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-012348
(1264 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: 33,971,829
Number of extensions: 1260182
Number of successful extensions: 2819
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2817
Number of HSP's successfully gapped: 0
Length of query: 421
Length of database: 17,681,374
Length adjustment: 105
Effective length of query: 316
Effective length of database: 14,207,134
Effective search space: 4489454344
Effective search space used: 4489454344
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-012348
(1264 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: 32,964,311
Number of extensions: 831283
Number of successful extensions: 2775
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2773
Number of HSP's successfully gapped: 0
Length of query: 421
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 316
Effective length of database: 15,374,224
Effective search space: 4858254784
Effective search space used: 4858254784
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-012348
(1264 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_003360690.1| PREDICTED: hypothetical protein LOC100624113... 120 2e-27
>ref|XP_003360690.1| PREDICTED: hypothetical protein LOC100624113 [Sus scrofa].
Length = 74
Score = 120 bits (300), Expect = 2e-27
Identities = 61/65 (93%), Positives = 62/65 (95%), Gaps = 2/65 (3%)
Frame = +3
Query: 6 SLCGKLVAGEDGR--RGVRLAFAAKPSPKAGEGAARHICLAAHMQAPGARRKIRSATREC 179
SLCGKL+AGEDG RGVRLAFAAKPSPKAGEGAARHICLAAHMQAPGARRKIRSATREC
Sbjct: 10 SLCGKLLAGEDGDGCRGVRLAFAAKPSPKAGEGAARHICLAAHMQAPGARRKIRSATREC 69
Query: 180 KMSTS 194
KMSTS
Sbjct: 70 KMSTS 74
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: 26,022,234
Number of extensions: 1509489
Number of successful extensions: 1751
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1750
Number of HSP's successfully gapped: 1
Length of query: 421
Length of database: 11,343,932
Length adjustment: 102
Effective length of query: 319
Effective length of database: 8,804,438
Effective search space: 2808615722
Effective search space used: 2808615722
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-012348
(1264 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: 27,409,063
Number of extensions: 675540
Number of successful extensions: 2176
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2173
Number of HSP's successfully gapped: 0
Length of query: 421
Length of database: 15,617,559
Length adjustment: 104
Effective length of query: 317
Effective length of database: 12,493,815
Effective search space: 3960539355
Effective search space used: 3960539355
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-012348
(1264 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: 32,237,714
Number of extensions: 783024
Number of successful extensions: 2728
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2728
Number of HSP's successfully gapped: 0
Length of query: 421
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 316
Effective length of database: 14,835,944
Effective search space: 4688158304
Effective search space used: 4688158304
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-012348
(1264 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL892492.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 442 e-121
Sscrofa_Chr02 248 6e-63
Sscrofa_Chr12 80 3e-12
>gb|GL892492.1| Sus scrofa unplaced genomic scaffold chrU_scaffold1351
Length = 9269
Score = 442 bits (223), Expect = e-121
Identities = 223/223 (100%)
Strand = Plus / Plus
Query: 578 gaactttgcagacacaaaaggatgtcctctctggtgttggacagatcttgggagcttcac 637
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6942 gaactttgcagacacaaaaggatgtcctctctggtgttggacagatcttgggagcttcac 7001
Query: 638 atctttcctgcattaacacatgggagcagctatcaactcttccgagccaggcgaactgcc 697
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7002 atctttcctgcattaacacatgggagcagctatcaactcttccgagccaggcgaactgcc 7061
Query: 698 tagaaatttggggacccttaaatatcaattaggtggtcttcacttctttacttggtttta 757
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7062 tagaaatttggggacccttaaatatcaattaggtggtcttcacttctttacttggtttta 7121
Query: 758 gcaaaaggattccaataaaatatttaaaagtaaatgaaaaata 800
|||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7122 gcaaaaggattccaataaaatatttaaaagtaaatgaaaaata 7164
