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-012882
(1001 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|XP_002700476.1| PREDICTED: hypothetical protein [Bos taurus]. 79 5e-15
Alignment gi|XP_611572.5| PREDICTED: hypothetical protein, partial [Bos t... 77 2e-14
>ref|XP_002700476.1| PREDICTED: hypothetical protein [Bos taurus].
Length = 689
Score = 79.3 bits (194), Expect = 5e-15
Identities = 60/170 (35%), Positives = 67/170 (39%), Gaps = 2/170 (1%)
Frame = +1
Query: 88 MASWRGLFGLTFLCLLMRGRGQ-GDFDLADALDDPEPTXXXXXXXXXXXXXXXXXXXXXX 264
M +WRGL LT LC+L+ RG+ GDFDLADALDDP+PT
Sbjct: 174 MEAWRGLSCLTLLCVLLHVRGENGDFDLADALDDPKPTKKPSSGIYPNPRPPYQPQPGNP 233
Query: 265 XNSGDIXXXXXXXXXXXXXXXXXXXDVYXXXXXXXXXXXXXGSYDNSGGFLNDRDLND-G 441
N GDI NSGGFL+D DL D G
Sbjct: 234 NNGGDIYPRTKPPPPRPQP-------------------------GNSGGFLSDSDLIDGG 268
Query: 442 RYXXXXXXXAGXXXXXXXXXXYHPSHSGYGNPSGGGRYRPGSHGSNYGGG 591
RY G + P H GYG GGR PG G NYGGG
Sbjct: 269 RYPPRRPAGGG-------GGGFQPGHDGYGR---GGRNIPGLPGINYGGG 308
>ref|XP_611572.5| PREDICTED: hypothetical protein, partial [Bos taurus].
Length = 445
Score = 77.4 bits (189), Expect = 2e-14
Identities = 59/170 (34%), Positives = 67/170 (39%), Gaps = 2/170 (1%)
Frame = +1
Query: 88 MASWRGLFGLTFLCLLMRGRGQ-GDFDLADALDDPEPTXXXXXXXXXXXXXXXXXXXXXX 264
M +WRGL LT LC+L+ RG+ GDFDLADALDDP+PT
Sbjct: 253 MEAWRGLSCLTLLCVLLHVRGENGDFDLADALDDPKPTKKPSSGIYPNPRPPYQPQPGNP 312
Query: 265 XNSGDIXXXXXXXXXXXXXXXXXXXDVYXXXXXXXXXXXXXGSYDNSGGFLNDRDLND-G 441
N G+I NSGGFL+D DL D G
Sbjct: 313 NNGGNIYPRTKPPPPRPQP-------------------------GNSGGFLSDSDLIDGG 347
Query: 442 RYXXXXXXXAGXXXXXXXXXXYHPSHSGYGNPSGGGRYRPGSHGSNYGGG 591
RY G + P H GYG GGR PG G NYGGG
Sbjct: 348 RYPPRRPAGGG-------GGGFQPGHDGYGR---GGRNIPGLPGINYGGG 387
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: 34,871,850
Number of extensions: 945573
Number of successful extensions: 4331
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 4246
Number of HSP's successfully gapped: 4
Length of query: 333
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 230
Effective length of database: 14,273,310
Effective search space: 3282861300
Effective search space used: 3282861300
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-012882
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-012882
(1001 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: 36,475,389
Number of extensions: 965691
Number of successful extensions: 5233
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 5016
Number of HSP's successfully gapped: 0
Length of query: 333
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 230
Effective length of database: 15,440,896
Effective search space: 3551406080
Effective search space used: 3551406080
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-012882
(1001 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
***** No hits found ******
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: 22,815,389
Number of extensions: 646701
Number of successful extensions: 2928
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2865
Number of HSP's successfully gapped: 0
Length of query: 333
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 234
Effective length of database: 8,879,129
Effective search space: 2077716186
Effective search space used: 2077716186
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-012882
(1001 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: 29,694,814
Number of extensions: 762797
Number of successful extensions: 3618
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3491
Number of HSP's successfully gapped: 0
Length of query: 333
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 231
Effective length of database: 12,553,887
Effective search space: 2899947897
Effective search space used: 2899947897
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-012882
(1001 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_001135391.1| glycoprotein Xg isoform 2 precursor [Homo sa... 110 2e-24
Alignment gi|NP_780778.1| glycoprotein Xg isoform 1 precursor [Homo sapie... 103 2e-22
Alignment gi|NP_001135392.1| glycoprotein Xg isoform 3 precursor [Homo sa... 99 5e-21
>ref|NP_001135391.1| glycoprotein Xg isoform 2 precursor [Homo sapiens].
