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-000661
(1152 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_001192115.1| hypothetical protein LOC524810 [Bos taurus]. 60 5e-09
Alignment gi|XP_002694745.1| PREDICTED: IGL@ protein-like [Bos taurus]. 45 4e-07
Alignment gi|XP_002701782.1| PREDICTED: immunoglobulin lambda-like polype... 42 4e-06
>ref|NP_001192115.1| hypothetical protein LOC524810 [Bos taurus].
Length = 487
Score = 59.7 bits (143), Expect = 5e-09
Identities = 38/106 (35%), Positives = 66/106 (62%), Gaps = 2/106 (1%)
Frame = +1
Query: 541 AESQSAPNLFPLVSCVSPPSDESLVALGCLARDFLPSS-VTFSWNYKNSSKVSSQNIQDF 717
+ES+++P++FPL + P+ + V +GCL + F PS+ ++ +WN +N VS +N F
Sbjct: 144 SESETSPSIFPLSLGNNDPAGQ--VVIGCLVQGFFPSAPLSVTWN-QNGDSVSVRN---F 197
Query: 718 PSVLRGGKYLASSRVLLPSVSIPQDPEAFLVCEVQHPS-GTKSVSI 852
P+VL G Y SS++ LP+ P+ + C+VQH S +K+V++
Sbjct: 198 PAVLAGSLYTMSSQLTLPASLCPKGQS--VTCQVQHLSKASKTVAV 241
>ref|XP_002694745.1| PREDICTED: IGL@ protein-like [Bos taurus].
Length = 260
Score = 45.4 bits (106), Expect(2) = 4e-07
Identities = 29/84 (34%), Positives = 43/84 (51%)
Frame = +1
Query: 784 PQDPEAFLVCEVQHPSGTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQAS 963
P+ P A+ SGTK ++ P + PP + +F P+ E S+ T+ L+C S
Sbjct: 136 PEGPSAWFT----FGSGTK---VTIPDQPKFPPSVTLFPPSTEELSTY---TATLVCLIS 185
Query: 964 DFSPKQISMAWFRDGKRVVSGVST 1035
DF P +++AW DG V GV T
Sbjct: 186 DFYPGNVTVAWKADGSPVTRGVVT 209
Score = 27.3 bits (59), Expect(2) = 4e-07
Identities = 12/26 (46%), Positives = 15/26 (57%)
Frame = +2
Query: 1073 YRLHSMLTVTESEWLSQSVFHCPVEH 1150
Y S LT+T SEW +S + C V H
Sbjct: 220 YVASSYLTLTGSEWKPKSSYSCEVTH 245
>ref|XP_002701782.1| PREDICTED: immunoglobulin lambda-like polypeptide 1-like [Bos
taurus].
Length = 236
Score = 42.0 bits (97), Expect(2) = 4e-06
Identities = 21/68 (30%), Positives = 35/68 (51%)
Frame = +1
Query: 832 GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGK 1011
GT+ + P + PP + +F P++E S+ + L+C SDF P +++AW DG
Sbjct: 124 GTRVTVLGQP---KSPPSVTLFPPSKEELSANK---ATLVCLISDFYPGSVTVAWKADGS 177
Query: 1012 RVVSGVST 1035
+ V T
Sbjct: 178 TITRNVKT 185
Score = 27.3 bits (59), Expect(2) = 4e-06
Identities = 10/26 (38%), Positives = 16/26 (61%)
Frame = +2
Query: 1073 YRLHSMLTVTESEWLSQSVFHCPVEH 1150
Y S L++T+S+W S+ + C V H
Sbjct: 196 YAASSYLSLTDSDWKSKGSYSCEVTH 221
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: 48,353,664
Number of extensions: 1600338
Number of successful extensions: 9252
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 9079
Number of HSP's successfully gapped: 5
Length of query: 384
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 280
Effective length of database: 14,240,222
Effective search space: 3987262160
Effective search space used: 3987262160
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-000661
(1152 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_856755.1| PREDICTED: similar to T-cell receptor beta chai... 53 5e-07
Alignment gi|XP_857540.1| PREDICTED: similar to T-cell receptor beta chai... 53 6e-07
Alignment gi|XP_534372.2| PREDICTED: similar to Tyrosine-protein phosphat... 50 2e-06
Alignment gi|XP_857254.1| PREDICTED: similar to T-cell receptor beta chai... 51 2e-06
Alignment gi|XP_857216.1| PREDICTED: similar to T-cell receptor beta chai... 51 2e-06
Alignment gi|XP_856796.1| PREDICTED: similar to T-cell receptor beta chai... 50 4e-06
Alignment gi|XP_857657.1| PREDICTED: similar to T-cell receptor beta chai... 50 5e-06
Alignment gi|XP_857001.1| PREDICTED: similar to T-cell receptor beta chai... 50 5e-06
Alignment gi|XP_851420.1| PREDICTED: similar to protein tyrosine phosphat... 49 6e-06
Alignment gi|XP_857421.1| PREDICTED: similar to T-cell receptor beta chai... 49 7e-06
>ref|XP_856755.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 5
[Canis familiaris].
