255 VVLRTFIRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPG 434
VVL TF RKPKKPNSANRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPG
Sbjct: 61 VVLCTFTRKPKKPNSANRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPG 120
Query: 435 VKLTVVRGKYDCGHVQKK 488
VKLTVVRGKYDCGHVQKK
Sbjct: 121 VKLTVVRGKYDCGHVQKK 138
>ref|NP_001016.1| 40S ribosomal protein S23 [Homo sapiens].
Length = 143
Score = 50.8 bits (120), Expect = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +3
Query: 234 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 404
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 405 QG-GR----TQDLPGVKLTVVR 455
G GR D+PGV+ VV+
Sbjct: 103 AGFGRKGHAVGDIPGVRFKVVK 124
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: 45,504,542
Number of extensions: 1611771
Number of successful extensions: 7891
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 7756
Number of HSP's successfully gapped: 4
Length of query: 317
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 215
Effective length of database: 14,934,836
Effective search space: 3210989740
Effective search space used: 3210989740
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-013417
(951 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 141 8e-31
>Sscrofa_Chr06
|| Length = 157765593
Score = 141 bits (71), Expect = 8e-31
Identities = 71/71 (100%)
Strand = Plus / Plus
Query: 54 agggacccttcaggcggcgggatgtcctggtccggccttctccgtggcctcggcacgtcc 113
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43276807 agggacccttcaggcggcgggatgtcctggtccggccttctccgtggcctcggcacgtcc 43276866
Query: 114 ctaaactgtgg 124
|||||||||||
Sbjct: 43276867 ctaaactgtgg 43276877
Score = 111 bits (56), Expect = 7e-22
Identities = 56/56 (100%)
Strand = Plus / Plus
Query: 1 cattcagttagaggtcagatttggcgtgtcggcggaccgggctagtgtcggaaagg 56
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43276462 cattcagttagaggtcagatttggcgtgtcggcggaccgggctagtgtcggaaagg 43276517
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: 22,877,229
Number of extensions: 147
Number of successful extensions: 147
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 147
Number of HSP's successfully gapped: 2
Length of query: 951
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 930
Effective length of database: 2,808,413,156
Effective search space: 2611824235080
Effective search space used: 2611824235080
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)