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-014455
(741 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_001003902.1| 28S ribosomal protein S14, mitochondrial [Bo... 241 5e-64
>ref|NP_001003902.1| 28S ribosomal protein S14, mitochondrial [Bos taurus].
Length = 128
Score = 241 bits (615), Expect = 5e-64
Identities = 118/128 (92%), Positives = 123/128 (96%)
Frame = +2
Query: 83 MAASMLGFLLRTVRQMVPSSASGQVRSYYVDWKMLRDVKRRKMAYEYADERLRINSLRKN 262
MA SMLG LLR VRQ+VPSSASGQ RSYYVDW+MLRDVKRRKMAYEYADERLRINSLRKN
Sbjct: 1 MATSMLGSLLRIVRQVVPSSASGQARSYYVDWRMLRDVKRRKMAYEYADERLRINSLRKN 60
Query: 263 TILPKDLQEVADEEIASLPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 442
TILPK LQEVADEEIA+LPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL
Sbjct: 61 TILPKHLQEVADEEIAALPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 120
Query: 443 SGVQRAMW 466
SG+QRA+W
Sbjct: 121 SGIQRAIW 128
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: 26,228,646
Number of extensions: 658206
Number of successful extensions: 1732
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1731
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 17,681,374
Length adjustment: 100
Effective length of query: 147
Effective length of database: 14,372,574
Effective search space: 2112768378
Effective search space used: 2112768378
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-014455
(741 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_537182.1| PREDICTED: similar to mitochondrial ribosomal p... 246 1e-65
Alignment gi|XP_540162.2| PREDICTED: similar to mitochondrial ribosomal p... 226 1e-59
>ref|XP_537182.1| PREDICTED: similar to mitochondrial ribosomal protein S14 [Canis
familiaris].
Length = 128
Score = 246 bits (629), Expect = 1e-65
Identities = 122/128 (95%), Positives = 125/128 (97%)
Frame = +2
Query: 83 MAASMLGFLLRTVRQMVPSSASGQVRSYYVDWKMLRDVKRRKMAYEYADERLRINSLRKN 262
MAAS+LG LLRTVRQMVPSSASGQVR YYVDWKMLRDVKRRKMAYEYADERLRINSLRKN
Sbjct: 1 MAASVLGSLLRTVRQMVPSSASGQVRGYYVDWKMLRDVKRRKMAYEYADERLRINSLRKN 60
Query: 263 TILPKDLQEVADEEIASLPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 442
TILPKDLQEVAD EIA+LPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL
Sbjct: 61 TILPKDLQEVADGEIAALPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 120
Query: 443 SGVQRAMW 466
SGVQRA+W
Sbjct: 121 SGVQRAVW 128
>ref|XP_540162.2| PREDICTED: similar to mitochondrial ribosomal protein S14 [Canis
familiaris].
Length = 124
Score = 226 bits (577), Expect = 1e-59
Identities = 112/124 (90%), Positives = 115/124 (92%)
Frame = +2
Query: 95 MLGFLLRTVRQMVPSSASGQVRSYYVDWKMLRDVKRRKMAYEYADERLRINSLRKNTILP 274
MLG LLRTV QMVPSSASGQVR YYVDWK LRDVKRRKMAYEYADERLRIN+LRKNTILP
Sbjct: 1 MLGSLLRTVGQMVPSSASGQVRGYYVDWKTLRDVKRRKMAYEYADERLRINALRKNTILP 60
Query: 275 KDLQEVADEEIASLPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQLSGVQ 454
KDLQEVAD E A+LPRDSCPVRIRNRCVMTSRPRG KRRWRLS IVFRHLADHGQLSGVQ
Sbjct: 61 KDLQEVADGETAALPRDSCPVRIRNRCVMTSRPRGAKRRWRLSPIVFRHLADHGQLSGVQ 120
Query: 455 RAMW 466
A+W
Sbjct: 121 PAVW 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: 27,326,118
Number of extensions: 674097
Number of successful extensions: 1787
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1787
Number of HSP's successfully gapped: 2
Length of query: 247
Length of database: 18,874,504
Length adjustment: 100
Effective length of query: 147
Effective length of database: 15,540,904
Effective search space: 2284512888
Effective search space used: 2284512888
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-014455
(741 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
***** No hits found ******
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: 16,870,941
Number of extensions: 422040
Number of successful extensions: 1069
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1069
Number of HSP's successfully gapped: 0
Length of query: 247
Length of database: 11,343,932
Length adjustment: 96
Effective length of query: 151
Effective length of database: 8,953,820
Effective search space: 1352026820
Effective search space used: 1352026820
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: 32 (16.9 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-014455
(741 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_079750.1| 28S ribosomal protein S14, mitochondrial [Mus m... 233 1e-61
>ref|NP_079750.1| 28S ribosomal protein S14, mitochondrial [Mus musculus].