Length = 316
Score = 53.1 bits (126), Expect = 5e-07
Identities = 35/124 (28%), Positives = 59/124 (47%), Gaps = 7/124 (5%)
Frame = +1
Query: 691 VSSQNIQDFPSVLRGGK-------YLASSRVLLPSVSIPQDPEAFLVCEVQHPSGTKSVS 849
VS + FP +L + + ASS + S + + + + SGTK +S
Sbjct: 85 VSRKKKDAFPLILESARINQTSVYFCASSNIYRESAGLCNNEKLYFA------SGTK-LS 137
Query: 850 ISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGKRVVSGV 1029
+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +GK V SG
Sbjct: 138 VLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNGKEVTSGF 195
Query: 1030 STGP 1041
ST P
Sbjct: 196 STDP 199
>ref|XP_857540.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 23
[Canis familiaris].
Length = 310
Score = 52.8 bits (125), Expect = 6e-07
Identities = 38/130 (29%), Positives = 60/130 (46%), Gaps = 5/130 (3%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGK-----YLASSRVLLPSVSIPQDPEAFLVCEVQHPS 831
W+Y N V + +I SV R K L S+R+ SV + + QH
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKKDAFPLILESARINQTSVYFCASSPGGMENQAQHFG 125
Query: 832 GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGK 1011
+S+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +GK
Sbjct: 126 DGTRLSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNGK 183
Query: 1012 RVVSGVSTGP 1041
V SG ST P
Sbjct: 184 EVTSGFSTDP 193
>ref|XP_534372.2| PREDICTED: similar to Tyrosine-protein phosphatase non-receptor type
substrate 1 precursor (SHP substrate-1) (SHPS-1)
(Inhibitory receptor SHPS-1) (Signal-regulatory protein
alpha-1) (Sirp-alpha-1) (Sirp-alpha-2) (Sirp-alpha-3)
(MyD-1 antigen) (Brain Ig-like ... [Canis familiaris].
Length = 424
Score = 50.1 bits (118), Expect(2) = 2e-06
Identities = 49/195 (25%), Positives = 86/195 (44%), Gaps = 20/195 (10%)
Frame = +1
Query: 544 ESQSAPNLFPLVSCV-SPP---------SDESLVALGCLARDFLPSSVTFSWNYKNSSKV 693
E +S P +VS SPP + + V+ C + F P S+T W +KN +++
Sbjct: 129 ELKSGPGTLVIVSAKPSPPVVSGPTARATPQQTVSFTCKSHGFSPRSITLRW-FKNGNEL 187
Query: 694 SSQNIQDFPSVLRGGKYLASSRVLLPSVSIPQDPEAFLVCEVQHPS--------GTKSVS 849
++ +P ++S+ L V P D + ++CEV H + GT ++S
Sbjct: 188 TASQTTVYPDEDNASYSISSTTKL---VLAPGDVRSQVICEVAHVTLQGGPPLRGTANLS 244
Query: 850 ISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGKRVVSGV 1029
+ V PP L + S T + +ICQ +F P+++ + W +G VS
Sbjct: 245 ETLRV----PPTLEV------SQHPTARDQIYVICQVEEFYPQRLQLTWLENGN--VSRT 292
Query: 1030 STGPVET--LQSRSG 1068
T V + L+++ G
Sbjct: 293 ETPSVASNLLENKDG 307
Score = 20.4 bits (41), Expect(2) = 2e-06
Identities = 10/27 (37%), Positives = 12/27 (44%)
Frame = +2
Query: 1070 TYRLHSMLTVTESEWLSQSVFHCPVEH 1150
T+ S L V S VF C V+H
Sbjct: 308 TFNWMSWLLVNSSTHREDVVFTCQVQH 334
>ref|XP_857254.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 16
[Canis familiaris].
