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-013814
(908 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_540868.2| PREDICTED: similar to mitochondrial ribosomal p... 322 2e-88
>ref|XP_540868.2| PREDICTED: similar to mitochondrial ribosomal protein L49 [Canis
familiaris].
Length = 198
Score = 322 bits (826), Expect = 2e-88
Identities = 154/177 (87%), Positives = 160/177 (90%)
Frame = +2
Query: 2 AQKASVPGLFEMAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVE 181
AQ ASV F+MAA V LR WRTGVP GC LRRLSQTQG P+YPSFVESVDEY FVE
Sbjct: 22 AQAASVREQFKMAAAVFRATLRGWRTGVPPGCRLRRLSQTQGPPDYPSFVESVDEYQFVE 81
Query: 182 RLLPPASIPKPPKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTV 361
RLLPP SIP+PPKHEHYPTPSGWQPPRDP P+LPYFVRRSRMHNIPVY+DITHGNRQMTV
Sbjct: 82 RLLPPTSIPEPPKHEHYPTPSGWQPPRDPPPNLPYFVRRSRMHNIPVYKDITHGNRQMTV 141
Query: 362 IRKVEGDIWALQKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 532
IRKVEGDIWALQKDVEDFLS LLGKTPVTQ+NEVTGTLRVKGYFDQQLKAWLLEKGF
Sbjct: 142 IRKVEGDIWALQKDVEDFLSLLLGKTPVTQINEVTGTLRVKGYFDQQLKAWLLEKGF 198
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: 43,382,979
Number of extensions: 1436778
Number of successful extensions: 8595
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 8449
Number of HSP's successfully gapped: 1
Length of query: 302
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 200
Effective length of database: 15,474,232
Effective search space: 3094846400
Effective search space used: 3094846400
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-013814
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-013814
(908 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_001014871.1| 39S ribosomal protein L49, mitochondrial [Bo... 320 1e-87
>ref|NP_001014871.1| 39S ribosomal protein L49, mitochondrial [Bos taurus].
Length = 166
Score = 320 bits (820), Expect = 1e-87
Identities = 149/166 (89%), Positives = 154/166 (92%)
Frame = +2
Query: 35 MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP 214
MAA VLR WRTGVP GCGLRRLSQTQGTP+YP F+ESVDEY FVERLLPP SIPKP
Sbjct: 1 MAAATFWFVLRGWRTGVPPGCGLRRLSQTQGTPDYPRFLESVDEYRFVERLLPPTSIPKP 60
Query: 215 PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 394
PKHEHYPTP GWQPPRDP P+LPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL
Sbjct: 61 PKHEHYPTPCGWQPPRDPPPNLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 120
Query: 395 QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 532
QKDVEDFLSPLLGKTP+TQVNEVTGTLR+KGYFDQQLKAWLLEKGF
Sbjct: 121 QKDVEDFLSPLLGKTPITQVNEVTGTLRIKGYFDQQLKAWLLEKGF 166
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: 41,718,278
Number of extensions: 1423557
Number of successful extensions: 8587
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 8431
Number of HSP's successfully gapped: 1
Length of query: 302
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 200
Effective length of database: 14,306,398
Effective search space: 2861279600
Effective search space used: 2861279600
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-013814
(908 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_003122592.1| PREDICTED: 39S ribosomal protein L49, mitoch... 352 2e-97
>ref|XP_003122592.1| PREDICTED: 39S ribosomal protein L49, mitochondrial-like [Sus
scrofa].
Length = 166
Score = 352 bits (902), Expect = 2e-97
Identities = 166/166 (100%), Positives = 166/166 (100%)
Frame = +2
Query: 35 MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP 214
MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP
Sbjct: 1 MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP 60
Query: 215 PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 394
PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL
Sbjct: 61 PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 120
Query: 395 QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 532
QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF
Sbjct: 121 QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 166
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: 27,206,105
Number of extensions: 953465
Number of successful extensions: 5729
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5600
Number of HSP's successfully gapped: 1
Length of query: 302
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 204
Effective length of database: 8,904,026
Effective search space: 1816421304
Effective search space used: 1816421304
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-013814
(908 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_080522.1| 39S ribosomal protein L49, mitochondrial [Mus m... 288 3e-78
>ref|NP_080522.1| 39S ribosomal protein L49, mitochondrial [Mus musculus].
