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-008896
(991 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: 31,889,778
Number of extensions: 783494
Number of successful extensions: 3018
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3012
Number of HSP's successfully gapped: 0
Length of query: 330
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 227
Effective length of database: 14,273,310
Effective search space: 3240041370
Effective search space used: 3240041370
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 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-008896
(991 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: 33,339,886
Number of extensions: 811859
Number of successful extensions: 3326
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3300
Number of HSP's successfully gapped: 0
Length of query: 330
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 227
Effective length of database: 15,440,896
Effective search space: 3505083392
Effective search space used: 3505083392
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-008896
(991 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_003129938.2| PREDICTED: LOW QUALITY PROTEIN: interleukin-... 51 9e-07
>ref|XP_003129938.2| PREDICTED: LOW QUALITY PROTEIN: interleukin-10 receptor subunit
alpha [Sus scrofa].
Length = 563
Score = 51.2 bits (121), Expect = 9e-07
Identities = 23/25 (92%), Positives = 24/25 (96%)
Frame = +3
Query: 90 MLPLLVVPLAMFLCLLLGSCAHGKD 164
MLPLLVVPLAMFLCLLLGSCAHG +
Sbjct: 1 MLPLLVVPLAMFLCLLLGSCAHGTE 25
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: 20,597,891
Number of extensions: 506732
Number of successful extensions: 2158
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2145
Number of HSP's successfully gapped: 1
Length of query: 330
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 231
Effective length of database: 8,879,129
Effective search space: 2051078799
Effective search space used: 2051078799
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-008896
(991 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: 27,554,934
Number of extensions: 658190
Number of successful extensions: 2771
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2761
Number of HSP's successfully gapped: 0
Length of query: 330
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 228
Effective length of database: 12,553,887
Effective search space: 2862286236
Effective search space used: 2862286236
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-008896
(991 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: 32,583,828
Number of extensions: 791275
Number of successful extensions: 3343
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3326
Number of HSP's successfully gapped: 0
Length of query: 330
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 227
Effective length of database: 14,901,872
Effective search space: 3382724944
Effective search space used: 3382724944
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-008896
(991 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 839 0.0
gb|GL895030.2| Sus scrofa unplaced genomic scaffold ChrUScaf2914 147 1e-32
>Sscrofa_Chr09
|| Length = 153670197
Score = 839 bits (423), Expect = 0.0
Identities = 423/423 (100%)
Strand = Plus / Plus
Query: 4 agtctcagctcagcagagcagcggcaggaggcgcgcatcccggctccggcttctgctccc 63
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50364904 agtctcagctcagcagagcagcggcaggaggcgcgcatcccggctccggcttctgctccc 50364963
Query: 64 gctccggaggatgaggcgctctcaggatgctgccgctcctggtagtgccgctggcgatgt 123
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50364964 gctccggaggatgaggcgctctcaggatgctgccgctcctggtagtgccgctggcgatgt 50365023
Query: 124 tcctgtgcctgcttctaggctcctgcgcgcacggtaaggatccagggtctagcccggccc 183
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365024 tcctgtgcctgcttctaggctcctgcgcgcacggtaaggatccagggtctagcccggccc 50365083
Query: 184 tgccctctctgcgcccgccacgctccttctcccacccgtcgtcagtcacccctacgttga 243
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365084 tgccctctctgcgcccgccacgctccttctcccacccgtcgtcagtcacccctacgttga 50365143
Query: 244 agttctgtgtaccacggagaaccccgtctggctggcccttgccggagaggggctcccatt 303
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365144 agttctgtgtaccacggagaaccccgtctggctggcccttgccggagaggggctcccatt 50365203
Query: 304 ttctcccgcctcccctgatctccctcattctggccagcctgggtctcaggctcgcccgtt 363
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365204 ttctcccgcctcccctgatctccctcattctggccagcctgggtctcaggctcgcccgtt 50365263
Query: 364 gtggaagtggaagaggctgagattgatgggggagtggggaagtgtaggtagagaagttaa 423
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365264 gtggaagtggaagaggctgagattgatgggggagtggggaagtgtaggtagagaagttaa 50365323
Query: 424 ata 426
|||
Sbjct: 50365324 ata 50365326
Score = 597 bits (301), Expect = e-168
Identities = 316/321 (98%)
Strand = Plus / Plus
Query: 455 tccctgtgagtcataaatttatcctcggcttttttctgcttaaaatgctgggaccgtttc 514
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 50365355 tccctgtgagtcataaatttatcctcgacttttttctgcttaaaatgctgggaccgtttc 50365414
Query: 515 tccctctggggaattactttgatttcagcctgagtttaccttcccttagctctctgatta 574
||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 50365415 tccctctggggaattactttgatgtcagcctgagtttaccttcccttagctctctgatta 50365474
Query: 575 accccttgctgctccatgccatctcacccccatctcagctcttatctcccactatctcct 634
|||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 50365475 accccttgctgctccatgccatctcacccccatctcagctcttatctcccactatcccct 50365534
Query: 635 gtcacctacatcggatcatccattctccttctttagcctctaatgctctggccctgacat 694
||||||| |||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 50365535 gtcacctccatcggatcatccattctccttctttagcctctaatgctctggccctgccat 50365594
Query: 695 ctgcctccctcctccctactgctaccccttagctgtcctaacccagccagaaagtttctg 754
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365595 ctgcctccctcctccctactgctaccccttagctgtcctaacccagccagaaagtttctg 50365654
Query: 755 caactgagaagagcaaaccct 775
|||||||||||||||||||||
Sbjct: 50365655 caactgagaagagcaaaccct 50365675
Score = 301 bits (152), Expect = 4e-79
Identities = 152/152 (100%)
Strand = Plus / Plus
Query: 840 cagggcctgaaagcacttctacagtgacgccagaatacaaagtaagatatgtggtcacca 899
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365740 cagggcctgaaagcacttctacagtgacgccagaatacaaagtaagatatgtggtcacca 50365799
Query: 900 gtcacatgaccgagagctggagtcggggacatgcagcccaaacaccacaaagacccactg 959
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 50365800 gtcacatgaccgagagctggagtcggggacatgcagcccaaacaccacaaagacccactg 50365859
Query: 960 cattttttcactttccatctagtgttttgaaa 991
||||||||||||||||||||||||||||||||
Sbjct: 50365860 cattttttcactttccatctagtgttttgaaa 50365891
>gb|GL895030.2| Sus scrofa unplaced genomic scaffold ChrUScaf2914
Length = 100881
Score = 147 bits (74), Expect = 1e-32
Identities = 74/74 (100%)
Strand = Plus / Minus
Query: 4 agtctcagctcagcagagcagcggcaggaggcgcgcatcccggctccggcttctgctccc 63
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 47481 agtctcagctcagcagagcagcggcaggaggcgcgcatcccggctccggcttctgctccc 47422
Query: 64 gctccggaggatga 77
||||||||||||||
Sbjct: 47421 gctccggaggatga 47408
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: 26,247,345
Number of extensions: 180
Number of successful extensions: 180
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 180
Number of HSP's successfully gapped: 4
Length of query: 991
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 970
Effective length of database: 2,808,413,156
Effective search space: 2724160761320
Effective search space used: 2724160761320
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)