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-013416
(976 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... 220 2e-57
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 9e-06
Alignment gi|XP_590901.1| PREDICTED: ribosomal protein S23-like [Bos taur... 49 9e-06
>ref|NP_001070569.1| 28S ribosomal protein S12, mitochondrial precursor [Bos taurus].
Length = 139
Score = 220 bits (560), Expect = 2e-57
Identities = 117/183 (63%), Positives = 119/183 (65%)
Frame = +2
Query: 65 MSWSGLLRGLGTSLNCDEHTEAXXXXXXXXXXXXXXXXDF*ESPLRILLSLEA*GYMEMD 244
MSWSGLLRGL SLN
Sbjct: 1 MSWSGLLRGLSMSLNY-------------------------------------------- 16
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
GLAL PRPW TRPMATLNQ+HR T GRPQLKGVVLRTFIRKPKKPNSA
Sbjct: 17 GLALAPRPWGTRPMATLNQLHRRGPPKFPPSKPGPTEGRPQLKGVVLRTFIRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTGREAVCFIPGEGH+LQEHHVVLVQGGRTQDLPGVKL VVRGKYDCGHVQ
Sbjct: 77 NRKCCRVRLSTGREAVCFIPGEGHNLQEHHVVLVQGGRTQDLPGVKLKVVRGKYDCGHVQ 136
Query: 605 KKK 613
KKK
Sbjct: 137 KKK 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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KGVVL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 55 GASHAKGVVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 114
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KGVVL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 55 GASHAKGVVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 114
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GTSHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = 9e-06
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Frame = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRV-RLSTGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV R+ G++ F+ +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKRPNSAIRKCVRVQRIKNGKKITAFVSNDGCLNFIEENDEVLV 102
Query: 527 -----QGGRTQDLPGVKLTVVR 577
+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 = 9e-06
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 8/82 (9%)
Frame = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRV-RLSTGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV R+ G++ F+ +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKRPNSAIRKCVRVQRIKNGKKITAFVSNDGCLNFIEENDEVLV 102
Query: 527 -----QGGRTQDLPGVKLTVVR 577
+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: 45,460,136
Number of extensions: 1600838
Number of successful extensions: 7774
Number of sequences better than 1.0e-05: 9
Number of HSP's gapped: 7650
Number of HSP's successfully gapped: 9
Length of query: 325
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 223
Effective length of database: 14,306,398
Effective search space: 3190326754
Effective search space used: 3190326754
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-013416
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-013416
(976 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... 202 3e-52
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 = 202 bits (515), Expect = 3e-52
Identities = 117/203 (57%), Positives = 120/203 (59%)
Frame = +2
Query: 65 MSWSGLLRGLGTSLNCDEHTEAXXXXXXXXXXXXXXXXDF*ESPLRILLSLEA*GYMEMD 244
MSWSGLLRGL SL+
Sbjct: 1 MSWSGLLRGLRASLSY-------------------------------------------- 16
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
G AL + W TR MATLNQMHR TAGRPQLKGVVLRTFIRKPKKPNSA
Sbjct: 17 GQALASQLWTTRTMATLNQMHRRGLPKWPPPPLGPTAGRPQLKGVVLRTFIRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGH
Sbjct: 77 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHAC 136
Query: 605 KKK*PPGTWWQLGVHAEEELSPG 673
G +Q H LSPG
Sbjct: 137 SIL---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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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: 47,320,391
Number of extensions: 1652077
Number of successful extensions: 7909
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 7799
Number of HSP's successfully gapped: 2
Length of query: 325
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 222
Effective length of database: 15,440,896
Effective search space: 3427878912
Effective search space used: 3427878912
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-013416
(976 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 = +2
Query: 248 LALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSAN 427
LALVPRPWATRPMATLNQMHRL TAGRPQLKGVVLRTFIRKPKKPNSAN
Sbjct: 14 LALVPRPWATRPMATLNQMHRLGPPKHPPGKMGPTAGRPQLKGVVLRTFIRKPKKPNSAN 73
Query: 428 RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK 607
RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK
Sbjct: 74 RKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQK 133
Query: 608 KK 613
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL+ + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLKKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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: 29,444,855
Number of extensions: 1040744
Number of successful extensions: 5080
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4917
Number of HSP's successfully gapped: 3
Length of query: 325
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 226
Effective length of database: 8,879,129
Effective search space: 2006683154
Effective search space used: 2006683154
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-013416
(976 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... 209 3e-54
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 2e-06
Alignment gi|NP_077137.1| 40S ribosomal protein S23 [Mus musculus]. 51 2e-06
>ref|NP_036015.1| 28S ribosomal protein S12, mitochondrial precursor [Mus musculus].