Length = 166
Score = 288 bits (738), Expect = 3e-78
Identities = 134/166 (80%), Positives = 148/166 (89%)
Frame = +2
Query: 35 MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP 214
MAA VL L+ WR+ + G R+LSQTQG P+ P FVESVDEY FVERLLPP IP+P
Sbjct: 1 MAAAVLRAALQDWRSCLGRSYGRRKLSQTQGPPDNPGFVESVDEYQFVERLLPPTKIPEP 60
Query: 215 PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 394
PKH+HYPTPSGWQPPRDP PSLPYFVRRSRMHNIPVY++ITHGNRQMT+IRKVEGDIWAL
Sbjct: 61 PKHKHYPTPSGWQPPRDPLPSLPYFVRRSRMHNIPVYKEITHGNRQMTLIRKVEGDIWAL 120
Query: 395 QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 532
QKDVE+FLSPLLGKTP+TQVNEVTGTLR+KGYFD+QLKAWLLEKGF
Sbjct: 121 QKDVEEFLSPLLGKTPITQVNEVTGTLRIKGYFDEQLKAWLLEKGF 166
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: 35,661,904
Number of extensions: 1154204
Number of successful extensions: 6910
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6753
Number of HSP's successfully gapped: 1
Length of query: 302
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 201
Effective length of database: 12,583,923
Effective search space: 2529368523
Effective search space used: 2529368523
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-013814
(908 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_004918.1| 39S ribosomal protein L49, mitochondrial [Homo ... 308 6e-84
>ref|NP_004918.1| 39S ribosomal protein L49, mitochondrial [Homo sapiens].
Length = 166
Score = 308 bits (788), Expect = 6e-84
Identities = 144/166 (86%), Positives = 150/166 (90%)
Frame = +2
Query: 35 MAATVLCGVLRAWRTGVPLGCGLRRLSQTQGTPEYPSFVESVDEYHFVERLLPPASIPKP 214
MAAT+ LR WRTGV GCGLR LSQTQG P+YP FVESVDEY FVERLLP IP P
Sbjct: 1 MAATMFRATLRGWRTGVQRGCGLRLLSQTQGPPDYPRFVESVDEYQFVERLLPATRIPDP 60
Query: 215 PKHEHYPTPSGWQPPRDPAPSLPYFVRRSRMHNIPVYRDITHGNRQMTVIRKVEGDIWAL 394
PKHEHYPTPSGWQPPRDP P+LPYFVRRSRMHNIPVY+DITHGNRQMTVIRKVEGDIWAL
Sbjct: 61 PKHEHYPTPSGWQPPRDPPPNLPYFVRRSRMHNIPVYKDITHGNRQMTVIRKVEGDIWAL 120
Query: 395 QKDVEDFLSPLLGKTPVTQVNEVTGTLRVKGYFDQQLKAWLLEKGF 532
QKDVEDFLSPLLGKTPVTQVNEVTGTLR+KGYFDQ+LKAWLLEKGF
Sbjct: 121 QKDVEDFLSPLLGKTPVTQVNEVTGTLRIKGYFDQELKAWLLEKGF 166
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: 42,426,179
Number of extensions: 1404322
Number of successful extensions: 8573
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 8412
Number of HSP's successfully gapped: 1
Length of query: 302
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 200
Effective length of database: 14,934,836
Effective search space: 2986967200
Effective search space used: 2986967200
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-013814
(908 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 755 0.0
>Sscrofa_Chr02
|| Length = 162569375
Score = 755 bits (381), Expect = 0.0
Identities = 381/381 (100%)
Strand = Plus / Minus
Query: 388 ggccctgcagaaggatgtggaagattttctgagcccgctgctggggaagacacctgtcac 447
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199908 ggccctgcagaaggatgtggaagattttctgagcccgctgctggggaagacacctgtcac 6199849
Query: 448 ccaggtcaatgaggtgacaggtacccttcgggtcaagggctactttgaccagcagctcaa 507
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199848 ccaggtcaatgaggtgacaggtacccttcgggtcaagggctactttgaccagcagctcaa 6199789
Query: 508 agcctggcttctggagaagggcttctgaagcccggctgagcagcgtgcatcacagtgtcc 567
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199788 agcctggcttctggagaagggcttctgaagcccggctgagcagcgtgcatcacagtgtcc 6199729
