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-013158
(1176 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: 48,521,836
Number of extensions: 1587988
Number of successful extensions: 5967
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5955
Number of HSP's successfully gapped: 0
Length of query: 392
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 288
Effective length of database: 14,240,222
Effective search space: 4101183936
Effective search space used: 4101183936
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 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-013158
(1176 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: 49,921,652
Number of extensions: 1527669
Number of successful extensions: 5792
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5776
Number of HSP's successfully gapped: 0
Length of query: 392
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 287
Effective length of database: 15,374,224
Effective search space: 4412402288
Effective search space used: 4412402288
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-013158
(1176 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_003122045.1| PREDICTED: hypothetical protein LOC100515120... 125 5e-29
>ref|XP_003122045.1| PREDICTED: hypothetical protein LOC100515120 [Sus scrofa].
Length = 75
Score = 125 bits (314), Expect = 5e-29
Identities = 55/55 (100%), Positives = 55/55 (100%)
Frame = +3
Query: 561 CVLCCFSCDSRARDPQRGPGHSFTVATFRQEASLFTGPGCHIQPVAGARDFWTFM 725
CVLCCFSCDSRARDPQRGPGHSFTVATFRQEASLFTGPGCHIQPVAGARDFWTFM
Sbjct: 21 CVLCCFSCDSRARDPQRGPGHSFTVATFRQEASLFTGPGCHIQPVAGARDFWTFM 75
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: 32,306,894
Number of extensions: 1179814
Number of successful extensions: 3897
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 3897
Number of HSP's successfully gapped: 1
Length of query: 392
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 291
Effective length of database: 8,829,335
Effective search space: 2569336485
Effective search space used: 2569336485
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-013158
(1176 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: 40,948,428
Number of extensions: 1203123
Number of successful extensions: 4430
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 4427
Number of HSP's successfully gapped: 0
Length of query: 392
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 289
Effective length of database: 12,523,851
Effective search space: 3619392939
Effective search space used: 3619392939
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-013158
(1176 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: 48,848,489
Number of extensions: 1474801
Number of successful extensions: 5610
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5598
Number of HSP's successfully gapped: 0
Length of query: 392
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 287
Effective length of database: 14,835,944
Effective search space: 4257915928
Effective search space used: 4257915928
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-013158
(1176 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_Chr01 1754 0.0
>Sscrofa_Chr01
|| Length = 315321322
Score = 1754 bits (885), Expect = 0.0
Identities = 903/909 (99%)
Strand = Plus / Plus
Query: 161 gcccctccgagtccagggagtcttgagctcacactttaaaggacatcgcttcttccagag 220
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392234 gcccctccgagtccagggagtcttgagctcacactttaaaggacatcgcttcttccagag 264392293
Query: 221 ctgccagtggagttgcccatggctctcagaagcctggcctgaggctcaggaaacagtgac 280
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392294 ctgccagtggagttgcccatggctctcagaagcctggcctgaggctcaggaaacagtgac 264392353
Query: 281 agagacccagtgagattggagtagggccatgcggggcacccaacagcccagacaaggcag 340
|||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||
Sbjct: 264392354 agagacccagtgagattggagtagggccatgcggggcacccaacagcctagacaaggcag 264392413
Query: 341 cagtcagggcctcagaccagcaccttcttagaagatcacagggagagtggcctgaggagc 400
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392414 cagtcagggcctcagaccagcaccttcttagaagatcacagggagagtggcctgaggagc 264392473
Query: 401 gagggtacctgccatcaccgagagccccggcttcagacagggagctgaggctccaagact 460
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392474 gagggtacctgccatcaccgagagccccggcttcagacagggagctgaggctccaagact 264392533
Query: 461 cgtcccaggttgctcagtgggtcagcggccacgcagggccatggaaacggctgtgattgg 520
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392534 cgtcccaggttgctcagtgggtcagcggccacgcagggccatggaaacggctgtgattgg 264392593
Query: 521 agtggtggccgtgctgtttgtggtcaccgtggccatcacctgcgtcctctgttgcttcag 580
||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 264392594 agtggtggccgtgctgtttgtggtcactgtggccatcacctgcgtcctctgttgcttcag 264392653
Query: 581 ctgtgactcgagggcccgggatcctcagaggggcccaggccacagcttcacggtggccac 640
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392654 ctgtgactcgagggcccgggatcctcagaggggcccaggccacagcttcacggtggccac 264392713
Query: 641 gtttcgccaggaggcttctctcttcacggggccaggttgccatatccaaccagtggcggg 700
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392714 gtttcgccaggaggcttctctcttcacggggccaggttgccatatccaaccagtggcggg 264392773
Query: 701 tgcccgggacttctggaccttcatgtgagacctgccagctctcggcctttgctctgctgg 760
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392774 tgcccgggacttctggaccttcatgtgagacctgccagctctcggcctttgctctgctgg 264392833
Query: 761 tggtcagacttgtttatgccccagcaagccttctctggtgacccactcctccaacgctgg 820
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392834 tggtcagacttgtttatgccccagcaagccttctctggtgacccactcctccaacgctgg 264392893
Query: 821 ctttcccgtccttccctgcctgtgtccagtaaaccctgtcccatgtcctgcagcctggga 880
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264392894 ctttcccgtccttccctgcctgtgtccagtaaaccctgtcccatgtcctgcagcctggga 264392953
Query: 881 gatccatggtgataggaccaggtaggagtcagctctgacctccaggagctcagctggatc 940
||||||||||||||||||||||| |||||||||||||||||||| |||||||||||||||
Sbjct: 264392954 gatccatggtgataggaccaggtgggagtcagctctgacctccaagagctcagctggatc 264393013
Query: 941 ctaaccacaggatggggcttaggagaggtccagagggtgagtgactgagtgttggatggc 1000
||||||||||||||||||||||||||||||||||||||| ||||||| ||||||||||||
Sbjct: 264393014 ctaaccacaggatggggcttaggagaggtccagagggtgcgtgactgtgtgttggatggc 264393073
Query: 1001 atggtggaccaggtcttctgatctacacagtgaactgaaatctcaccggactttattgtg 1060
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264393074 atggtggaccaggtcttctgatctacacagtgaactgaaatctcaccggactttattgtg 264393133
Query: 1061 aagagtgtt 1069
|||||||||
Sbjct: 264393134 aagagtgtt 264393142
Score = 319 bits (161), Expect = 2e-84
Identities = 161/161 (100%)
Strand = Plus / Plus
Query: 1 gttcaggaagtgttctcagccacactcagacctcacagagcctcgtcccaggcaggaccg 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264391580 gttcaggaagtgttctcagccacactcagacctcacagagcctcgtcccaggcaggaccg 264391639
Query: 61 aggctgcagcacccagggatgagcgtgatgtggcctggccccgggggtggctgccaggtc 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264391640 aggctgcagcacccagggatgagcgtgatgtggcctggccccgggggtggctgccaggtc 264391699
Query: 121 aggaggccatggcactgtgttcagccaacagggagcccagg 161
|||||||||||||||||||||||||||||||||||||||||
Sbjct: 264391700 aggaggccatggcactgtgttcagccaacagggagcccagg 264391740
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: 31,057,322
Number of extensions: 274
Number of successful extensions: 274
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 274
Number of HSP's successfully gapped: 2
Length of query: 1176
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1155
Effective length of database: 2,808,413,156
Effective search space: 3243717195180
Effective search space used: 3243717195180
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)