Length = 307
Score = 50.8 bits (120), Expect = 2e-06
Identities = 40/130 (30%), Positives = 60/130 (46%), Gaps = 5/130 (3%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGK-----YLASSRVLLPSVSIPQDPEAFLVCEVQHPS 831
W+Y N V + +I SV R K L S+R+ SV E L QH
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKKDAFPLILESARINQTSVYFCASTEWSLA---QHFG 122
Query: 832 GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGK 1011
+S+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +GK
Sbjct: 123 DGTRLSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNGK 180
Query: 1012 RVVSGVSTGP 1041
V SG ST P
Sbjct: 181 EVTSGFSTDP 190
>ref|XP_857216.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 15
[Canis familiaris].
Length = 309
Score = 50.8 bits (120), Expect = 2e-06
Identities = 39/130 (30%), Positives = 60/130 (46%), Gaps = 5/130 (3%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGK-----YLASSRVLLPSVSIPQDPEAFLVCEVQHPS 831
W+Y N V + +I SV R K L S+R+ SV A
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKKDAFPLILESARINQTSVYFCATSSAIFRSAQHFGD 125
Query: 832 GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGK 1011
GT+ +S+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +GK
Sbjct: 126 GTR-LSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNGK 182
Query: 1012 RVVSGVSTGP 1041
V SG ST P
Sbjct: 183 EVTSGFSTDP 192
>ref|XP_856796.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 6
[Canis familiaris].
Length = 313
Score = 50.1 bits (118), Expect = 4e-06
Identities = 41/137 (29%), Positives = 63/137 (45%), Gaps = 12/137 (8%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGKYLASSRVLLPSVSIPQDPEAFLVCEVQHPSGTKS- 843
W+Y N V + +I SV R K + ++L S I Q F C + SGT S
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKK--DAFPLILESARINQTSVYF--CASSYGSGTPSS 121
Query: 844 -----------VSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISM 990
+S+ + + PP + +F P+ S T + T L+C A+ F P + +
Sbjct: 122 GEPRHFGDGTRLSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVEL 179
Query: 991 AWFRDGKRVVSGVSTGP 1041
+W+ +GK V SG ST P
Sbjct: 180 SWWVNGKEVTSGFSTDP 196
>ref|XP_857657.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 26
[Canis familiaris].
Length = 308
Score = 49.7 bits (117), Expect = 5e-06
Identities = 39/130 (30%), Positives = 59/130 (45%), Gaps = 5/130 (3%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGK-----YLASSRVLLPSVSIPQDPEAFLVCEVQHPS 831
W+Y N V + +I SV R K L S+R+ SV P QH
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKKDAFPLILESARINQTSVYFCASPGQGK--SAQHFG 123
Query: 832 GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDGK 1011
+S+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +GK
Sbjct: 124 DGTRLSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNGK 181
Query: 1012 RVVSGVSTGP 1041
V SG ST P
Sbjct: 182 EVTSGFSTDP 191
>ref|XP_857001.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 10
[Canis familiaris].
