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-014156
(868 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_535877.2| PREDICTED: similar to Lymphocyte antigen 86 pre... 273 2e-73
>ref|XP_535877.2| PREDICTED: similar to Lymphocyte antigen 86 precursor (MD-1
protein) [Canis familiaris].
Length = 160
Score = 273 bits (697), Expect = 2e-73
Identities = 127/160 (79%), Positives = 142/160 (88%), Gaps = 1/160 (0%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQGGGG-EAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQL 226
M+GFT ALL+WTLVSP +AWPTH CR+GNLEV YQSCDPLQDFGFS DQCSK L
Sbjct: 1 MKGFTVALLIWTLVSPSSSSNSKAWPTHTVCREGNLEVFYQSCDPLQDFGFSADQCSKHL 60
Query: 227 KPNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQIYY 406
KP L+IRFG+ILR+DI+ELFLD+ALF++GSSILNFSYPICE DLPKFSFCGRRKGEQIYY
Sbjct: 61 KPKLNIRFGMILREDIKELFLDIALFTKGSSILNFSYPICEEDLPKFSFCGRRKGEQIYY 120
Query: 407 AGPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
AGP+NN GFEI GEYQVLLELYN++ STVACANATV+CS
Sbjct: 121 AGPINNPGFEIFEGEYQVLLELYNENRSTVACANATVICS 160
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: 39,486,581
Number of extensions: 1290674
Number of successful extensions: 6560
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 6535
Number of HSP's successfully gapped: 1
Length of query: 289
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 187
Effective length of database: 15,474,232
Effective search space: 2893681384
Effective search space used: 2893681384
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)
Animal-Genome cDNA 20110601C-014156
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-014156
(868 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001077230.1| MD-1, RP105-associated [Bos taurus]. 287 7e-78
Alignment gi|XP_001256116.1| PREDICTED: lymphocyte antigen 86 [Bos taurus]. 287 7e-78
>ref|NP_001077230.1| MD-1, RP105-associated [Bos taurus].
Length = 159
Score = 287 bits (735), Expect = 7e-78
Identities = 130/159 (81%), Positives = 149/159 (93%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQGGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQLK 229
M+GF AALL+WTL+SP+ GGEAWPTH ACR+GNL+VLYQSCDPLQDFGFSVDQC++QLK
Sbjct: 1 MKGFAAALLIWTLLSPRRAGGEAWPTHTACRNGNLQVLYQSCDPLQDFGFSVDQCARQLK 60
Query: 230 PNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQIYYA 409
PN++IRFG++LR+DI +LFLDVALFS+G SILNFSYP+CE DLPKFSFCGRRKGEQIYYA
Sbjct: 61 PNINIRFGMVLREDIEQLFLDVALFSKGLSILNFSYPVCEVDLPKFSFCGRRKGEQIYYA 120
Query: 410 GPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
GP+NN GFEIP G+YQVLLELYNQDH+TVACANATVL S
Sbjct: 121 GPINNPGFEIPEGDYQVLLELYNQDHATVACANATVLYS 159
>ref|XP_001256116.1| PREDICTED: lymphocyte antigen 86 [Bos taurus].
Length = 159
Score = 287 bits (735), Expect = 7e-78
Identities = 130/159 (81%), Positives = 149/159 (93%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQGGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQLK 229
M+GF AALL+WTL+SP+ GGEAWPTH ACR+GNL+VLYQSCDPLQDFGFSVDQC++QLK
Sbjct: 1 MKGFAAALLIWTLLSPRRAGGEAWPTHTACRNGNLQVLYQSCDPLQDFGFSVDQCARQLK 60
Query: 230 PNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQIYYA 409
PN++IRFG++LR+DI +LFLDVALFS+G SILNFSYP+CE DLPKFSFCGRRKGEQIYYA
Sbjct: 61 PNINIRFGMVLREDIEQLFLDVALFSKGLSILNFSYPVCEVDLPKFSFCGRRKGEQIYYA 120
Query: 410 GPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
GP+NN GFEIP G+YQVLLELYNQDH+TVACANATVL S
Sbjct: 121 GPINNPGFEIPEGDYQVLLELYNQDHATVACANATVLYS 159
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: 37,936,089
Number of extensions: 1260925
Number of successful extensions: 6447
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 6427
Number of HSP's successfully gapped: 2
Length of query: 289
Length of database: 17,681,374
Length adjustment: 101
Effective length of query: 188
Effective length of database: 14,339,486
Effective search space: 2695823368
Effective search space used: 2695823368
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-014156
(868 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|NP_001090884.1| lymphocyte antigen 86 [Sus scrofa]. 329 1e-90
Alignment gi|NP_001098426.1| lymphocyte antigen 96 [Sus scrofa]. 49 4e-06
>ref|NP_001090884.1| lymphocyte antigen 86 [Sus scrofa].
