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-003868
(1011 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: 35,875,926
Number of extensions: 968240
Number of successful extensions: 3188
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3179
Number of HSP's successfully gapped: 0
Length of query: 337
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 234
Effective length of database: 14,273,310
Effective search space: 3339954540
Effective search space used: 3339954540
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 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-003868
(1011 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: 37,215,598
Number of extensions: 948648
Number of successful extensions: 3287
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3281
Number of HSP's successfully gapped: 0
Length of query: 337
Length of database: 18,874,504
Length adjustment: 103
Effective length of query: 234
Effective length of database: 15,440,896
Effective search space: 3613169664
Effective search space used: 3613169664
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-003868
(1011 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: 36,419,623
Number of extensions: 925492
Number of successful extensions: 3004
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 3000
Number of HSP's successfully gapped: 0
Length of query: 337
Length of database: 18,297,164
Length adjustment: 103
Effective length of query: 234
Effective length of database: 14,901,872
Effective search space: 3487038048
Effective search space used: 3487038048
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-003868
(1011 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: 30,669,379
Number of extensions: 765814
Number of successful extensions: 2507
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2505
Number of HSP's successfully gapped: 0
Length of query: 337
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 235
Effective length of database: 12,553,887
Effective search space: 2950163445
Effective search space used: 2950163445
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-003868
(1011 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_003128168.2| PREDICTED: zinc finger protein 850-like [Sus... 92 6e-19
>ref|XP_003128168.2| PREDICTED: zinc finger protein 850-like [Sus scrofa].
Length = 848
Score = 91.7 bits (226), Expect = 6e-19
Identities = 56/103 (54%), Positives = 56/103 (54%), Gaps = 2/103 (1%)
Frame = +3
Query: 60 RNGGVLTEKVQEEALSPRPRDXXXXXXXXXXXXXTGLCHPQGSDGSGAEXXXXXXXXXXX 239
RNGGVLTEKVQEEALSPRPRD TGLCHPQGSDGSGAE
Sbjct: 65 RNGGVLTEKVQEEALSPRPRDPAGVPASASSPAATGLCHPQGSDGSGAE----------- 113
Query: 240 XXXXXXXDTKG*VRGACSRACGP--GPGVQNREAVLGAARFLK 362
GP GPGVQNREAVLGAARFLK
Sbjct: 114 ---------------------GPVSGPGVQNREAVLGAARFLK 135
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: 23,646,738
Number of extensions: 697907
Number of successful extensions: 2078
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2068
Number of HSP's successfully gapped: 2
Length of query: 337
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 237
Effective length of database: 8,854,232
Effective search space: 2098452984
Effective search space used: 2098452984
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-003868
(1011 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_Chr06 1225 0.0
gb|GL894076.2| Sus scrofa unplaced genomic scaffold ChrUScaf1960 60 2e-06
>Sscrofa_Chr06
|| Length = 157765593
Score = 1225 bits (618), Expect = 0.0
Identities = 632/634 (99%), Gaps = 2/634 (0%)
Strand = Plus / Minus
Query: 3 atctgctcaagccgccattccaactactctgggtatgttctggctccgctgcggtagcgg 62
||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 57054546 atctgctcaagccgccattccaactactctgggtatgttctggctccgctgcg-tagcgg 57054488
Query: 63 aacggaggtgtcttgacggagaaggttcaggaggaggcgctgtccccgaggccccgcgac 122
||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054487 aacggaggtgtct-gacggagaaggttcaggaggaggcgctgtccccgaggccccgcgac 57054429
Query: 123 cccgccggggtgcccgcgtccgcctcctcgcccgccgctactggcctgtgtcacccacaa 182