Length = 308
Score = 49.7 bits (117), Expect = 5e-06
Identities = 39/131 (29%), Positives = 65/131 (49%), Gaps = 6/131 (4%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGKYLASSRVLLPSVSIPQDPEAFLVCEVQHPS----- 831
W+Y N V + +I SV R K + ++L S I Q F +V+ S
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKK--DAFPLILESARINQTSVYFCANQVRGGSPLYFG 123
Query: 832 -GTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRDG 1008
GT+ ++++ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +G
Sbjct: 124 TGTR-LTVTEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVNG 180
Query: 1009 KRVVSGVSTGP 1041
K V SG ST P
Sbjct: 181 KEVTSGFSTDP 191
>ref|XP_851420.1| PREDICTED: similar to protein tyrosine phosphatase, non-receptor type
substrate 1 precursor, partial [Canis familiaris].
Length = 635
Score = 48.5 bits (114), Expect(2) = 6e-06
Identities = 46/182 (25%), Positives = 79/182 (43%), Gaps = 16/182 (8%)
Frame = +1
Query: 571 PLVSCVSPPS----DESLVALGCLARDFLPSSVTFSWNYKNSSKVSSQNIQDFPSVLRGG 738
P VS P+ + V+ C + F P S+T W +KN +++++ +P
Sbjct: 189 PSTPVVSGPTARVMPQQTVSFTCKSHGFSPRSITLRW-FKNGNELTASQTTVYPEEDNAS 247
Query: 739 KYLASSRVLLPSVSIPQDPEAFLVCEVQHPS--------GTKSVSISGPVVEEQPPVLNI 894
++S+ L V P D + ++CEV H + GT S+S V PP L +
Sbjct: 248 YNISSTTKL---VLAPGDVRSQVICEVAHVTLQGDPPLRGTASLS----EVLRVPPTLEV 300
Query: 895 FVPTRESFSSTPQRTSKL--ICQASDFSPKQISMAWFRDGKRVVSGVSTGPVET--LQSR 1062
S P ++ ICQ +F P+++ + W +G VS T V + L+++
Sbjct: 301 --------SQHPMARDQIYVICQVEEFYPQRLQLTWLENGN--VSRTETPSVASNLLENK 350
Query: 1063 SG 1068
G
Sbjct: 351 DG 352
Score = 20.4 bits (41), Expect(2) = 6e-06
Identities = 10/27 (37%), Positives = 12/27 (44%)
Frame = +2
Query: 1070 TYRLHSMLTVTESEWLSQSVFHCPVEH 1150
T+ S L V S VF C V+H
Sbjct: 353 TFNWMSWLLVNSSTHREDVVFTCQVQH 379
>ref|XP_857421.1| PREDICTED: similar to T-cell receptor beta chain C region isoform 20
[Canis familiaris].
Length = 312
Score = 49.3 bits (116), Expect = 7e-06
Identities = 39/132 (29%), Positives = 61/132 (46%), Gaps = 7/132 (5%)
Frame = +1
Query: 667 WNYKNSSKVSSQNIQDFPSVLRGGK-----YLASSRVLLPSVSIPQDPEAF--LVCEVQH 825
W+Y N V + +I SV R K L S+R+ SV + E+ QH
Sbjct: 67 WSY-NIDSVETGDIPYGYSVSRKKKDAFPLILESARINQTSVYFCANSESNKRTYRRAQH 125
Query: 826 PSGTKSVSISGPVVEEQPPVLNIFVPTRESFSSTPQRTSKLICQASDFSPKQISMAWFRD 1005
+S+ + + PP + +F P+ S T + T L+C A+ F P + ++W+ +
Sbjct: 126 FGDGTRLSVLEDLQKVTPPTVTVFEPSEAEISRTQKAT--LVCLATGFYPDHVELSWWVN 183
Query: 1006 GKRVVSGVSTGP 1041
GK V SG ST P
Sbjct: 184 GKEVTSGFSTDP 195
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: 50,419,221
Number of extensions: 1652229
Number of successful extensions: 9771
Number of sequences better than 1.0e-05: 20
Number of HSP's gapped: 9628
Number of HSP's successfully gapped: 25
Length of query: 384
Length of database: 18,874,504
Length adjustment: 105
Effective length of query: 279
Effective length of database: 15,374,224
Effective search space: 4289408496
Effective search space used: 4289408496
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-000661
(1152 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: 49,211,462
Number of extensions: 1596235
Number of successful extensions: 8763
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 8585
Number of HSP's successfully gapped: 0
Length of query: 384
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 280
Effective length of database: 14,868,908
Effective search space: 4163294240
Effective search space used: 4163294240
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 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-000661
(1152 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|XP_003085513.1| PREDICTED: ig alpha chain C region [Mus musc... 56 6e-08
Alignment gi|XP_001474075.2| PREDICTED: ig alpha chain C region isoform 1... 54 3e-07
>ref|XP_003085513.1| PREDICTED: ig alpha chain C region [Mus musculus].
