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-013951
(1008 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_543338.2| PREDICTED: similar to Programmed cell death pro... 352 2e-97
>ref|XP_543338.2| PREDICTED: similar to Programmed cell death protein 1 precursor
(Protein PD-1) (hPD-1) [Canis familiaris].
Length = 288
Score = 352 bits (904), Expect = 2e-97
Identities = 177/288 (61%), Positives = 194/288 (67%), Gaps = 1/288 (0%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
MG+ R WP+VW VLQL WWPGWLLD+P RP PLT SPAQLTV EG NATFTCS P
Sbjct: 1 MGSRRGPWPLVWAVLQLGWWPGWLLDSPDRPWSPLTFSPAQLTVQEGENATFTCSLADIP 60
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
F+LNWYRLSP NQTDKLAAF E+ +PGRD RF V LPNGRDFHMS+VA R NDSG
Sbjct: 61 DSFVLNWYRLSPRNQTDKLAAFQEDRIEPGRDRRFRVMRLPNGRDFHMSIVAARLNDSGI 120
Query: 414 YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSVXXXX 593
Y CGAIYLPP TQINES +A+L+VTER LE PT+ PS PPR G L+G V+ +TSV
Sbjct: 121 YLCGAIYLPPNTQINESPRAELSVTERTLEPPTQSPSPPPRLSGQLQGLVIGVTSVLVGV 180
Query: 594 XXXXXXXXXXXXXXXXXPRGDRAHRRENQP-REGASSGLVFTVDYGELDFQWREKTPVPS 770
R R P +EG + VFT+DYGELDFQWREKTP P
Sbjct: 181 LLLLLLTWVLAAVFPRATRASVGERTLGTPMKEGPDAAPVFTLDYGELDFQWREKTPEPP 240
Query: 771 AACVSEQTEYATIVFPERPGSPGRRASTDSPQGPWPQRTEDGHCSWPL 914
A C EQTEYATIVFP RP SPGRRAS S QG P EDG WPL
Sbjct: 241 APCAPEQTEYATIVFPGRPASPGRRASASSLQGAQPPSPEDGPGLWPL 288
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: 44,149,054
Number of extensions: 1440049
Number of successful extensions: 7780
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 7732
Number of HSP's successfully gapped: 1
Length of query: 336
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 233
Effective length of database: 15,440,896
Effective search space: 3597728768
Effective search space used: 3597728768
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-013951
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-013951
(1008 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_001076975.1| programmed cell death protein 1 [Bos taurus]. 382 e-106
Alignment gi|XP_001254547.1| PREDICTED: TRA@ protein-like [Bos taurus]. 56 4e-08
Alignment gi|XP_002690629.1| PREDICTED: TRA@ protein-like [Bos taurus]. 52 1e-06
Alignment gi|XP_604310.3| PREDICTED: TRD@ protein-like [Bos taurus]. 52 1e-06
Alignment gi|XP_002690683.1| PREDICTED: TRA@ protein-like [Bos taurus]. 50 4e-06
Alignment gi|XP_609329.3| PREDICTED: TRA@ protein-like [Bos taurus]. 50 4e-06
Alignment gi|XP_002690628.1| PREDICTED: hypothetical protein [Bos taurus]. 49 5e-06
Alignment gi|XP_001788369.1| PREDICTED: hypothetical protein [Bos taurus]. 49 5e-06
Alignment gi|XP_001254668.2| PREDICTED: TRA@ protein-like [Bos taurus]. 49 5e-06
Alignment gi|XP_002705741.1| PREDICTED: hypothetical protein [Bos taurus]. 49 5e-06
>ref|NP_001076975.1| programmed cell death protein 1 [Bos taurus].