Length = 139
Score = 209 bits (531), Expect = 3e-54
Identities = 101/123 (82%), Positives = 105/123 (85%)
Frame = +2
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
GLAL P+ WA R MATLNQMHRL T GRPQLKGVVLRTFIRKPKKPNSA
Sbjct: 17 GLALAPQLWAARSMATLNQMHRLGPRKEPPKRLGPTEGRPQLKGVVLRTFIRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTG+EAVCFIPGEGH+LQEHHVVLV+GGRTQDLPGVKL VVRGKYDCGHVQ
Sbjct: 77 NRKCCRVRLSTGKEAVCFIPGEGHTLQEHHVVLVEGGRTQDLPGVKLKVVRGKYDCGHVQ 136
Query: 605 KKK 613
KKK
Sbjct: 137 KKK 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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QGGRTQ-----DLPGVKLTVVR 577
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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QGGRTQ-----DLPGVKLTVVR 577
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 = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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 = 2e-06
Identities = 33/82 (40%), Positives = 48/82 (58%), Gaps = 8/82 (9%)
Frame = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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: 38,653,569
Number of extensions: 1295917
Number of successful extensions: 5656
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 5540
Number of HSP's successfully gapped: 5
Length of query: 325
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 223
Effective length of database: 12,553,887
Effective search space: 2799516801
Effective search space used: 2799516801
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-013416
(976 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... 207 2e-53
Alignment gi|NP_066930.1| 28S ribosomal protein S12, mitochondrial precur... 207 2e-53
Alignment gi|NP_203526.1| 28S ribosomal protein S12, mitochondrial precur... 207 2e-53
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 = 207 bits (526), Expect = 2e-53
Identities = 112/182 (61%), Positives = 115/182 (63%)
Frame = +2
Query: 65 MSWSGLLRGLGTSLNCDEHTEAXXXXXXXXXXXXXXXXDF*ESPLRILLSLEA*GYMEMD 244
MSWSGLL GL TSL C
Sbjct: 1 MSWSGLLHGLNTSLTC-------------------------------------------- 16
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
G ALVPR WAT MATLNQMHRL T GRPQLKGVVL TF RKPKKPNSA
Sbjct: 17 GPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKGVVLCTFTRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPGVKLTVVRGKYDCGHVQ
Sbjct: 77 NRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPGVKLTVVRGKYDCGHVQ 136
Query: 605 KK 610
KK
Sbjct: 137 KK 138
>ref|NP_066930.1| 28S ribosomal protein S12, mitochondrial precursor [Homo sapiens].
Length = 138
Score = 207 bits (526), Expect = 2e-53
Identities = 112/182 (61%), Positives = 115/182 (63%)
Frame = +2
Query: 65 MSWSGLLRGLGTSLNCDEHTEAXXXXXXXXXXXXXXXXDF*ESPLRILLSLEA*GYMEMD 244
MSWSGLL GL TSL C
Sbjct: 1 MSWSGLLHGLNTSLTC-------------------------------------------- 16
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
G ALVPR WAT MATLNQMHRL T GRPQLKGVVL TF RKPKKPNSA
Sbjct: 17 GPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKGVVLCTFTRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPGVKLTVVRGKYDCGHVQ
Sbjct: 77 NRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPGVKLTVVRGKYDCGHVQ 136
Query: 605 KK 610
KK
Sbjct: 137 KK 138
>ref|NP_203526.1| 28S ribosomal protein S12, mitochondrial precursor [Homo sapiens].