Length = 413
Score = 55.8 bits (133), Expect = 6e-08
Identities = 49/167 (29%), Positives = 76/167 (45%), Gaps = 11/167 (6%)
Frame = +1
Query: 427 LRSWGRAVQVGLSAR--CWLFLRDLEEFFQ*WESPVTGHQ-----AESQSAPNLFPLVSC 585
+ S G VQ G S R C +F+ W G + A+S P ++PL
Sbjct: 24 VESGGGLVQPGGSLRLSCATSGFTFSDFYMEWVRQPPGKRLEWIAAKSARNPTIYPLT-- 81
Query: 586 VSPPSDESLVALGCLARDFLPS-SVTFSWNYKNSSKVSSQNIQDFPSVLRGGKYLASSRV 762
+ P V +GCL D+ PS ++ +W K+ +++ N P++ GG+Y SS++
Sbjct: 82 LPPALSSDPVIIGCLIHDYFPSGTMNVTWG-KSGKDITTVNFP--PALASGGRYTMSSQL 138
Query: 763 LLPSVSIPQDPEAFLVCEVQH---PSGTKSVSISGPVVEEQPPVLNI 894
LP+V P+ + C VQH P V+ SGP PP + I
Sbjct: 139 TLPAVECPEGES--VKCSVQHDSNPVQELDVNCSGPT---PPPPITI 180
>ref|XP_001474075.2| PREDICTED: ig alpha chain C region isoform 1 [Mus musculus].
Length = 354
Score = 53.5 bits (127), Expect = 3e-07
Identities = 38/121 (31%), Positives = 60/121 (49%), Gaps = 4/121 (3%)
Frame = +1
Query: 544 ESQSAPNLFPLVSCVSPPSDESLVALGCLARDFLPS-SVTFSWNYKNSSKVSSQNIQDFP 720
ES P ++PL + P V +GCL D+ PS ++ +W K+ +++ N P
Sbjct: 11 ESARNPTIYPLT--LPPALSSDPVIIGCLIHDYFPSGTMNVTWG-KSGKDITTVNFP--P 65
Query: 721 SVLRGGKYLASSRVLLPSVSIPQDPEAFLVCEVQH---PSGTKSVSISGPVVEEQPPVLN 891
++ GG+Y SS++ LP+V P+ + C VQH P V+ SGP PP +
Sbjct: 66 ALASGGRYTMSSQLTLPAVECPEGES--VKCSVQHDSNPVQELDVNCSGPT---PPPPIT 120
Query: 892 I 894
I
Sbjct: 121 I 121
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: 41,173,382
Number of extensions: 1298614
Number of successful extensions: 6899
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 6760
Number of HSP's successfully gapped: 2
Length of query: 384
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 281
Effective length of database: 12,523,851
Effective search space: 3519202131
Effective search space used: 3519202131
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-000661
(1152 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_998993.1| IgG heavy chain [Sus scrofa]. 64 2e-12
>ref|NP_998993.1| IgG heavy chain [Sus scrofa].