Length = 159
Score = 329 bits (843), Expect = 1e-90
Identities = 157/159 (98%), Positives = 157/159 (98%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQGGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQLK 229
MRGFTAALLVWTLVSPQGGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQLK
Sbjct: 1 MRGFTAALLVWTLVSPQGGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSKQLK 60
Query: 230 PNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQIYYA 409
PNLHIRFGIILRQDIRELFLDVALFSQGSSILN SYPICEADLPKFSFCGRRKGEQIYYA
Sbjct: 61 PNLHIRFGIILRQDIRELFLDVALFSQGSSILNLSYPICEADLPKFSFCGRRKGEQIYYA 120
Query: 410 GPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
GPVNNLGFE PTGEYQVLLELYNQDHSTVACANATVLCS
Sbjct: 121 GPVNNLGFEFPTGEYQVLLELYNQDHSTVACANATVLCS 159
>ref|NP_001098426.1| lymphocyte antigen 96 [Sus scrofa].
Length = 160
Score = 48.9 bits (115), Expect = 4e-06
Identities = 33/132 (25%), Positives = 60/132 (45%), Gaps = 4/132 (3%)
Frame = +2
Query: 137 CRDGNLEVLYQSCDPLQ-DFGFSVDQCS--KQLKPNLHIRFGIILRQDIRELFLDVALFS 307
C + + Y CD ++ V+ C K K LH+ + I R+DI++L+L++ +
Sbjct: 25 CNSSDASLWYNYCDDMKFPISVKVEPCVTIKGTKGKLHLYY--IARRDIQKLYLNLHISI 82
Query: 308 QGSSILNFSYPICEADLPKFSFCGRRKGEQIYYAGPVNNLGFEIPTGEYQVLLE-LYNQD 484
+ ++ IC +SFCG KGE + P + G G+Y ++E +
Sbjct: 83 KSMTLPMRKEVICREYGGDYSFCGALKGETVNTTIPFSFQGIRFSPGQYHCVVEAISGNS 142
Query: 485 HSTVACANATVL 520
+ C N T++
Sbjct: 143 EEMLFCLNFTII 154
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: 24,705,958
Number of extensions: 843369
Number of successful extensions: 4228
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4199
Number of HSP's successfully gapped: 2
Length of query: 289
Length of database: 11,343,932
Length adjustment: 98
Effective length of query: 191
Effective length of database: 8,904,026
Effective search space: 1700668966
Effective search space used: 1700668966
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: 33 (17.3 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-014156
(868 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_034875.1| lymphocyte antigen 86 precursor [Mus musculus]. 244 8e-65
>ref|NP_034875.1| lymphocyte antigen 86 precursor [Mus musculus].
Length = 162
Score = 244 bits (622), Expect = 8e-65
Identities = 114/162 (70%), Positives = 131/162 (80%), Gaps = 3/162 (1%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQG---GGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSK 220
M G AALLVW L SP G WP H AC G LEV+YQSCDPLQDFG S+DQCSK
Sbjct: 1 MNGVAAALLVWILTSPSSSDHGSENGWPKHTACNSGGLEVVYQSCDPLQDFGLSIDQCSK 60
Query: 221 QLKPNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQI 400
Q++ NL+IRFGIILRQDIR+LFLD+ L ++GSSILN+SYP+CE D PKFSFCGRRKGEQI
Sbjct: 61 QIQSNLNIRFGIILRQDIRKLFLDITLMAKGSSILNYSYPLCEEDQPKFSFCGRRKGEQI 120
Query: 401 YYAGPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
YYAGPVNN G ++P GEYQ+LLELYN++ +TVACANATV S
Sbjct: 121 YYAGPVNNPGLDVPQGEYQLLLELYNENRATVACANATVTSS 162
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: 32,148,306
Number of extensions: 1002108
Number of successful extensions: 4520
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 4494
Number of HSP's successfully gapped: 1
Length of query: 289
Length of database: 15,617,559
Length adjustment: 100
Effective length of query: 189
Effective length of database: 12,613,959
Effective search space: 2384038251
Effective search space used: 2384038251
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-014156
(868 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_004262.1| lymphocyte antigen 86 precursor [Homo sapiens]. 268 6e-72
>ref|NP_004262.1| lymphocyte antigen 86 precursor [Homo sapiens].