Length = 282
Score = 382 bits (981), Expect = e-106
Identities = 189/288 (65%), Positives = 211/288 (73%), Gaps = 1/288 (0%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
MGTPRALWP+VW VLQL WPGWLL+A SRP LT SP +L VPEGANATFTCSF S+P
Sbjct: 1 MGTPRALWPLVWAVLQLGCWPGWLLEASSRPWSALTFSPPRLVVPEGANATFTCSFSSKP 60
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
+ F+LNWYR SPSNQ DKLAAF E+ SQP RD RF VTPLP+G+ F+MS+VA +RNDSG
Sbjct: 61 ERFVLNWYRKSPSNQMDKLAAFPEDRSQPSRDRRFRVTPLPDGQQFNMSIVAAQRNDSGV 120
Query: 414 YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSVXXXX 593
YFCGAIYLPP+TQINESH A+L VTE VLE PTE PS PRPEG ++ V+ +TSV
Sbjct: 121 YFCGAIYLPPRTQINESHSAELMVTEAVLEPPTEPPSPQPRPEGQMQSLVIGVTSVLLGV 180
Query: 594 XXXXXXXXXXXXXXXXXPRGDRAHRRENQ-PREGASSGLVFTVDYGELDFQWREKTPVPS 770
RG A R ++Q P+EG S TVDYGELDFQWREKTP P+
Sbjct: 181 LLLPPLIWVLAAVFLRATRGGCARRSQDQPPKEGCPSVPAVTVDYGELDFQWREKTPEPA 240
Query: 771 AACVSEQTEYATIVFPERPGSPGRRASTDSPQGPWPQRTEDGHCSWPL 914
A CV EQTEYATIVF PGRRAS DSPQGPWP RTEDGHCSWPL
Sbjct: 241 APCVPEQTEYATIVF------PGRRASADSPQGPWPLRTEDGHCSWPL 282
>ref|XP_001254547.1| PREDICTED: TRA@ protein-like [Bos taurus].
Length = 146
Score = 56.2 bits (134), Expect = 4e-08
Identities = 38/127 (29%), Positives = 58/127 (45%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGAN+T C+F + P++ +NWY +P + L Q GR
Sbjct: 27 SPLALSLQEGANSTLQCNFSTYPQN--VNWYLKNPGGRLIHLVYVPSGTKQFGR---LTA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPS 524
T +P R + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 82 TTVPTERRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRRLSPSSSHSH 135
Query: 525 CPPRPEG 545
P+G
Sbjct: 136 TVKPPQG 142
>ref|XP_002690629.1| PREDICTED: TRA@ protein-like [Bos taurus].
Length = 146
Score = 51.6 bits (122), Expect = 1e-06
Identities = 36/126 (28%), Positives = 56/126 (44%)
Frame = +3
Query: 168 PAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVT 347
P L++ EGAN+T C+F + P++ +NWY +P + L Q G R T
Sbjct: 28 PPVLSLQEGANSTLQCNFSTYPQN--VNWYLKNPGGRLIHLVYVPSGTKQFG---RLTAT 82
Query: 348 PLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSC 527
+P + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 83 TVPTELRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGLSPSSSHSHT 136
Query: 528 PPRPEG 545
P+G
Sbjct: 137 VKPPQG 142
>ref|XP_604310.3| PREDICTED: TRD@ protein-like [Bos taurus].
Length = 409
Score = 51.6 bits (122), Expect = 1e-06
Identities = 36/126 (28%), Positives = 56/126 (44%)
Frame = +3
Query: 168 PAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVT 347
P L++ EGAN+T C+F + P++ +NWY +P + L Q G R T
Sbjct: 291 PPVLSLQEGANSTLQCNFSTYPQN--VNWYLKNPGGRLIHLVYVPSGTKQFG---RLTAT 345
Query: 348 PLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSC 527
+P + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 346 TVPTELRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGLSPSSSHSHT 399
Query: 528 PPRPEG 545
P+G
Sbjct: 400 VKPPQG 405
>ref|XP_002690683.1| PREDICTED: TRA@ protein-like [Bos taurus].
Length = 195
Score = 49.7 bits (117), Expect = 4e-06
Identities = 29/94 (30%), Positives = 49/94 (52%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ T C+F + P+ +NWY +P L + G++ +D R H
Sbjct: 27 SPPALSLQEGASYTLQCNFSTFPQS--VNWYLQNPGGCIIHLF-YIPSGTK--KDGRLHA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPK 446
T +P + + +++ DSGTYFC + P+
Sbjct: 82 TAVPKEGRGSLHISSSQTTDSGTYFCAVQHSAPQ 115
>ref|XP_609329.3| PREDICTED: TRA@ protein-like [Bos taurus].
