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-002840
(1036 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: 38,681,510
Number of extensions: 1074317
Number of successful extensions: 4625
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4592
Number of HSP's successfully gapped: 0
Length of query: 345
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 242
Effective length of database: 14,273,310
Effective search space: 3454141020
Effective search space used: 3454141020
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-002840
(1036 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: 40,430,406
Number of extensions: 1111290
Number of successful extensions: 4855
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4827
Number of HSP's successfully gapped: 0
Length of query: 345
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 241
Effective length of database: 15,407,560
Effective search space: 3713221960
Effective search space used: 3713221960
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 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-002840
(1036 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: 39,476,205
Number of extensions: 1078762
Number of successful extensions: 4625
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4573
Number of HSP's successfully gapped: 0
Length of query: 345
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 242
Effective length of database: 14,901,872
Effective search space: 3606253024
Effective search space used: 3606253024
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-002840
(1036 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: 33,414,809
Number of extensions: 897150
Number of successful extensions: 3469
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3445
Number of HSP's successfully gapped: 0
Length of query: 345
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 243
Effective length of database: 12,553,887
Effective search space: 3050594541
Effective search space used: 3050594541
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-002840
(1036 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_003125655.1| PREDICTED: hypothetical protein LOC100524619... 69 6e-17
>ref|XP_003125655.1| PREDICTED: hypothetical protein LOC100524619 [Sus scrofa].
Length = 196
Score = 69.3 bits (168), Expect(2) = 6e-17
Identities = 32/34 (94%), Positives = 32/34 (94%)
Frame = +2
Query: 2 FSACNWRRKTPESPSALREGRQRLRPVAGLFVSG 103
FSACNWRRKTPESPSALREGRQRLRPVAGLF G
Sbjct: 90 FSACNWRRKTPESPSALREGRQRLRPVAGLFGPG 123
Score = 36.2 bits (82), Expect(2) = 6e-17
Identities = 19/36 (52%), Positives = 19/36 (52%)
Frame = +3
Query: 198 GPGPRYLXXXXXXXXXXXXXXXXXEATFSPALVDAA 305
GPGPRYL EATFSPALVDAA
Sbjct: 121 GPGPRYLSGCSRAVGVASASRSSREATFSPALVDAA 156
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: 24,939,335
Number of extensions: 693010
Number of successful extensions: 3175
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3116
Number of HSP's successfully gapped: 2
Length of query: 345
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 245
Effective length of database: 8,854,232
Effective search space: 2169286840
Effective search space used: 2169286840
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-002840
(1036 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_Chr04 1968 0.0
>Sscrofa_Chr04
|| Length = 143465943
Score = 1968 bits (993), Expect = 0.0
Identities = 993/993 (100%)
Strand = Plus / Plus
Query: 1 cttttccgcctgcaactggaggagaaagactcctgagtcaccgtcggccttgcgcgaggg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73904700 cttttccgcctgcaactggaggagaaagactcctgagtcaccgtcggccttgcgcgaggg 73904759
Query: 61 gcggcagcgcctgcggccagtcgccgggctcttcgtatcgggggtccccgcggagttaag 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73904760 gcggcagcgcctgcggccagtcgccgggctcttcgtatcgggggtccccgcggagttaag 73904819
Query: 121 tccgcttcctgccgggaacccgactctgtgccagagcccatgaatcagcctcgggcccct 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73904820 tccgcttcctgccgggaacccgactctgtgccagagcccatgaatcagcctcgggcccct 73904879
Query: 181 ccgtcctgtgggtccagggccccgggccccggtacctttcggggtgcagccgagcggtcg 240
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73904880 ccgtcctgtgggtccagggccccgggccccggtacctttcggggtgcagccgagcggtcg 73904939
Query: 241 gcgtcgcctcagcttcaaggtcatcccgggaggccaccttctccccagccctggtggacg 300
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73904940 gcgtcgcctcagcttcaaggtcatcccgggaggccaccttctccccagccctggtggacg 73904999
Query: 301 cagccttgagcttaactccgcgccttctgctcagtctcattttgtgagtaaccgttacct 360
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905000 cagccttgagcttaactccgcgccttctgctcagtctcattttgtgagtaaccgttacct 73905059
Query: 361 gcaagtcttagctgacccttctctgtagtaaaccctgatttcgcttgttctcagcccaaa 420
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905060 gcaagtcttagctgacccttctctgtagtaaaccctgatttcgcttgttctcagcccaaa 73905119
Query: 421 ctaattaagggccctctgtgattttgttccgaggcggctggaaagtagggcgggtggttt 480
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905120 ctaattaagggccctctgtgattttgttccgaggcggctggaaagtagggcgggtggttt 73905179
Query: 481 cgcgccccgcctaggccttggctggagccctttgtattcccagtaaagctttgtgtgtgg 540
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905180 cgcgccccgcctaggccttggctggagccctttgtattcccagtaaagctttgtgtgtgg 73905239
Query: 541 cctagaccgattcaggaatgggcgctcatttatccttagggaaagttctataaaaggggg 600
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905240 cctagaccgattcaggaatgggcgctcatttatccttagggaaagttctataaaaggggg 73905299
Query: 601 agggattagctcttagatattaagacaatcttaactggactctaactggtttttaaattt 660
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905300 agggattagctcttagatattaagacaatcttaactggactctaactggtttttaaattt 73905359
Query: 661 aacacagcagtttacctccttgcaatgaattgtggtcttgacacagtggatcatcgttgg 720
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905360 aacacagcagtttacctccttgcaatgaattgtggtcttgacacagtggatcatcgttgg 73905419
Query: 721 cgtttgttcctggatgttcatttgtaaatacgttctagagacgtggcattgaagttgcag 780
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905420 cgtttgttcctggatgttcatttgtaaatacgttctagagacgtggcattgaagttgcag 73905479
Query: 781 aacagtatgtccggtctagaaggcgcttaggctgtaaatgcctgctatatatacctttag 840
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905480 aacagtatgtccggtctagaaggcgcttaggctgtaaatgcctgctatatatacctttag 73905539
Query: 841 atgcttgggtttacatagagatgtgtatttctggacataatacggaaaaaattggtcaac 900
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905540 atgcttgggtttacatagagatgtgtatttctggacataatacggaaaaaattggtcaac 73905599
Query: 901 acctgggagactgaaaacttttgcttattaaaaagcaagttacaatgaataccttaatac 960
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 73905600 acctgggagactgaaaacttttgcttattaaaaagcaagttacaatgaataccttaatac 73905659
Query: 961 ctcgtcgatgagatttgctatagtcctgtgggg 993
|||||||||||||||||||||||||||||||||
Sbjct: 73905660 ctcgtcgatgagatttgctatagtcctgtgggg 73905692
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: 27,810,768
Number of extensions: 178
Number of successful extensions: 178
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 178
Number of HSP's successfully gapped: 1
Length of query: 1036
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1015
Effective length of database: 2,808,413,156
Effective search space: 2850539353340
Effective search space used: 2850539353340
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)