Length = 195
Score = 110 bits (276), Expect = 2e-24
Identities = 76/222 (34%), Positives = 91/222 (40%), Gaps = 1/222 (0%)
Frame = +1
Query: 88 MASWRGLFGLTFLCLLMRGRGQGDFDLADALDDPEPTXXXXXXXXXXXXXXXXXXXXXXX 267
M SW GL L FLC LM RGQ DFDLADALDDPEPT
Sbjct: 1 MESWWGLPCLAFLCFLMHARGQRDFDLADALDDPEPTKKP-------------------- 40
Query: 268 NSGDIXXXXXXXXXXXXXXXXXXXDVYXXXXXXXXXXXXXGSYDNSGGFLNDRDLNDGRY 447
+ DI ++Y G+ NSGG+ ND D +DGRY
Sbjct: 41 -NSDIYPKPKPPYYPQPENPDSGGNIYPRPKPRPQPQP--GNSGNSGGYFNDVDRDDGRY 97
Query: 448 XXXXXXXAGXXXXXXXXXXYHPSHSGYGNPSGGGRYRPGS-HGSNYGGGDYSTYGNPQGN 624
+ S+ N G G YR S +G+ YGG +STYGNP+GN
Sbjct: 98 PPRPRPRPPAGGGGGG----YSSYGNSDNTHGRGGYRLNSRYGNTYGGDHHSTYGNPEGN 153
Query: 625 TXXXXXXXXXXXXXXXXXXXXXXYFQYNRRRNCFRTNEPQNV 750
YF+ N RRNCFRT+EP+NV
Sbjct: 154 MVAKIVSPIVSVVVVTLLGAAASYFKLNNRRNCFRTHEPENV 195
>ref|NP_780778.1| glycoprotein Xg isoform 1 precursor [Homo sapiens].
Length = 180
Score = 103 bits (258), Expect = 2e-22
Identities = 72/221 (32%), Positives = 86/221 (38%)
Frame = +1
Query: 88 MASWRGLFGLTFLCLLMRGRGQGDFDLADALDDPEPTXXXXXXXXXXXXXXXXXXXXXXX 267
M SW GL L FLC LM RGQ DFDLADALDDPEPT
Sbjct: 1 MESWWGLPCLAFLCFLMHARGQRDFDLADALDDPEPTKKP-------------------- 40
Query: 268 NSGDIXXXXXXXXXXXXXXXXXXXDVYXXXXXXXXXXXXXGSYDNSGGFLNDRDLNDGRY 447
+ DI ++Y G+ NSGG+ ND D +DGRY
Sbjct: 41 -NSDIYPKPKPPYYPQPENPDSGGNIYPRPKPRPQPQP--GNSGNSGGYFNDVDRDDGRY 97
Query: 448 XXXXXXXAGXXXXXXXXXXYHPSHSGYGNPSGGGRYRPGSHGSNYGGGDYSTYGNPQGNT 627
P GGG G+ + +GG +STYGNP+GN
Sbjct: 98 PP------------------RPRPRPPAGGGGGGYSSYGNSDNTHGGDHHSTYGNPEGNM 139
Query: 628 XXXXXXXXXXXXXXXXXXXXXXYFQYNRRRNCFRTNEPQNV 750
YF+ N RRNCFRT+EP+NV
Sbjct: 140 VAKIVSPIVSVVVVTLLGAAASYFKLNNRRNCFRTHEPENV 180
>ref|NP_001135392.1| glycoprotein Xg isoform 3 precursor [Homo sapiens].
Length = 181
Score = 99.4 bits (246), Expect = 5e-21
Identities = 72/222 (32%), Positives = 86/222 (38%), Gaps = 1/222 (0%)
Frame = +1
Query: 88 MASWRGLFGLTFLCLLMRGRGQGDFDLADALDDPEPTXXXXXXXXXXXXXXXXXXXXXXX 267
M SW GL L FLC LM RGQ DFDLADALDDPEPT
Sbjct: 1 MESWWGLPCLAFLCFLMHARGQRDFDLADALDDPEPTKKP-------------------- 40
Query: 268 NSGDIXXXXXXXXXXXXXXXXXXXDVYXXXXXXXXXXXXXGSYDNSGG-FLNDRDLNDGR 444
+ DI ++Y G+ NSGG + ND D +DGR
Sbjct: 41 -NSDIYPKPKPPYYPQPENPDSGGNIYPRPKPRPQPQP--GNSGNSGGSYFNDVDRDDGR 97
Query: 445 YXXXXXXXAGXXXXXXXXXXYHPSHSGYGNPSGGGRYRPGSHGSNYGGGDYSTYGNPQGN 624
Y P GGG G+ + +GG +STYGNP+GN
Sbjct: 98 YPP------------------RPRPRPPAGGGGGGYSSYGNSDNTHGGDHHSTYGNPEGN 139
Query: 625 TXXXXXXXXXXXXXXXXXXXXXXYFQYNRRRNCFRTNEPQNV 750
YF+ N RRNCFRT+EP+NV
Sbjct: 140 MVAKIVSPIVSVVVVTLLGAAASYFKLNNRRNCFRTHEPENV 181
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: 35,437,925
Number of extensions: 928204
Number of successful extensions: 4176
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4070
Number of HSP's successfully gapped: 6
Length of query: 333
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 230
Effective length of database: 14,901,872
Effective search space: 3427430560
Effective search space used: 3427430560
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-012882
(1001 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|GL896481.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 291 4e-76
gb|GL896159.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 236 2e-59
gb|GL895194.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 131 8e-28
gb|GL895990.1| Sus scrofa unplaced genomic scaffold chrU_scaffol... 121 8e-25
gb|GL896506.1| Sus scrofa unplaced genomic scaffold chrU_scaffold84 88 1e-14
>gb|GL896481.1| Sus scrofa unplaced genomic scaffold chrU_scaffold817
Length = 3288
Score = 291 bits (147), Expect = 4e-76
Identities = 156/159 (98%)
Strand = Plus / Plus
