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-014076
(1181 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: 39,384,341
Number of extensions: 1129887
Number of successful extensions: 2911
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2907
Number of HSP's successfully gapped: 0
Length of query: 393
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 289
Effective length of database: 14,240,222
Effective search space: 4115424158
Effective search space used: 4115424158
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-014076
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-014076
(1181 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: 40,030,987
Number of extensions: 957444
Number of successful extensions: 2828
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2824
Number of HSP's successfully gapped: 0
Length of query: 393
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 288
Effective length of database: 15,374,224
Effective search space: 4427776512
Effective search space used: 4427776512
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-014076
(1181 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_003128506.1| PREDICTED: hypothetical protein LOC100513602... 179 3e-45
>ref|XP_003128506.1| PREDICTED: hypothetical protein LOC100513602 [Sus scrofa].
Length = 197
Score = 179 bits (453), Expect = 3e-45
Identities = 89/113 (78%), Positives = 89/113 (78%)
Frame = +1
Query: 7 GRACEVSRYLQLALRIFPSFSSSDPHAELHEAGEVAREGDDALGTLSACLVTVQEEMQRC 186
GRACEVSRYLQLALRIFPSFSSSDPHAELHEAGEVAREGDDALGTLSACLVTVQEEMQRC
Sbjct: 85 GRACEVSRYLQLALRIFPSFSSSDPHAELHEAGEVAREGDDALGTLSACLVTVQEEMQRC 144
Query: 187 LFSPFDGELVTGXXXXXXXXXXXXXXXXXXXXXXXXWYLHHSSCPIPDPRSED 345
LFSPFDGELVTG WYLHHSSCPIPDPRSED
Sbjct: 145 LFSPFDGELVTGHMEVPKQGAELELKLLAFTTATARWYLHHSSCPIPDPRSED 197
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: 27,374,216
Number of extensions: 1046356
Number of successful extensions: 1790
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1789
Number of HSP's successfully gapped: 1
Length of query: 393
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 292
Effective length of database: 8,829,335
Effective search space: 2578165820
Effective search space used: 2578165820
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-014076
(1181 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: 33,014,244
Number of extensions: 769778
Number of successful extensions: 2304
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2300
Number of HSP's successfully gapped: 0
Length of query: 393
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 290
Effective length of database: 12,523,851
Effective search space: 3631916790
Effective search space used: 3631916790
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-014076
(1181 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: 39,069,572
Number of extensions: 917694
Number of successful extensions: 2631
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2628
Number of HSP's successfully gapped: 0
Length of query: 393
Length of database: 18,297,164
Length adjustment: 105
Effective length of query: 288
Effective length of database: 14,835,944
Effective search space: 4272751872
Effective search space used: 4272751872
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-014076
(1181 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 615 e-173
Sscrofa_Chr04 66 5e-08
>Sscrofa_Chr07
|| Length = 134764511
Score = 615 bits (310), Expect = e-173
Identities = 310/310 (100%)
Strand = Plus / Plus
Query: 295 tggtatctacaccacagttcatgccccatcccggacccgcggagcgaggattaatagact 354
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57464549 tggtatctacaccacagttcatgccccatcccggacccgcggagcgaggattaatagact 57464608
Query: 355 ttagatggagggcatgtaccaagaagagagcaaagaccaacgataacttttagtaccaga 414
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57464609 ttagatggagggcatgtaccaagaagagagcaaagaccaacgataacttttagtaccaga 57464668
Query: 415 aatttgttttccaaacacctgctcttctcaccttcctgggatttgtcttcctccgctttg 474
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57464669 aatttgttttccaaacacctgctcttctcaccttcctgggatttgtcttcctccgctttg 57464728
Query: 475 aagtcctgacccctaccccttcttagctcagggccctctactggatagagacctgggctc 534
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57464729 aagtcctgacccctaccccttcttagctcagggccctctactggatagagacctgggctc 57464788
Query: 535 tgctcattctggggctgctgcagctgagagatcctggaccctgggatagatgccggcaga 594