Length = 474
Score = 64.3 bits (155), Expect(2) = 2e-12
Identities = 51/171 (29%), Positives = 78/171 (45%), Gaps = 15/171 (8%)
Frame = +1
Query: 550 QSAPNLFPLVSCVSPPSDESLVALGCLARDFLPSSVTFSWNYKNSSKVSSQNIQDFPSVL 729
++AP+++PL C S + VALGCLA + P VT +WN S + + FPSVL
Sbjct: 149 KTAPSVYPLAPCGRDTSGPN-VALGCLASSYFPEPVTMTWN----SGALTSGVHTFPSVL 203
Query: 730 R-GGKYLASSRVLLPSVSIPQDPEAFLVCEVQHPSGTKSVSIS-----------GPVVEE 873
+ G Y SS V +P+ S+ C V HP+ T V P E
Sbjct: 204 QPSGLYSLSSMVTVPASSLSSKS---YTCNVNHPATTTKVDKRVGTKTKPPCPICPGCEV 260
Query: 874 QPPVLNIFVPTRES---FSSTPQRTSKLICQASDFSPKQISMAWFRDGKRV 1017
P + IF P + S TP+ T ++ + + + ++ +W+ DG V
Sbjct: 261 AGPSVFIFPPKPKDTLMISQTPEVTCVVVDVSKEHA--EVQFSWYVDGVEV 309
Score = 26.2 bits (56), Expect(2) = 2e-12
Identities = 10/27 (37%), Positives = 15/27 (55%)
Frame = +2
Query: 1070 TYRLHSMLTVTESEWLSQSVFHCPVEH 1150
TYR+ S+L + +WL F C V +
Sbjct: 324 TYRVVSVLPIQHQDWLKGKEFKCKVNN 350
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: 31,315,295
Number of extensions: 1040028
Number of successful extensions: 6170
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 5981
Number of HSP's successfully gapped: 2
Length of query: 384
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 283
Effective length of database: 8,829,335
Effective search space: 2498701805
Effective search space used: 2498701805
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-000661
(1152 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|GL895479.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 1039 0.0
gb|GL894379.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 593 e-167
gb|GL895656.1| Sus scrofa unplaced genomic scaffold chrU_scaffold42 90 3e-15
gb|GL896198.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 82 8e-13
gb|GL896545.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 74 2e-10
>gb|GL895479.1| Sus scrofa unplaced genomic scaffold chrU_scaffold404
Length = 1139
Score = 1039 bits (524), Expect = 0.0
Identities = 524/524 (100%)
Strand = Plus / Minus
Query: 21 gtttaagagccgaggcattcctatcctcttctaaggcgttattcctggaggctcattcac 80
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1139 gtttaagagccgaggcattcctatcctcttctaaggcgttattcctggaggctcattcac 1080
Query: 81 cgccagcacctccgctgcctgcaggcattgctgtcaccgtcaccgtgacggcgcgcacga 140
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1079 cgccagcacctccgctgcctgcaggcattgctgtcaccgtcaccgtgacggcgcgcacga 1020
Query: 141 ttttcagttggcccgcttcccctcgtgattaggacagacgcgggcactctggcccagccg 200
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1019 ttttcagttggcccgcttcccctcgtgattaggacagacgcgggcactctggcccagccg 960
Query: 201 tcttggctcagtatctgcaggcgtccgtctcgggacggagctcaggggaagagcgtgact 260
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 959 tcttggctcagtatctgcaggcgtccgtctcgggacggagctcaggggaagagcgtgact 900
Query: 261 ccagttgaacgtgatagtcggtgcgttgagaggagacccagtcgggtgtcgagtcagaag 320
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 899 ccagttgaacgtgatagtcggtgcgttgagaggagacccagtcgggtgtcgagtcagaag 840
Query: 321 gggcccggggcccgaggccctgggcaggacggcccgtgccctgcatcacgggcccagcgt 380
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 839 gggcccggggcccgaggccctgggcaggacggcccgtgccctgcatcacgggcccagcgt 780
Query: 381 cctagaggcaggactctggtggagagtgtgagggtgcctggggcccctccggagctgggg 440
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 779 cctagaggcaggactctggtggagagtgtgagggtgcctggggcccctccggagctgggg 720