Length = 138
Score = 207 bits (526), Expect = 2e-53
Identities = 112/182 (61%), Positives = 115/182 (63%)
Frame = +2
Query: 65 MSWSGLLRGLGTSLNCDEHTEAXXXXXXXXXXXXXXXXDF*ESPLRILLSLEA*GYMEMD 244
MSWSGLL GL TSL C
Sbjct: 1 MSWSGLLHGLNTSLTC-------------------------------------------- 16
Query: 245 GLALVPRPWATRPMATLNQMHRLXXXXXXXXXXXXTAGRPQLKGVVLRTFIRKPKKPNSA 424
G ALVPR WAT MATLNQMHRL T GRPQLKGVVL TF RKPKKPNSA
Sbjct: 17 GPALVPRLWATCSMATLNQMHRLGPPKRPPRKLGPTEGRPQLKGVVLCTFTRKPKKPNSA 76
Query: 425 NRKCCRVRLSTGREAVCFIPGEGHSLQEHHVVLVQGGRTQDLPGVKLTVVRGKYDCGHVQ 604
NRKCCRVRLSTGREAVCFIPGEGH+LQEH +VLV+GGRTQDLPGVKLTVVRGKYDCGHVQ
Sbjct: 77 NRKCCRVRLSTGREAVCFIPGEGHTLQEHQIVLVEGGRTQDLPGVKLTVVRGKYDCGHVQ 136
Query: 605 KK 610
KK
Sbjct: 137 KK 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 = +2
Query: 356 GRPQLKGVVLRTFIRKPKKPNSANRKCCRVRL-STGREAVCFIPGEG--HSLQEHHVVLV 526
G KG+VL + K+PNSA RKC RV+L G++ F+P +G + ++E+ VLV
Sbjct: 43 GASHAKGIVLEKVGVEAKQPNSAIRKCVRVQLIKNGKKITAFVPNDGCLNFIEENDEVLV 102
Query: 527 QG-GR----TQDLPGVKLTVVR 577
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: 46,156,235
Number of extensions: 1588896
Number of successful extensions: 7250
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 7133
Number of HSP's successfully gapped: 4
Length of query: 325
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 222
Effective length of database: 14,901,872
Effective search space: 3308215584
Effective search space used: 3308215584
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-013416
(976 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 266 2e-68
>Sscrofa_Chr06
|| Length = 157765593
Score = 266 bits (134), Expect = 2e-68
Identities = 134/134 (100%)
Strand = Plus / Plus
Query: 113 gatgagcacactgaggccctgaggtgaacagtcgtgctcggcggcggtggcacatcacta 172
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43277719 gatgagcacactgaggccctgaggtgaacagtcgtgctcggcggcggtggcacatcacta 43277778
Query: 173 aggagagacttctaggaatcccctttgaggattctgctgtcacttgaggcataaggatac 232
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43277779 aggagagacttctaggaatcccctttgaggattctgctgtcacttgaggcataaggatac 43277838
Query: 233 atggaaatggacgg 246
||||||||||||||
Sbjct: 43277839 atggaaatggacgg 43277852
Score = 266 bits (134), Expect = 2e-68
Identities = 134/134 (100%)
Strand = Plus / Minus
Query: 113 gatgagcacactgaggccctgaggtgaacagtcgtgctcggcggcggtggcacatcacta 172
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 44612331 gatgagcacactgaggccctgaggtgaacagtcgtgctcggcggcggtggcacatcacta 44612272
Query: 173 aggagagacttctaggaatcccctttgaggattctgctgtcacttgaggcataaggatac 232
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 44612271 aggagagacttctaggaatcccctttgaggattctgctgtcacttgaggcataaggatac 44612212
Query: 233 atggaaatggacgg 246
||||||||||||||
Sbjct: 44612211 atggaaatggacgg 44612198
Score = 139 bits (70), Expect = 3e-30
Identities = 70/70 (100%)
Strand = Plus / Plus
Query: 44 agggacccttcaggcggcgggatgtcctggtccggccttctccgtggcctcggcacgtcc 103
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43276807 agggacccttcaggcggcgggatgtcctggtccggccttctccgtggcctcggcacgtcc 43276866
Query: 104 ctaaactgtg 113
||||||||||
Sbjct: 43276867 ctaaactgtg 43276876
Score = 91.7 bits (46), Expect = 7e-16
Identities = 46/46 (100%)
Strand = Plus / Plus
Query: 1 gaggtcagatttggcgtgtcggcggaccgggctagtgtcggaaagg 46
||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 43276472 gaggtcagatttggcgtgtcggcggaccgggctagtgtcggaaagg 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: 24,052,516
Number of extensions: 192
Number of successful extensions: 192
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 192
Number of HSP's successfully gapped: 4
Length of query: 976
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 955
Effective length of database: 2,808,413,156
Effective search space: 2682034563980
Effective search space used: 2682034563980
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)