Score = 400 bits (202), Expect = e-109
Identities = 202/202 (100%)
Strand = Plus / Plus
Query: 377 gcccgagagctccttatctttgaagcccagccaggggctgtccctttcagagatctgggc 436
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6424 gcccgagagctccttatctttgaagcccagccaggggctgtccctttcagagatctgggc 6483
Query: 437 tagactggaaagattctggaaggcctaaggtttggaattctcttgaagagctgacaggat 496
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6484 tagactggaaagattctggaaggcctaaggtttggaattctcttgaagagctgacaggat 6543
Query: 497 ggctgtggtgcccatatagtggttcctgccacttgaacaggctgtgagaagtggagaaga 556
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 6544 ggctgtggtgcccatatagtggttcctgccacttgaacaggctgtgagaagtggagaaga 6603
Query: 557 tgccttcagcttgggttctgtg 578
||||||||||||||||||||||
Sbjct: 6604 tgccttcagcttgggttctgtg 6625
Score = 214 bits (108), Expect = 9e-53
Identities = 108/108 (100%)
Strand = Plus / Plus
Query: 885 tgatagttgaggtttttatgagactgttacaacagttatccatttggcttttgatgagtt 944
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7249 tgatagttgaggtttttatgagactgttacaacagttatccatttggcttttgatgagtt 7308
Query: 945 tggtgaaaacatagattgttcagatatattttgaaagaattctattcc 992
||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 7309 tggtgaaaacatagattgttcagatatattttgaaagaattctattcc 7356
Score = 210 bits (106), Expect = 1e-51
Identities = 129/137 (94%), Gaps = 6/137 (4%)
Strand = Plus / Plus
Query: 5 ctctttgtgcggtaaactcgtggctggtgaggatgg------ccgtcgcggagttcgcct 58
||||||||||||||||||| |||||||||||||||| | ||||||||||||||||
Sbjct: 4987 ctctttgtgcggtaaactcctggctggtgaggatggngatggctgtcgcggagttcgcct 5046
Query: 59 ggcttttgctgcgaaaccgtccccaaaggcgggggagggtgccgcccggcacatttgctt 118
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5047 ggcttttgctgcgaaaccgtccccaaaggcgggggagggtgccgcccggcacatttgctt 5106
Query: 119 agctgcgcacatgcagg 135
|||||||||||||||||
Sbjct: 5107 agctgcgcacatgcagg 5123
Score = 115 bits (58), Expect = 6e-23
Identities = 58/58 (100%)
Strand = Plus / Plus
Query: 173 ggagtgtaagatgtccacatcttaaatggccgcactcgccgcgtaagtccagggccaa 230
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5694 ggagtgtaagatgtccacatcttaaatggccgcactcgccgcgtaagtccagggccaa 5751
Score = 85.7 bits (43), Expect = 5e-14
Identities = 43/43 (100%)
Strand = Plus / Plus
Query: 132 caggcccctggtgctcgaaggaagatccgcagcgcgacgaggg 174
|||||||||||||||||||||||||||||||||||||||||||
Sbjct: 5379 caggcccctggtgctcgaaggaagatccgcagcgcgacgaggg 5421
>Sscrofa_Chr02
|| Length = 162569375
Score = 248 bits (125), Expect = 6e-63
Identities = 210/236 (88%), Gaps = 3/236 (1%)
Strand = Plus / Minus
Query: 556 atgccttcagcttgggttctgtgaactttgcagacacaaaaggatgtcctctctggtgtt 615
|||||||| ||||||||||| ||||||| ||||||||| | ||||||||||||||||||
Sbjct: 72006064 atgccttctgcttgggttctatgaacttggcagacacaca-ggatgtcctctctggtgtc 72006006
Query: 616 ggacagatcttgggagcttcacatctttcctgcattaacacatgggagcagctatcaact 675
||||||||||| || |||| ||||||||||||||||||||| |||||||||||||| |
Sbjct: 72006005 ggacagatcttagggacttcgtatctttcctgcattaacacattggagcagctatcaatt 72005946
Query: 676 cttccgagccaggcgaactgcctagaaatttggggacccttaaatatcaattaggtggtc 735
|| ||| || |||| |||||||||| | ||||||||||||||||||||||||||||
Sbjct: 72005945 --tctgaggggggagaaccgcctagaaatgtagggacccttaaatatcaattaggtggtc 72005888
Query: 736 ttcacttctttacttggttttagcaaaaggattccaataaaatatttaaaagtaaa 791
||||||||||||||||||| |||||||||||||| ||||||||| |||||||||||
Sbjct: 72005887 ttcacttctttacttggttgtagcaaaaggattctaataaaataattaaaagtaaa 72005832
>Sscrofa_Chr12
|| Length = 63588571
Score = 79.8 bits (40), Expect = 3e-12
Identities = 61/68 (89%)
Strand = Plus / Plus
Query: 720 tatcaattaggtggtcttcacttctttacttggttttagcaaaaggattccaataaaata 779
|||||| ||||| | ||| ||||||||||||||||||| ||||||||| ||||||||||
Sbjct: 51993737 tatcaactaggtaggctttacttctttacttggttttatcaaaaggataacaataaaata 51993796
Query: 780 tttaaaag 787
||||||||
Sbjct: 51993797 tttaaaag 51993804
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: 25,295,919
Number of extensions: 269
Number of successful extensions: 269
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 10
Length of query: 1264
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1243
Effective length of database: 2,808,413,156
Effective search space: 3490857552908
Effective search space used: 3490857552908
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)