Query: 568 ccctcagactggagtcttggggtctcaggaggagggaggtgaccatgggagcaactggga 627
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199728 ccctcagactggagtcttggggtctcaggaggagggaggtgaccatgggagcaactggga 6199669
Query: 628 cagcaggtagagaccagggtggagggctttcgagtgggacttgcttgtatgaaggaagaa 687
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199668 cagcaggtagagaccagggtggagggctttcgagtgggacttgcttgtatgaaggaagaa 6199609
Query: 688 atgggaccgtgtgctggggagggcctctagagacccaccagcaatagtcaagctggcggg 747
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199608 atgggaccgtgtgctggggagggcctctagagacccaccagcaatagtcaagctggcggg 6199549
Query: 748 ggtgttaattgctccccccgc 768
|||||||||||||||||||||
Sbjct: 6199548 ggtgttaattgctccccccgc 6199528
Score = 301 bits (152), Expect = 3e-79
Identities = 152/152 (100%)
Strand = Plus / Minus
Query: 112 gagccagacccaggggacccctgaataccccagcttcgtggagtctgtggatgaatacca 171
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6201809 gagccagacccaggggacccctgaataccccagcttcgtggagtctgtggatgaatacca 6201750
Query: 172 tttcgtggagcgcctcttaccccctgccagcatcccaaagcccccaaagcacgaacatta 231
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6201749 tttcgtggagcgcctcttaccccctgccagcatcccaaagcccccaaagcacgaacatta 6201690
Query: 232 tcccactcctagtggctggcagccccccagag 263
||||||||||||||||||||||||||||||||
Sbjct: 6201689 tcccactcctagtggctggcagccccccagag 6201658
Score = 254 bits (128), Expect = 7e-65
Identities = 128/128 (100%)
Strand = Plus / Minus
Query: 262 agaccctgcgcccagcctgccctacttcgtgcggcgctcgaggatgcacaacatccccgt 321
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6200148 agaccctgcgcccagcctgccctacttcgtgcggcgctcgaggatgcacaacatccccgt 6200089
Query: 322 ctacagggacatcacacacggcaaccgtcagatgactgtgatccgcaaggtggagggaga 381
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6200088 ctacagggacatcacacacggcaaccgtcagatgactgtgatccgcaaggtggagggaga 6200029
Query: 382 catttggg 389
||||||||
Sbjct: 6200028 catttggg 6200021
Score = 220 bits (111), Expect = 1e-54
Identities = 111/111 (100%)
Strand = Plus / Minus
Query: 2 gcgcagaaagctagtgtacctgggctgttcgagatggcggcgactgtgctctgcggtgta 61
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6203049 gcgcagaaagctagtgtacctgggctgttcgagatggcggcgactgtgctctgcggtgta 6202990
Query: 62 cttcgtgcctggagaactggcgtcccgctgggctgcgggctacggcggctg 112
|||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6202989 cttcgtgcctggagaactggcgtcccgctgggctgcgggctacggcggctg 6202939
Score = 194 bits (98), Expect = 6e-47
Identities = 105/106 (99%), Gaps = 1/106 (0%)
Strand = Plus / Minus
Query: 804 ggcctgttcctgctctcccttcatgggagctccttggactcagccattcaactttcagag 863
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6199493 ggcctgttcctgctctcccttcatgggagctccttggactcagccattcaactttcagag 6199434
Query: 864 gtaactggctacccctctggtggaagc-acagcccaacccagtttg 908
||||||||||||||||||||||||||| ||||||||||||||||||
Sbjct: 6199433 gtaactggctacccctctggtggaagcaacagcccaacccagtttg 6199388
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: 22,027,733
Number of extensions: 126
Number of successful extensions: 126
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 125
Number of HSP's successfully gapped: 5
Length of query: 908
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 887
Effective length of database: 2,808,413,156
Effective search space: 2491062469372
Effective search space used: 2491062469372
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)