Query: 839 gacagtccctttcattcttggcttaacctgtggccctggaggggtttctcttcaacgtgc 898
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1370 gacagtccctttcattcttggcttaacctgtggccctggaggggtttctcttcaacgtgc 1429
Query: 899 tgcctgtcaaccaattcttgactcctcggacacatcgcctggagtaaggtaaacagccgg 958
||||||||||||||||| ||||||||||||||| ||||||||||||||||| ||||||||
Sbjct: 1430 tgcctgtcaaccaattcctgactcctcggacacgtcgcctggagtaaggtagacagccgg 1489
Query: 959 accttggcttgtaaaaagattgcttgatgcattggcctc 997
|||||||||||||||||||||||||||||||||||||||
Sbjct: 1490 accttggcttgtaaaaagattgcttgatgcattggcctc 1528
Score = 119 bits (60), Expect = 3e-24
Identities = 66/68 (97%)
Strand = Plus / Plus
Query: 736 gagccacagaacgtctgaggtcttcgcaactccccggatcacgctgaggaaagctccaga 795
|||||||||||||||||||||||||||||||||| ||||||| |||||||||||||||||
Sbjct: 1202 gagccacagaacgtctgaggtcttcgcaactccctggatcaccctgaggaaagctccaga 1261
Query: 796 cagacagg 803
||||||||
Sbjct: 1262 cagacagg 1269
>gb|GL896159.1| Sus scrofa unplaced genomic scaffold chrU_scaffold527
Length = 5030
Score = 236 bits (119), Expect = 2e-59
Identities = 119/119 (100%)
Strand = Plus / Minus
Query: 618 aggcaacacgatagcgaaaatcgtttctcccatagtgtccgtggtggtggtgacgctggt 677
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 521 aggcaacacgatagcgaaaatcgtttctcccatagtgtccgtggtggtggtgacgctggt 462
Query: 678 gggggcggcggccagctatttccagtataaccggaggaggaactgtttccggacaaatg 736
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 461 gggggcggcggccagctatttccagtataaccggaggaggaactgtttccggacaaatg 403
Score = 75.8 bits (38), Expect = 4e-11
Identities = 38/38 (100%)
Strand = Plus / Minus
Query: 583 ggtgggggcgactactccacgtacgggaacccacaagg 620
||||||||||||||||||||||||||||||||||||||
Sbjct: 2866 ggtgggggcgactactccacgtacgggaacccacaagg 2829
Score = 73.8 bits (37), Expect = 2e-10
Identities = 43/45 (95%)
Strand = Plus / Minus
Query: 541 ggaggagggcggtacagacctggctcccatgggagtaattacggt 585
|||||||||||||||||||||||| | ||||||||||||||||||
Sbjct: 4043 ggaggagggcggtacagacctggcccacatgggagtaattacggt 3999
>gb|GL895194.1| Sus scrofa unplaced genomic scaffold chrU_scaffold3784
Length = 3973
Score = 131 bits (66), Expect = 8e-28
Identities = 66/66 (100%)
Strand = Plus / Minus
Query: 408 aggtttcctgaatgacagggacctcaatgacggccgatacccgcccaggcccaggccgcc 467
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 3729 aggtttcctgaatgacagggacctcaatgacggccgatacccgcccaggcccaggccgcc 3670
Query: 468 tgcagg 473
||||||
Sbjct: 3669 tgcagg 3664
>gb|GL895990.1| Sus scrofa unplaced genomic scaffold chrU_scaffold450
Length = 1230
Score = 121 bits (61), Expect = 8e-25
Identities = 61/61 (100%)
Strand = Plus / Minus
Query: 351 ctacccaaggccaaagccccctgttcacccgcagcctggctcctatgacaacagcggagg 410
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 331 ctacccaaggccaaagccccctgttcacccgcagcctggctcctatgacaacagcggagg 272
Query: 411 t 411
|
Sbjct: 271 t 271
>gb|GL896506.1| Sus scrofa unplaced genomic scaffold chrU_scaffold84
Length = 135
Score = 87.7 bits (44), Expect = 1e-14
Identities = 58/65 (89%)
Strand = Plus / Minus
Query: 276 agacatctacccaaggccgaagccgccctatnnnnnnnggcctggacatcctggcaacgg 335
||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 124 agacatctacccaaggccgaagccgccctatcccccccggcctggacatcctggcaacgg 65
Query: 336 cggag 340
|||||
Sbjct: 64 cggag 60
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: 19,218,072
Number of extensions: 118
Number of successful extensions: 118
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 117
Number of HSP's successfully gapped: 8
Length of query: 1001
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 980
Effective length of database: 2,808,413,156
Effective search space: 2752244892880
Effective search space used: 2752244892880
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)