Length = 128
Score = 233 bits (594), Expect = 1e-61
Identities = 114/128 (89%), Positives = 121/128 (94%)
Frame = +2
Query: 83 MAASMLGFLLRTVRQMVPSSASGQVRSYYVDWKMLRDVKRRKMAYEYADERLRINSLRKN 262
MAAS+LG LLRT RQ VP SASGQVR YYVDW+MLRD+KRRKMAYEYADERLRINSLRKN
Sbjct: 1 MAASVLGSLLRTFRQAVPPSASGQVRGYYVDWRMLRDLKRRKMAYEYADERLRINSLRKN 60
Query: 263 TILPKDLQEVADEEIASLPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 442
TILPKDLQE+A +EIA+LPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHG L
Sbjct: 61 TILPKDLQEMAGDEIAALPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGLL 120
Query: 443 SGVQRAMW 466
SGVQRA+W
Sbjct: 121 SGVQRAIW 128
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: 22,896,045
Number of extensions: 566745
Number of successful extensions: 1478
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1474
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 148
Effective length of database: 12,643,995
Effective search space: 1871311260
Effective search space used: 1871311260
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-014455
(741 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_071383.1| 28S ribosomal protein S14, mitochondrial [Homo ... 236 2e-62
>ref|NP_071383.1| 28S ribosomal protein S14, mitochondrial [Homo sapiens].
Length = 128
Score = 236 bits (601), Expect = 2e-62
Identities = 116/128 (90%), Positives = 122/128 (95%)
Frame = +2
Query: 83 MAASMLGFLLRTVRQMVPSSASGQVRSYYVDWKMLRDVKRRKMAYEYADERLRINSLRKN 262
MAA MLG LLRT +QMVPSSASGQVRS+YVDW+M RDVKRRKMAYEYADERLRINSLRKN
Sbjct: 1 MAAFMLGSLLRTFKQMVPSSASGQVRSHYVDWRMWRDVKRRKMAYEYADERLRINSLRKN 60
Query: 263 TILPKDLQEVADEEIASLPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 442
TILPK LQ+VADEEIA+LPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL
Sbjct: 61 TILPKILQDVADEEIAALPRDSCPVRIRNRCVMTSRPRGVKRRWRLSRIVFRHLADHGQL 120
Query: 443 SGVQRAMW 466
SG+QRA W
Sbjct: 121 SGIQRATW 128
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: 26,830,451
Number of extensions: 664758
Number of successful extensions: 1735
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1735
Number of HSP's successfully gapped: 1
Length of query: 247
Length of database: 18,297,164
Length adjustment: 100
Effective length of query: 147
Effective length of database: 15,000,764
Effective search space: 2205112308
Effective search space used: 2205112308
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-014455
(741 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_Chr09 864 0.0
Sscrofa_Chr08 523 e-146
Sscrofa_Chr05 88 8e-15
>Sscrofa_Chr09
|| Length = 153670197
Score = 864 bits (436), Expect = 0.0
Identities = 439/440 (99%)
Strand = Plus / Plus
Query: 285 aggaagtagctgatgaagaaatcgcttcccttccccgggatagctgtcctgttagaatca 344
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715032 aggaagtagctgatgaagaaatcgcttcccttccccgggatagctgtcctgttagaatca 128715091
Query: 345 gaaatcgatgtgttatgacgtcccgtccacgaggtgtaaagcggcgctggaggcttagtc 404
||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715092 gaaatcggtgtgttatgacgtcccgtccacgaggtgtaaagcggcgctggaggcttagtc 128715151
Query: 405 gtatcgtcttccgtcacttagccgaccacgggcagctgtctggggtccagcgagcaatgt 464
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715152 gtatcgtcttccgtcacttagccgaccacgggcagctgtctggggtccagcgagcaatgt 128715211
Query: 465 ggtaatcagctccagaacctattgaacttgcaaggaaaccagttctggcaagagactttt 524
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715212 ggtaatcagctccagaacctattgaacttgcaaggaaaccagttctggcaagagactttt 128715271
Query: 525 ctaatagacaaaaagcttttatgagggtgcagaataggagtctaatctaccaaatgctgt 584
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715272 ctaatagacaaaaagcttttatgagggtgcagaataggagtctaatctaccaaatgctgt 128715331
Query: 585 ctgtagttaaattacttttacattttaaatgaagaaatttgaatgtttccttctgtcagt 644
