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-013499
(1112 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: 33,910,624
Number of extensions: 819980
Number of successful extensions: 1882
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1881
Number of HSP's successfully gapped: 0
Length of query: 370
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 266
Effective length of database: 15,407,560
Effective search space: 4098410960
Effective search space used: 4098410960
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: 35 (18.1 bits)
Animal-Genome cDNA 20110601C-013499
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-013499
(1112 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: 33,729,525
Number of extensions: 1035026
Number of successful extensions: 1805
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1804
Number of HSP's successfully gapped: 0
Length of query: 370
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 266
Effective length of database: 14,240,222
Effective search space: 3787899052
Effective search space used: 3787899052
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: 35 (18.1 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-013499
(1112 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_003356574.1| PREDICTED: zinc finger protein 40-like [Sus ... 99 4e-21
>ref|XP_003356574.1| PREDICTED: zinc finger protein 40-like [Sus scrofa].
Length = 1867
Score = 99.0 bits (245), Expect = 4e-21
Identities = 45/45 (100%), Positives = 45/45 (100%)
Frame = +1
Query: 466 EMLQRDLLKELPDFDKITVASPPRAWVGMSEIGLHKHPVWTETPE 600
EMLQRDLLKELPDFDKITVASPPRAWVGMSEIGLHKHPVWTETPE
Sbjct: 26 EMLQRDLLKELPDFDKITVASPPRAWVGMSEIGLHKHPVWTETPE 70
Score = 55.5 bits (132), Expect = 5e-08
Identities = 25/25 (100%), Positives = 25/25 (100%)
Frame = +3
Query: 249 MPRTKQIHPRNLRGRTLPEIEVEFT 323
MPRTKQIHPRNLRGRTLPEIEVEFT
Sbjct: 1 MPRTKQIHPRNLRGRTLPEIEVEFT 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: 23,981,204
Number of extensions: 1055368
Number of successful extensions: 1230
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1230
Number of HSP's successfully gapped: 2
Length of query: 370
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 270
Effective length of database: 8,854,232
Effective search space: 2390642640
Effective search space used: 2390642640
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-013499
(1112 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: 28,303,400
Number of extensions: 682078
Number of successful extensions: 1519
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1519
Number of HSP's successfully gapped: 0
Length of query: 370
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 267
Effective length of database: 12,523,851
Effective search space: 3343868217
Effective search space used: 3343868217
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-013499
(1112 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: 33,081,631
Number of extensions: 785781
Number of successful extensions: 1807
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 1807
Number of HSP's successfully gapped: 0
Length of query: 370
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 266
Effective length of database: 14,868,908
Effective search space: 3955129528
Effective search space used: 3955129528
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: 35 (18.1 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-013499
(1112 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_Chr07 1366 0.0
gb|GL894462.2| Sus scrofa unplaced genomic scaffold ChrUScaf2346 242 3e-61
>Sscrofa_Chr07
|| Length = 134764511
Score = 1366 bits (689), Expect = 0.0
Identities = 689/689 (100%)
Strand = Plus / Plus
Query: 145 gcacatggattaactgatggactttgggtttatggagccacctttttgtgacctgctctt 204
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924072 gcacatggattaactgatggactttgggtttatggagccacctttttgtgacctgctctt 8924131
Query: 205 cctacagtttctaagaagaaaaagggggccctgaatcgaagaagatgcctcgaactaaac 264
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924132 cctacagtttctaagaagaaaaagggggccctgaatcgaagaagatgcctcgaactaaac 8924191
Query: 265 agattcatcccagaaatctaagaggtaggactctgccggagatagaagtagagtttacag 324
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924192 agattcatcccagaaatctaagaggtaggactctgccggagatagaagtagagtttacag 8924251
Query: 325 taaatcgttaataacgtctctttggtggcaggaacggcgccttgttaggtggtgaccctg 384
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924252 taaatcgttaataacgtctctttggtggcaggaacggcgccttgttaggtggtgaccctg 8924311
Query: 385 ctctgtggttggtcagctccaggaccctgttccattttttggattcacttcctcttgccc 444
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924312 ctctgtggttggtcagctccaggaccctgttccattttttggattcacttcctcttgccc 8924371
Query: 445 tacacaattcctgtctctcaggagatgcttcagagagatttgttaaaggaattacctgac 504
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924372 tacacaattcctgtctctcaggagatgcttcagagagatttgttaaaggaattacctgac 8924431
Query: 505 ttcgacaaaattacagtggcttccccgccgcgagcatgggtagggatgtctgagattggt 564
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924432 ttcgacaaaattacagtggcttccccgccgcgagcatgggtagggatgtctgagattggt 8924491
Query: 565 cttcataagcatcctgtttggactgagacccccgaagtgagtggttggataggttttgct 624
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924492 cttcataagcatcctgtttggactgagacccccgaagtgagtggttggataggttttgct 8924551
Query: 625 ctactggatcaccctgcatttttccccacctctcccccacatttcttttgagatttactt 684
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924552 ctactggatcaccctgcatttttccccacctctcccccacatttcttttgagatttactt 8924611
Query: 685 ttgtaccgctctgcacattagattaacaagaaggaaagagacttgtagttgacattaact 744
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924612 ttgtaccgctctgcacattagattaacaagaaggaaagagacttgtagttgacattaact 8924671
Query: 745 caaaccattatttgcagaactcagaaaatagataaacagatttgttttccatagggaagc 804
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8924672 caaaccattatttgcagaactcagaaaatagataaacagatttgttttccatagggaagc 8924731
Query: 805 aactgatcaaaaaagtatatatgtattta 833
|||||||||||||||||||||||||||||
Sbjct: 8924732 aactgatcaaaaaagtatatatgtattta 8924760
Score = 287 bits (145), Expect = 6e-75
Identities = 145/145 (100%)
Strand = Plus / Plus
Query: 1 gccgagggaatgaagcgcctccccctagcatttcctctcacgcccacttccaacctagga 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8917034 gccgagggaatgaagcgcctccccctagcatttcctctcacgcccacttccaacctagga 8917093
Query: 61 ggcttttggtttctgcttttgttgtttttaaaattaaaagttaaacgcaggaagctttgg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 8917094 ggcttttggtttctgcttttgttgtttttaaaattaaaagttaaacgcaggaagctttgg 8917153
Query: 121 atcagacttttgcgtggcagttcgg 145
|||||||||||||||||||||||||
Sbjct: 8917154 atcagacttttgcgtggcagttcgg 8917178
>gb|GL894462.2| Sus scrofa unplaced genomic scaffold ChrUScaf2346
Length = 101087
Score = 242 bits (122), Expect = 3e-61
Identities = 122/122 (100%)
Strand = Plus / Minus
Query: 1 gccgagggaatgaagcgcctccccctagcatttcctctcacgcccacttccaacctagga 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 70724 gccgagggaatgaagcgcctccccctagcatttcctctcacgcccacttccaacctagga 70665
Query: 61 ggcttttggtttctgcttttgttgtttttaaaattaaaagttaaacgcaggaagctttgg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 70664 ggcttttggtttctgcttttgttgtttttaaaattaaaagttaaacgcaggaagctttgg 70605
Query: 121 at 122
||
Sbjct: 70604 at 70603
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: 29,937,494
Number of extensions: 355
Number of successful extensions: 355
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 355
Number of HSP's successfully gapped: 3
Length of query: 1112
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1091
Effective length of database: 2,808,413,156
Effective search space: 3063978753196
Effective search space used: 3063978753196
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)