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= 20110601S-084560
(365 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
***** No hits found ******
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: 11,435,973
Number of extensions: 295228
Number of successful extensions: 1778
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1752
Number of HSP's successfully gapped: 0
Length of query: 121
Length of database: 17,681,374
Length adjustment: 89
Effective length of query: 32
Effective length of database: 14,736,542
Effective search space: 471569344
Effective search space used: 471569344
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: 30 (16.2 bits)
Animal-Genome cDNA 20110601S-084560
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= 20110601S-084560
(365 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
***** No hits found ******
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: 11,973,542
Number of extensions: 305868
Number of successful extensions: 2005
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1954
Number of HSP's successfully gapped: 0
Length of query: 121
Length of database: 18,874,504
Length adjustment: 89
Effective length of query: 32
Effective length of database: 15,907,600
Effective search space: 509043200
Effective search space used: 509043200
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: 31 (16.5 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= 20110601S-084560
(365 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_003281.1| tropomyosin alpha-4 chain isoform 2 [Homo sapie... 57 4e-09
>ref|NP_003281.1| tropomyosin alpha-4 chain isoform 2 [Homo sapiens].
Length = 248
Score = 57.0 bits (136), Expect = 4e-09
Identities = 34/62 (54%), Positives = 37/62 (59%)
Frame = +2
Query: 125 MAGLNSLEAVRRKIXXXXXXXXXXXXXXHGLQWELDGDRERWEKAEGDVPTFIGCILLVV 304
MAGLNSLEAV+RKI GLQ ELDG+RER EKAEGDV I LV
Sbjct: 1 MAGLNSLEAVKRKIQALQQQADEAEDRAQGLQRELDGERERREKAEGDVAALNRRIQLVE 60
Query: 305 ED 310
E+
Sbjct: 61 EE 62
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: 11,640,640
Number of extensions: 292733
Number of successful extensions: 1808
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1781
Number of HSP's successfully gapped: 1
Length of query: 121
Length of database: 18,297,164
Length adjustment: 89
Effective length of query: 32
Effective length of database: 15,363,368
Effective search space: 491627776
Effective search space used: 491627776
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: 31 (16.5 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= 20110601S-084560
(365 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_001001491.1| tropomyosin alpha-4 chain [Mus musculus]. 54 2e-08
>ref|NP_001001491.1| tropomyosin alpha-4 chain [Mus musculus].
Length = 248
Score = 54.3 bits (129), Expect = 2e-08
Identities = 32/62 (51%), Positives = 36/62 (58%)
Frame = +2
Query: 125 MAGLNSLEAVRRKIXXXXXXXXXXXXXXHGLQWELDGDRERWEKAEGDVPTFIGCILLVV 304
MAGLNSLEAV+RKI GLQ ELDG+RER EKAEGD I L+
Sbjct: 1 MAGLNSLEAVKRKIQALQQQADDAEDRAQGLQRELDGERERREKAEGDAAALNRRIQLLE 60
Query: 305 ED 310
E+
Sbjct: 61 EE 62
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: 9,750,811
Number of extensions: 240651
Number of successful extensions: 1412
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1377
Number of HSP's successfully gapped: 1
Length of query: 121
Length of database: 15,617,559
Length adjustment: 88
Effective length of query: 33
Effective length of database: 12,974,391
Effective search space: 428154903
Effective search space used: 428154903
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: 30 (16.2 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= 20110601S-084560
(365 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_999500.1| tropomyosin alpha-4 chain [Sus scrofa]. 57 2e-09
>ref|NP_999500.1| tropomyosin alpha-4 chain [Sus scrofa].
Length = 248
Score = 57.0 bits (136), Expect = 2e-09
Identities = 34/62 (54%), Positives = 37/62 (59%)
Frame = +2
Query: 125 MAGLNSLEAVRRKIXXXXXXXXXXXXXXHGLQWELDGDRERWEKAEGDVPTFIGCILLVV 304
MAGLNSLEAV+RKI GLQ ELDG+RER EKAEGDV I LV
Sbjct: 1 MAGLNSLEAVKRKIQALQQQADEAEDRAQGLQRELDGERERREKAEGDVAALNRRIQLVE 60
Query: 305 ED 310
E+
Sbjct: 61 EE 62
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: 7,408,775
Number of extensions: 192604
Number of successful extensions: 1228
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1205
Number of HSP's successfully gapped: 1
Length of query: 121
Length of database: 11,343,932
Length adjustment: 86
Effective length of query: 35
Effective length of database: 9,202,790
Effective search space: 322097650
Effective search space used: 322097650
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: 30 (16.2 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= 20110601S-084560
(365 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 216 6e-54
>Sscrofa_Chr02
|| Length = 162569375
Score = 216 bits (109), Expect = 6e-54
Identities = 127/133 (95%)
Strand = Plus / Plus
Query: 125 atggctggcctcaactccctggaggcggtgagacgcaagatccaggccctgcagcagcag 184
||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 61156657 atggctggcctcaactccctggaggcggtgaaacgcaagatccaggccctgcagcagcag 61156716
Query: 185 gcggacgaggcagaggatctcgcgcacggcctgcagtgggagctggacggcgatcgcgag 244
||||||||||||||||||| |||||| ||||||||| |||||||||||||||| ||||||
Sbjct: 61156717 gcggacgaggcagaggatcgcgcgcagggcctgcagcgggagctggacggcgagcgcgag 61156776
Query: 245 cggtgggagaaag 257
||| |||||||||
Sbjct: 61156777 cggcgggagaaag 61156789
Score = 141 bits (71), Expect = 3e-31
Identities = 71/71 (100%)
Strand = Plus / Plus
Query: 1 ggggcggccccccggcgtaggcaaaggctcgggggccggggcgcggctgctgcagctctt 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61156533 ggggcggccccccggcgtaggcaaaggctcgggggccggggcgcggctgctgcagctctt 61156592
Query: 61 gcaagagcaga 71
|||||||||||
Sbjct: 61156593 gcaagagcaga 61156603
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: 6,657,404
Number of extensions: 128
Number of successful extensions: 128
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 128
Number of HSP's successfully gapped: 2
Length of query: 365
Length of database: 2,808,509,378
Length adjustment: 20
Effective length of query: 345
Effective length of database: 2,808,417,738
Effective search space: 968904119610
Effective search space used: 968904119610
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)