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715332 ctgtagttaaattacttttacattttaaatgaagaaatttgaatgtttccttctgtcagt 128715391
Query: 645 gaattctggctgtgaattatcttttctcttggacttaataaacatcctgttaccaggcat 704
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128715392 gaattctggctgtgaattatcttttctcttggacttaataaacatcctgttaccaggcat 128715451
Query: 705 agggcaagggatagagtaat 724
||||||||||||||||||||
Sbjct: 128715452 agggcaagggatagagtaat 128715471
Score = 321 bits (162), Expect = 3e-85
Identities = 162/162 (100%)
Strand = Plus / Plus
Query: 126 agatggttccttcatcagcttcaggccaagttcgaagttactacgtagactggaaaatgt 185
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128704596 agatggttccttcatcagcttcaggccaagttcgaagttactacgtagactggaaaatgt 128704655
Query: 186 tgcgtgatgtgaagagaagaaaaatggcttatgagtatgcagatgagaggctacggatca 245
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128704656 tgcgtgatgtgaagagaagaaaaatggcttatgagtatgcagatgagaggctacggatca 128704715
Query: 246 attctctcaggaaaaataccattttgcctaaagaccttcagg 287
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128704716 attctctcaggaaaaataccattttgcctaaagaccttcagg 128704757
Score = 216 bits (109), Expect = 1e-53
Identities = 118/121 (97%)
Strand = Plus / Minus
Query: 7 agaccccgcccctcgtgtccgctgtttccggctgtgttcattaagttgcagcggtttgcc 66
|||||||||||||||||||||||||||||||||||||| || ||||||||||||||||||
Sbjct: 128764636 agaccccgcccctcgtgtccgctgtttccggctgtgttaataaagttgcagcggtttgcc 128764577
Query: 67 gcttgcggcggacaacatggcggcttccatgctgggttttctgctgcggaccgtccggca 126
||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 128764576 gcttgcggcggacaatatggcggcttccatgctgggttttctgctgcggaccgtccggca 128764517
Query: 127 g 127
|
Sbjct: 128764516 g 128764516
>Sscrofa_Chr08
|| Length = 148491826
Score = 523 bits (264), Expect = e-146
Identities = 294/304 (96%)
Strand = Plus / Plus
Query: 421 cttagccgaccacgggcagctgtctggggtccagcgagcaatgtggtaatcagctccaga 480
||||||| |||| |||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 38453830 cttagccaaccatgggcagttgtctggggtccagcgagcaatgtggtaatcagctccaga 38453889
Query: 481 acctattgaacttgcaaggaaaccagttctggcaagagacttttctaatagacaaaaagc 540
||||| |||||||||| |||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 38453890 acctactgaacttgcagggaaaccagttctggcaaaagacttttctaatagacaaaaagc 38453949
Query: 541 ttttatgagggtgcagaataggagtctaatctaccaaatgctgtctgtagttaaattact 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 38453950 ttttatgagggtgcagaataggagtctaatctaccaaatgctgtctgtagttaaattact 38454009
Query: 601 tttacattttaaatgaagaaatttgaatgtttccttctgtcagtgaattctggctgtgaa 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 38454010 tttacattttaaatgaagaaatttgaatgtttccttctgtcagtgaattctggctgtgaa 38454069
Query: 661 ttatcttttctcttggacttaataaacatcctgttaccaggcatagggcaagggatagag 720
||||||||||| ||||||||||||||||| |||||||||||||||||||| ||||||||
Sbjct: 38454070 ttatcttttctgttggacttaataaacatattgttaccaggcatagggcaaaggatagag 38454129
Query: 721 taat 724
||||
Sbjct: 38454130 taat 38454133
>Sscrofa_Chr05
|| Length = 111506441
Score = 87.7 bits (44), Expect = 8e-15
Identities = 65/72 (90%)
Strand = Plus / Plus
Query: 579 tgctgtctgtagttaaattacttttacattttaaatgaagaaatttgaatgtttccttct 638
||||||| |||||||||||||||| |||||||||||||||||||| ||||||| ||||
Sbjct: 92783120 tgctgtccgtagttaaattactttgcaattttaaatgaagaaatttggatgtttcgttct 92783179
Query: 639 gtcagtgaattc 650
||| ||||||||
Sbjct: 92783180 gtccgtgaattc 92783191
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: 21,900,909
Number of extensions: 650
Number of successful extensions: 650
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 650
Number of HSP's successfully gapped: 5
Length of query: 741
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 720
Effective length of database: 2,808,413,156
Effective search space: 2022057472320
Effective search space used: 2022057472320
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)