Query: 441 ccgtgcggtgcaggttgggctctcggcgcggtgttggctgtttctgcgggatttggagga 500
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 719 ccgtgcggtgcaggttgggctctcggcgcggtgttggctgtttctgcgggatttggagga 660
Query: 501 attcttccagtgatgggagtcgccagtgaccgggcaccaggctg 544
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 659 attcttccagtgatgggagtcgccagtgaccgggcaccaggctg 616
>gb|GL894379.1| Sus scrofa unplaced genomic scaffold chrU_scaffold305
Length = 460
Score = 593 bits (299), Expect = e-167
Identities = 299/299 (100%)
Strand = Plus / Minus
Query: 564 tctcttccccctcgtctcctgcgtcagccccccgtccgatgagagcctggtggccctggg 623
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 460 tctcttccccctcgtctcctgcgtcagccccccgtccgatgagagcctggtggccctggg 401
Query: 624 ctgcctggcccgggacttcctgcccagctccgtcaccttctcctggaactacaagaacag 683
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 ctgcctggcccgggacttcctgcccagctccgtcaccttctcctggaactacaagaacag 341
Query: 684 cagcaaggtcagcagccagaacatccaggacttcccgtccgtcctgagaggcggcaagta 743
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 cagcaaggtcagcagccagaacatccaggacttcccgtccgtcctgagaggcggcaagta 281
Query: 744 cttggcctcctcccgggtgctcctaccctctgtgagcatcccccaggacccagaggcctt 803
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 cttggcctcctcccgggtgctcctaccctctgtgagcatcccccaggacccagaggcctt 221
Query: 804 cctggtgtgcgaggtccagcaccccagtggcaccaagtccgtgtccatctctgggccag 862
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 220 cctggtgtgcgaggtccagcaccccagtggcaccaagtccgtgtccatctctgggccag 162
Score = 163 bits (82), Expect = 3e-37
Identities = 82/82 (100%)
Strand = Plus / Minus
Query: 860 cagtcgtagaggagcagccccccgtcttgaacatcttcgtccccacccgggagtccttct 919
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 82 cagtcgtagaggagcagccccccgtcttgaacatcttcgtccccacccgggagtccttct 23
Query: 920 ccagtactccccagcgcacgtc 941
||||||||||||||||||||||
Sbjct: 22 ccagtactccccagcgcacgtc 1
>gb|GL895656.1| Sus scrofa unplaced genomic scaffold chrU_scaffold42
Length = 116
Score = 89.7 bits (45), Expect = 3e-15
Identities = 45/45 (100%)
Strand = Plus / Plus
Query: 544 gagagccagtctgccccgaatctcttccccctcgtctcctgcgtc 588
|||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 72 gagagccagtctgccccgaatctcttccccctcgtctcctgcgtc 116
>gb|GL896198.1| Sus scrofa unplaced genomic scaffold chrU_scaffold562
Length = 35518
Score = 81.8 bits (41), Expect = 8e-13
Identities = 44/45 (97%)
Strand = Plus / Plus
Query: 1 gattcattttcaaagtaaacgtttaagagccgaggcattcctatc 45
||||||||||||||||||| |||||||||||||||||||||||||
Sbjct: 751 gattcattttcaaagtaaatgtttaagagccgaggcattcctatc 795
>gb|GL896545.1| Sus scrofa unplaced genomic scaffold chrU_scaffold875
Length = 2000
Score = 73.8 bits (37), Expect = 2e-10
Identities = 40/41 (97%)
Strand = Plus / Minus
Query: 548 gccagtctgccccgaatctcttccccctcgtctcctgcgtc 588
||||||||||||||| |||||||||||||||||||||||||
Sbjct: 41 gccagtctgccccgagtctcttccccctcgtctcctgcgtc 1
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: 27,030,546
Number of extensions: 171
Number of successful extensions: 171
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 171
Number of HSP's successfully gapped: 6
Length of query: 1152
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1131
Effective length of database: 2,808,413,156
Effective search space: 3176315279436
Effective search space used: 3176315279436
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)