Length = 162
Score = 268 bits (684), Expect = 6e-72
Identities = 126/162 (77%), Positives = 141/162 (87%), Gaps = 3/162 (1%)
Frame = +2
Query: 50 MRGFTAALLVWTLVSPQ---GGGGEAWPTHVACRDGNLEVLYQSCDPLQDFGFSVDQCSK 220
M+GFTA L +WTL+ P GGGG+AWPTHV C D LEVLYQSCDPLQDFGFSV++CSK
Sbjct: 1 MKGFTATLFLWTLIFPSCSGGGGGKAWPTHVVCSDSGLEVLYQSCDPLQDFGFSVEKCSK 60
Query: 221 QLKPNLHIRFGIILRQDIRELFLDVALFSQGSSILNFSYPICEADLPKFSFCGRRKGEQI 400
QLK N++IRFGIILR+DI+ELFLD+AL SQGSS+LNFSYPICEA LPKFSFCGRRKGEQI
Sbjct: 61 QLKSNINIRFGIILREDIKELFLDLALMSQGSSVLNFSYPICEAALPKFSFCGRRKGEQI 120
Query: 401 YYAGPVNNLGFEIPTGEYQVLLELYNQDHSTVACANATVLCS 526
YYAGPVNN F IP GEYQVLLELY + STVACANAT++CS
Sbjct: 121 YYAGPVNNPEFTIPQGEYQVLLELYTEKRSTVACANATIMCS 162
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: 38,432,453
Number of extensions: 1235890
Number of successful extensions: 5980
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5954
Number of HSP's successfully gapped: 1
Length of query: 289
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 187
Effective length of database: 14,934,836
Effective search space: 2792814332
Effective search space used: 2792814332
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-014156
(868 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|GL895736.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 484 e-134
>gb|GL895736.1| Sus scrofa unplaced genomic scaffold chrU_scaffold4271
Length = 16858
Score = 484 bits (244), Expect = e-134
Identities = 276/289 (95%), Gaps = 3/289 (1%)
Strand = Plus / Minus
Query: 559 ggcaaccgcggctcctcccgctgaacctgccgcgaggaaggaccggcagacggcagagcg 618
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15376 ggcaaccgcggctcctcccgctgaacctgccgcgaggaaggaccggcagacggcagagcg 15317
Query: 619 aggctcccggaaggcgcaggcgctgatttccacccctggaccagaggtcccgggccccag 678
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15316 aggctcccggaaggcgcaggcgctgatttccacccctggaccagaggtcccgggccccag 15257
Query: 679 ggatg---caacgaagnnnnnnnnnatctgatctcgggagctcctgggggtcaccaagca 735
||||| |||||||| ||||||||||||||||||||||||||| |||||||
Sbjct: 15256 ggatgntgcaacgaagcccccccccatctgatctcgggagctcctgggggtcgccaagca 15197
Query: 736 gtttgcgggtcctgtccctcttccctaagtgctcatctgacacccctcacctctttccag 795
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15196 gtttgcgggtcctgtccctcttccctaagtgctcatctgacacccctcacctctttccag 15137
Query: 796 ctcctgggggcccttcctcggtcgcccagaataaagaaactggccccac 844
|||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15136 ctcctgggggcccttcctcggtcgcccagaataaagaaactggccccac 15088
Score = 73.8 bits (37), Expect = 1e-10
Identities = 37/37 (100%)
Strand = Plus / Minus
Query: 445 gggagagtaccaggttctgctggagctgtacaaccag 481
|||||||||||||||||||||||||||||||||||||
Sbjct: 15513 gggagagtaccaggttctgctggagctgtacaaccag 15477
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: 22,945,989
Number of extensions: 129
Number of successful extensions: 129
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 129
Number of HSP's successfully gapped: 3
Length of query: 868
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 847
Effective length of database: 2,808,413,156
Effective search space: 2378725943132
Effective search space used: 2378725943132
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 29 (58.0 bits)