Length = 195
Score = 49.7 bits (117), Expect = 4e-06
Identities = 29/94 (30%), Positives = 49/94 (52%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ T C+F + P+ +NWY +P L + G++ +D R H
Sbjct: 27 SPPALSLQEGASYTLQCNFSTFPQS--VNWYLQNPGGCIIHLF-YIPSGTK--KDGRLHA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPK 446
T +P + + +++ DSGTYFC + P+
Sbjct: 82 TAVPKEGRGSLHISSSQTTDSGTYFCAVQHSAPQ 115
>ref|XP_002690628.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 156
Score = 49.3 bits (116), Expect = 5e-06
Identities = 35/127 (27%), Positives = 55/127 (43%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ C+F + + + WY +PS + L Q GR +
Sbjct: 27 SPPALSLQEGASHMLRCNFSASVSN--VQWYLQNPSGRLIHLFNIPSGTKQDGR---LNA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPS 524
T +P R + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 82 TTIPKERRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGLSPSSSHSH 135
Query: 525 CPPRPEG 545
P+G
Sbjct: 136 TVKPPQG 142
>ref|XP_001788369.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 426
Score = 49.3 bits (116), Expect = 5e-06
Identities = 35/127 (27%), Positives = 55/127 (43%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ C+F + + + WY +PS + L Q GR +
Sbjct: 297 SPPALSLQEGASHMLRCNFSASVSN--VQWYLQNPSGRLIHLFNIPSGTKQDGR---LNA 351
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPS 524
T +P R + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 352 TTIPKERRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGLSPSSSHSH 405
Query: 525 CPPRPEG 545
P+G
Sbjct: 406 TVKPPQG 412
>ref|XP_001254668.2| PREDICTED: TRA@ protein-like [Bos taurus].
Length = 193
Score = 49.3 bits (116), Expect = 5e-06
Identities = 37/135 (27%), Positives = 64/135 (47%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ T C+F + P+ ++WY +P L + G++ +D R +
Sbjct: 27 SPPALSLQEGASYTLQCNFSTFPQS--VSWYLQNPGGCIIHLF-YIPSGTK--KDGRLNA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPS 524
T +P + + +++ DSGTYFC + P+ A T T R + + S
Sbjct: 82 TTVPKEGRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGAQPLLQPQS 135
Query: 525 CPPRPEGHLEGQVLV 569
C GHL+ +L+
Sbjct: 136 CCEATTGHLQCLMLL 150
>ref|XP_002705741.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 156
Score = 49.3 bits (116), Expect = 5e-06
Identities = 35/127 (27%), Positives = 55/127 (43%)
Frame = +3
Query: 165 SPAQLTVPEGANATFTCSFPSEPKHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHV 344
SP L++ EGA+ C+F + + + WY +PS + L Q GR +
Sbjct: 27 SPPALSLQEGASHMLRCNFSASMSN--VQWYLQNPSGRLIHLFNIPSGTKQDGR---LNA 81
Query: 345 TPLPNGRDFHMSVVATRRNDSGTYFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPS 524
T +P R + + +++ DSGTYFC + P+ A T T R L + H
Sbjct: 82 TTIPKERRSSLHISSSQTTDSGTYFCAVQHSAPQA------PAASTQTLRGLSPSSSHSH 135
Query: 525 CPPRPEG 545
P+G
Sbjct: 136 TVKPPQG 142
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: 42,402,538
Number of extensions: 1397776
Number of successful extensions: 8110
Number of sequences better than 1.0e-05: 13
Number of HSP's gapped: 7990
Number of HSP's successfully gapped: 13
Length of query: 336
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 233
Effective length of database: 14,273,310
Effective search space: 3325681230
Effective search space used: 3325681230
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-013951
(1008 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_001191308.1| programmed cell death protein 1 [Sus scrofa]. 552 e-157
Alignment gi|XP_003356764.1| PREDICTED: hypothetical protein LOC100626987... 50 2e-06
Alignment gi|XP_003356766.1| PREDICTED: hypothetical protein LOC100620407... 49 6e-06
>ref|NP_001191308.1| programmed cell death protein 1 [Sus scrofa].