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57464789 tgctcattctggggctgctgcagctgagagatcctggaccctgggatagatgccggcaga 57464848
Query: 595 agttaagaat 604
||||||||||
Sbjct: 57464849 agttaagaat 57464858
Score = 430 bits (217), Expect = e-118
Identities = 217/217 (100%)
Strand = Plus / Plus
Query: 6 ggggcgggcctgtgaggtctcgcggtatcttcagctcgccctgaggatttttcccagctt 65
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57441141 ggggcgggcctgtgaggtctcgcggtatcttcagctcgccctgaggatttttcccagctt 57441200
Query: 66 ttccagctctgatcctcacgcggagctccacgaagctggtgaggtggcacgtgaaggtga 125
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57441201 ttccagctctgatcctcacgcggagctccacgaagctggtgaggtggcacgtgaaggtga 57441260
Query: 126 tgatgccctcggcacgctttcagcctgcctggtgactgtgcaggaagagatgcagcgctg 185
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57441261 tgatgccctcggcacgctttcagcctgcctggtgactgtgcaggaagagatgcagcgctg 57441320
Query: 186 tctcttcagcccctttgacggggagctggtgacgggt 222
|||||||||||||||||||||||||||||||||||||
Sbjct: 57441321 tctcttcagcccctttgacggggagctggtgacgggt 57441357
Score = 394 bits (199), Expect = e-107
Identities = 216/222 (97%)
Strand = Plus / Plus
Query: 960 ttaccaggaagagagtgaatatcaaagaacttttgtatcagaaacttatccgcatggcat 1019
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57474257 ttaccaggaagagagtgaatatcaaagaacttttgtatcagaaacttatccgcatggcat 57474316
Query: 1020 tatcagacacctgctcttcttacctttctggggcttgtctcctccactttgaagtcctga 1079
||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 57474317 tatcagacacctgctcttcttacttttctggggcttgtctcctccactttgaagtcctga 57474376
Query: 1080 cccctaccccccttctccttagctcangatggcatgtaagccctcatggcctgactgtct 1139
|||||||||||||||||||||||||| ||||||||||||||| |||||||||||||||
Sbjct: 57474377 cccctaccccccttctccttagctcaggatggcatgtaagcctcaatggcctgactgtct 57474436
Query: 1140 tggggtcccatgtctttggggctcctgtacatatgaaatttg 1181
||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 57474437 tggggtctcatgtctttggggctcctgtacatatgaaatttg 57474478
Score = 383 bits (193), Expect = e-103
Identities = 193/193 (100%)
Strand = Plus / Plus
Query: 656 agaaatgcctctgattaaagacctgattacttgtgcaatagagacctaactttggggccc 715
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57473953 agaaatgcctctgattaaagacctgattacttgtgcaatagagacctaactttggggccc 57474012
Query: 716 acctacatctccacctcctgaaaatgtgtttaacctgttttcaggactaagagactgatt 775
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57474013 acctacatctccacctcctgaaaatgtgtttaacctgttttcaggactaagagactgatt 57474072
Query: 776 cagcgagatggaaaaatcttccaactcaacttctggatggtgaaacttcttggggatgcc 835
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57474073 cagcgagatggaaaaatcttccaactcaacttctggatggtgaaacttcttggggatgcc 57474132
Query: 836 tcggggcaggatc 848
|||||||||||||
Sbjct: 57474133 tcggggcaggatc 57474145
Score = 73.8 bits (37), Expect = 2e-10
Identities = 59/65 (90%), Gaps = 1/65 (1%)
Strand = Plus / Plus
Query: 1026 acacctgctcttcttacctttctggggcttgtct-cctccactttgaagtcctgacccct 1084
|||||||||||||| ||||| ||||| |||||| ||||| |||||||||||||||||||
Sbjct: 57464683 acacctgctcttctcaccttcctgggatttgtcttcctccgctttgaagtcctgacccct 57464742
Query: 1085 acccc 1089
|||||
Sbjct: 57464743 acccc 57464747
Score = 65.9 bits (33), Expect = 5e-08
Identities = 58/65 (89%), Gaps = 1/65 (1%)
Strand = Plus / Plus
Query: 429 acacctgctcttctcaccttcctgggatttgtcttcctccgctttgaagtcctgacccct 488
|||||||||||||| || || ||||| |||||| ||||| |||||||||||||||||||
Sbjct: 57474323 acacctgctcttcttacttttctggggcttgtct-cctccactttgaagtcctgacccct 57474381
Query: 489 acccc 493
|||||
Sbjct: 57474382 acccc 57474386
>Sscrofa_Chr04
|| Length = 143465943
Score = 65.9 bits (33), Expect = 5e-08
Identities = 57/65 (87%)
Strand = Plus / Plus
Query: 416 atttgttttccaaacacctgctcttctcaccttcctgggatttgtcttcctccgctttga 475
|||||||| ||||||| ||||||||||| ||||||| || | |||||||||| ||||||
Sbjct: 106083295 atttgtttaccaaacatatgctcttctcatcttcctgtgaatggtcttcctcccctttga 106083354
Query: 476 agtcc 480
|||||
Sbjct: 106083355 agtcc 106083359
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: 28,796,406
Number of extensions: 674
Number of successful extensions: 674
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 673
Number of HSP's successfully gapped: 7
Length of query: 1181
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1160
Effective length of database: 2,808,413,156
Effective search space: 3257759260960
Effective search space used: 3257759260960
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)