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-004676
(780 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: 31,734,127
Number of extensions: 963557
Number of successful extensions: 3596
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3586
Number of HSP's successfully gapped: 0
Length of query: 260
Length of database: 17,681,374
Length adjustment: 100
Effective length of query: 160
Effective length of database: 14,372,574
Effective search space: 2299611840
Effective search space used: 2299611840
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-004676
(780 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: 33,216,434
Number of extensions: 993801
Number of successful extensions: 3711
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3702
Number of HSP's successfully gapped: 0
Length of query: 260
Length of database: 18,874,504
Length adjustment: 101
Effective length of query: 159
Effective length of database: 15,507,568
Effective search space: 2465703312
Effective search space used: 2465703312
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-004676
(780 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
***** No hits found ******
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: 32,442,554
Number of extensions: 965502
Number of successful extensions: 3508
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3497
Number of HSP's successfully gapped: 0
Length of query: 260
Length of database: 18,297,164
Length adjustment: 100
Effective length of query: 160
Effective length of database: 15,000,764
Effective search space: 2400122240
Effective search space used: 2400122240
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-004676
(780 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
***** No hits found ******
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: 27,326,480
Number of extensions: 798577
Number of successful extensions: 2706
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2695
Number of HSP's successfully gapped: 0
Length of query: 260
Length of database: 15,617,559
Length adjustment: 99
Effective length of query: 161
Effective length of database: 12,643,995
Effective search space: 2035683195
Effective search space used: 2035683195
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-004676
(780 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_003127891.1| PREDICTED: hypothetical protein LOC100522081... 301 2e-82
>ref|XP_003127891.1| PREDICTED: hypothetical protein LOC100522081 [Sus scrofa].
Length = 141
Score = 301 bits (772), Expect = 2e-82
Identities = 140/141 (99%), Positives = 140/141 (99%)
Frame = +3
Query: 165 MSSGASVVPGAHLGRCTSRFVGFEPKGQLQYQKPGAGNGPDANFARLGGQEMWLSLLAPR 344
MSSGASVVPGAHLGRCTSRFVGFEPKGQLQYQKPGAGNGPDANFARLGGQEMWLSLLAPR
Sbjct: 1 MSSGASVVPGAHLGRCTSRFVGFEPKGQLQYQKPGAGNGPDANFARLGGQEMWLSLLAPR 60
Query: 345 AWATAGLGNPSPADLTLGLSLVSNVNLPDSRVCAKTVAHCLPPHHSGAPPRCSCCCSCVA 524
AWATAGLGNPSPADLTLGLSLVSNVNLPDSRVCAKTVAHCLP HHSGAPPRCSCCCSCVA
Sbjct: 61 AWATAGLGNPSPADLTLGLSLVSNVNLPDSRVCAKTVAHCLPHHHSGAPPRCSCCCSCVA 120
Query: 525 TFSWNNHLKLASSSAQCPFCN 587
TFSWNNHLKLASSSAQCPFCN
Sbjct: 121 TFSWNNHLKLASSSAQCPFCN 141
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: 20,515,313
Number of extensions: 625159
Number of successful extensions: 2367
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2359
Number of HSP's successfully gapped: 1
Length of query: 260
Length of database: 11,343,932
Length adjustment: 97
Effective length of query: 163
Effective length of database: 8,928,923
Effective search space: 1455414449
Effective search space used: 1455414449
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-004676
(780 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 1499 0.0
>Sscrofa_Chr06
|| Length = 157765593
Score = 1499 bits (756), Expect = 0.0
Identities = 772/780 (98%)
Strand = Plus / Minus
Query: 1 ggcggaggccggaagtgttggattgtagcggctctggtattggaagcgagttagtagcgg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451572 ggcggaggccggaagtgttggattgtagcggctctggtattggaagcgagttagtagcgg 96451513
Query: 61 cagccgaggcagcgagggggtacccgaagcaatcggattcttgcggctgagcagggtgag 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451512 cagccgaggcagcgagggggtacccgaagcaatcggattcttgcggctgagcagggtgag 96451453
Query: 121 tggtgcttggggctcattctggccgcatacccgtggggcggctgatgagcagcggtgctt 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451452 tggtgcttggggctcattctggccgcatacccgtggggcggctgatgagcagcggtgctt 96451393
Query: 181 ccgtggtaccgggagcgcacctgggcagatgtaccagccgcttcgtgggtttcgagccca 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451392 ccgtggtaccgggagcgcacctgggcagatgtaccagccgcttcgtgggtttcgagccca 96451333
Query: 241 agggccagctccagtatcaaaagccgggggccggaaacggcccagatgccaattttgcca 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451332 agggccagctccagtatcaaaagccgggggccggaaacggcccagatgccaattttgcca 96451273
Query: 301 gacttggaggtcaggaaatgtggcttagcctgctggcgccgcgagcttgggcgacagccg 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451272 gacttggaggtcaggaaatgtggcttagcctgctggcgccgcgagcttgggcgacagccg 96451213
Query: 361 gcctgggaaacccgagccccgcggatctgactctgggactaagtttagtttctaacgtaa 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451212 gcctgggaaacccgagccccgcggatctgactctgggactaagtttagtttctaacgtaa 96451153
Query: 421 acttgccggattcaagagtttgcgcaaaaactgtagcccattgcctnnnnnnnnaccact 480
|||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 96451152 acttgccggattcaagagtttgcgcaaaaactgtagcccattgcctcccccaccaccact 96451093
Query: 481 ccggcgcacctccccgctgcagctgttgttgcagctgtgtggctacgtttagttggaata 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451092 ccggcgcacctccccgctgcagctgttgttgcagctgtgtggctacgtttagttggaata 96451033
Query: 541 accacctcaaattagcatcttcctcagctcagtgtccattctgtaattagaactttgttt 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96451032 accacctcaaattagcatcttcctcagctcagtgtccattctgtaattagaactttgttt 96450973
Query: 601 taagtgatatttgggcaaagggaggtttggtgtttaatttgcggcttcagaaaaattcca 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96450972 taagtgatatttgggcaaagggaggtttggtgtttaatttgcggcttcagaaaaattcca 96450913
Query: 661 taatacaccaccacattccttttgggtggagacttggggttatatcagtttcccaaagtg 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96450912 taatacaccaccacattccttttgggtggagacttggggttatatcagtttcccaaagtg 96450853
Query: 721 tttctttttatagtagttgaattggtttatcaaagagtatgtcagttctttacagaactt 780
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96450852 tttctttttatagtagttgaattggtttatcaaagagtatgtcagttctttacagaactt 96450793
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: 21,122,099
Number of extensions: 385
Number of successful extensions: 385
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 385
Number of HSP's successfully gapped: 2
Length of query: 780
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 759
Effective length of database: 2,808,413,156
Effective search space: 2131585585404
Effective search space used: 2131585585404
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)