Length = 288
Score = 552 bits (1422), Expect = e-157
Identities = 263/288 (91%), Positives = 264/288 (91%), Gaps = 1/288 (0%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP
Sbjct: 1 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 60
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
KHFILNWYRLSPSNQTDKLAAFSE+GSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT
Sbjct: 61 KHFILNWYRLSPSNQTDKLAAFSEDGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 120
Query: 414 YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSVXXXX 593
YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSV
Sbjct: 121 YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSVLLGL 180
Query: 594 XXXXXXXXXXXXXXXXXPRGDRAHRRENQPR-EGASSGLVFTVDYGELDFQWREKTPVPS 770
PRGDRAHR ENQPR EGASSGLVFTVDYGELDFQWREKTPVPS
Sbjct: 181 LLLLLLAWSLAAFFLWAPRGDRAHRTENQPRKEGASSGLVFTVDYGELDFQWREKTPVPS 240
Query: 771 AACVSEQTEYATIVFPERPGSPGRRASTDSPQGPWPQRTEDGHCSWPL 914
AACVSEQTEYATIVFPERPGSPGRRAS DSPQGPWPQRTEDGHCSWPL
Sbjct: 241 AACVSEQTEYATIVFPERPGSPGRRASADSPQGPWPQRTEDGHCSWPL 288
>ref|XP_003356764.1| PREDICTED: hypothetical protein LOC100626987 [Sus scrofa].
Length = 186
Score = 50.1 bits (118), Expect = 2e-06
Identities = 35/126 (27%), Positives = 59/126 (46%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
M + R L ++W LQL W S+ +G + S A L +PEGANA+ C++
Sbjct: 1 MKSSRVLLVILW--LQLPW-------TKSQQKG-VEQSLASLPIPEGANASLNCNYSDSA 50
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
++ L WYR P + L ++P D RF + + + + ++ +DS T
Sbjct: 51 SNYFL-WYRQYPGKGPELL--LYTASNEPKADGRFTMQVNKTSKHVSLLIRDSQPSDSAT 107
Query: 414 YFCGAI 431
Y C ++
Sbjct: 108 YLCASL 113
>ref|XP_003356766.1| PREDICTED: hypothetical protein LOC100620407 [Sus scrofa].
Length = 271
Score = 48.5 bits (114), Expect = 6e-06
Identities = 34/123 (27%), Positives = 56/123 (45%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
M + R L ++W LQL W S+ +G + SPA +PEGANA+ C++
Sbjct: 2 MKSSRVLLVILW--LQLPW-------TKSQQKG-VEQSPASPPIPEGANASLNCNYSDSA 51
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
+ + WYR P + L + +P D RF + + + + ++ +DS T
Sbjct: 52 SDYFM-WYRQYPGKGPELLLYMA--SYEPKEDGRFTMQVNKTSKHVSLLIRDSQPSDSAT 108
Query: 414 YFC 422
Y C
Sbjct: 109 YLC 111
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: 27,511,944
Number of extensions: 912018
Number of successful extensions: 5148
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 5112
Number of HSP's successfully gapped: 3
Length of query: 336
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 237
Effective length of database: 8,879,129
Effective search space: 2104353573
Effective search space used: 2104353573
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-013951
(1008 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_032824.1| programmed cell death protein 1 precursor [Mus ... 257 1e-68
>ref|NP_032824.1| programmed cell death protein 1 precursor [Mus musculus].
Length = 288
Score = 257 bits (656), Expect = 1e-68
Identities = 141/283 (49%), Positives = 171/283 (60%), Gaps = 3/283 (1%)
Frame = +3
Query: 75 WPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEPKHFILNW 254
W W VLQL W GWLL+ P+ P LT PA LTV EGANATFTCS + + +LNW
Sbjct: 8 WSFTWAVLQLSWQSGWLLEVPNGPWRSLTFYPAWLTVSEGANATFTCSLSNWSEDLMLNW 67
Query: 255 YRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGTYFCGAIY 434
RLSPSNQT+K AAF SQP +D RF + LPN DFHM+++ TRRNDSG Y CGAI
Sbjct: 68 NRLSPSNQTEKQAAFCNGLSQPVQDARFQIIQLPNRHDFHMNILDTRRNDSGIYLCGAIS 127
Query: 435 LPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVL-VITSVXXXXXXXXXX 611
L PK +I ES A+L VTER+LE T +PS P+PEG +G V+ +++++
Sbjct: 128 LHPKAKIEESPGAELVVTERILETSTRYPSPSPKPEGRFQGMVIGIMSALVGIPVLLLLA 187
Query: 612 XXXXXXXXXXXPRGDRAHRRENQPREGASSGLVFTVDYGELDFQWREKTPVPSAACVSEQ 791
A +++ +E S+ V +V Y ELDFQ REKTP ACV
Sbjct: 188 WALAVFCSTSMSEARGAGSKDDTLKEEPSAAPVPSVAYEELDFQGREKTPELPTACV--H 245
Query: 792 TEYATIVFPERPGSP--GRRASTDSPQGPWPQRTEDGHCSWPL 914
TEYATIVF E G+ GRR S D QGP P R EDGHCSWPL
Sbjct: 246 TEYATIVFTEGLGASAMGRRGSADGLQGPRPPRHEDGHCSWPL 288
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: 35,973,095
Number of extensions: 1127580
Number of successful extensions: 5944
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5905
Number of HSP's successfully gapped: 1
Length of query: 336
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 234
Effective length of database: 12,553,887
Effective search space: 2937609558
Effective search space used: 2937609558
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-013951
(1008 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_005009.2| programmed cell death protein 1 precursor [Homo... 335 5e-92
>ref|NP_005009.2| programmed cell death protein 1 precursor [Homo sapiens].
Length = 288
Score = 335 bits (858), Expect = 5e-92
Identities = 175/290 (60%), Positives = 191/290 (65%), Gaps = 3/290 (1%)
Frame = +3
Query: 54 MGTPRALWPVVWVVLQLRWWPGWLLDAPSRPRGPLTLSPAQLTVPEGANATFTCSFPSEP 233
M P+A WPVVW VLQL W PGW LD+P RP P T SPA L V EG NATFTCSF +
Sbjct: 1 MQIPQAPWPVVWAVLQLGWRPGWFLDSPDRPWNPPTFSPALLVVTEGDNATFTCSFSNTS 60
Query: 234 KHFILNWYRLSPSNQTDKLAAFSEEGSQPGRDPRFHVTPLPNGRDFHMSVVATRRNDSGT 413
+ F+LNWYR+SPSNQTDKLAAF E+ SQPG+D RF VT LPNGRDFHMSVV RRNDSGT
Sbjct: 61 ESFVLNWYRMSPSNQTDKLAAFPEDRSQPGQDCRFRVTQLPNGRDFHMSVVRARRNDSGT 120
Query: 414 YFCGAIYLPPKTQINESHQAKLTVTERVLELPTEHPSCPPRPEGHLEGQVLVITSVXXXX 593
Y CGAI L PK QI ES +A+L VTER E+PT HPS PRP G Q LV+ V
Sbjct: 121 YLCGAISLAPKAQIKESLRAELRVTERRAEVPTAHPSPSPRPAGQF--QTLVVGVVGGLL 178
Query: 594 XXXXXXXXXXXXXXXXXPRGDRAHRRENQP-REGASSGLVFTVDYGELDFQWREKTPVPS 770
RG RR QP +E S+ VF+VDYGELDFQWREKTP P
Sbjct: 179 GSLVLLVWVLAVICSRAARGTIGARRTGQPLKEDPSAVPVFSVDYGELDFQWREKTPEPP 238
Query: 771 AACVSEQTEYATIVFPERPG--SPGRRASTDSPQGPWPQRTEDGHCSWPL 914
CV EQTEYATIVFP G SP RR S D P+ P R EDGHCSWPL
Sbjct: 239 VPCVPEQTEYATIVFPSGMGTSSPARRGSADGPRSAQPLRPEDGHCSWPL 288
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: 43,030,040
Number of extensions: 1385009
Number of successful extensions: 7472
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 7441
Number of HSP's successfully gapped: 1
Length of query: 336
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 233
Effective length of database: 14,901,872
Effective search space: 3472136176
Effective search space used: 3472136176
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-013951
(1008 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
***** No hits found ******
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: 23,771,820
Number of extensions: 140
Number of successful extensions: 140
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 140
Number of HSP's successfully gapped: 0
Length of query: 1008
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 987
Effective length of database: 2,808,413,156
Effective search space: 2771903784972
Effective search space used: 2771903784972
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)