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054428 cccgccggggtgcccgcgtccgcctcctcgcccgccgctactggcctgtgtcacccacaa 57054369
Query: 183 gggtccgatggcagcggtgctgaaggacccgtctcaggtaaacgctcgtcctcaggccct 242
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054368 gggtccgatggcagcggtgctgaaggacccgtctcaggtaaacgctcgtcctcaggccct 57054309
Query: 243 ccccgccctcccctaccagacactaaaggctgagtgcggggcgcctgctcccgtgcttgc 302
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054308 ccccgccctcccctaccagacactaaaggctgagtgcggggcgcctgctcccgtgcttgc 57054249
Query: 303 ggcccaggccccggtgtccagaaccgcgaggcggtcttgggtgccgcccggtttctgaag 362
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054248 ggcccaggccccggtgtccagaaccgcgaggcggtcttgggtgccgcccggtttctgaag 57054189
Query: 363 gcggtgtgatggcgcgtgggagaggctgcaggggaaggggctggtcggtgtaaaggcttg 422
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054188 gcggtgtgatggcgcgtgggagaggctgcaggggaaggggctggtcggtgtaaaggcttg 57054129
Query: 423 gaggtgcgactgggacgggaggatccgggaaacctggggtccatctgatgtctgcaggaa 482
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054128 gaggtgcgactgggacgggaggatccgggaaacctggggtccatctgatgtctgcaggaa 57054069
Query: 483 acagagtgaggaggagtggctgtttatttttctgagggacttggaggccttgaaggttag 542
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054068 acagagtgaggaggagtggctgtttatttttctgagggacttggaggccttgaaggttag 57054009
Query: 543 tgtcagaagaaggacacgttacatgttagggttttaaaagttaccaaaatgctgctggga 602
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57054008 tgtcagaagaaggacacgttacatgttagggttttaaaagttaccaaaatgctgctggga 57053949
Query: 603 aacggagcggcctggagggtgcgtattaggcaca 636
||||||||||||||||||||||||||||||||||
Sbjct: 57053948 aacggagcggcctggagggtgcgtattaggcaca 57053915
Score = 585 bits (295), Expect = e-164
Identities = 313/318 (98%), Gaps = 1/318 (0%)
Strand = Plus / Minus
Query: 693 ctctgaagagattagtcagttaaaccgtggtcaccaggtttcaggggtggatgggattac 752
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57053858 ctctgaagagattagtcagttaaaccgtggtcaccaggtttcaggggtggatgggattac 57053799
Query: 753 acggaagtcctgcacccaaggagcccagccatggttgccttccccttcccacaggttctg 812
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57053798 acggaagtcctgcacccaaggagcccagccatggttgccttccccttcccacaggttctg 57053739
Query: 813 acggttgaaaaagcacttagggatcttaaaaaaggcaggagagggtgacccagtgcctca 872
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 57053738 acggttgaaaaagcacttagggatcttaaaaaaggcaggagagggtgacccagtgcctca 57053679
Query: 873 ctgagtattatggtgtcttgagacccttcctttgatacagtcttagctcttgaatatggg 932
|||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 57053678 ctgagtattatggtgtcttgagacccttcctttgatacagtcttagctcttggatatggg 57053619
Query: 933 ggccctgagggtatccntcagctctgagtgcagga-aagggtaagtagaggtgttcccat 991
|||||||||||||||| |||||||||||||||| ||||||||||||||||||||||||
Sbjct: 57053618 ggccctgagggtatcctcaagctctgagtgcaggacaagggtaagtagaggtgttcccat 57053559
Query: 992 tcccgacaaccagtatca 1009
||||||||||||||||||
Sbjct: 57053558 tcccgacaaccagtatca 57053541
Score = 159 bits (80), Expect = 4e-36
Identities = 169/196 (86%), Gaps = 2/196 (1%)
Strand = Plus / Plus
Query: 201 gctgaaggacccgtctcaggtaaacgctcgtcctcaggccctccccgccctcccctacca 260
||||| |||| || |||||||||||||| |||| ||||||||||||||||||||| ||||
Sbjct: 57220334 gctgagggactcgcctcaggtaaacgctggtccccaggccctccccgccctcccccacca 57220393
Query: 261 gacactaaag-gctgagtgcggggcgcctgctcccgtgcttgcggcccaggccccggtgt 319
||| |||||| | |||||||||||||||||||||| || ||| ||||||||||||| |
Sbjct: 57220394 gaccctaaagtcccgagtgcggggcgcctgctcccgggcctgcagcccaggccccggggc 57220453
Query: 320 ccagaaccgcgaggcggtcttgggtgccgcccggtttctgaagg-cggtgtgatggcgcg 378
||||||| |||||||| | |||||| |||| | || ||| || ||||||| |||||||
Sbjct: 57220454 ccagaacgccgaggcggccgtgggtggggccctgattgtgacggacggtgtgctggcgcg 57220513
Query: 379 tgggagaggctgcagg 394
||||||||||||||||
Sbjct: 57220514 tgggagaggctgcagg 57220529
Score = 137 bits (69), Expect = 1e-29
Identities = 164/193 (84%), Gaps = 2/193 (1%)
Strand = Plus / Plus
Query: 207 ggacccgtctcaggtaaacgctcgtcctcaggccctccccgccctcccctaccagacact 266
||||||| ||||||||| |||||||| ||||||||||||||||||||| |||||||||
Sbjct: 57094826 ggacccgcttcaggtaaatgctcgtccgcaggccctccccgccctcccccgccagacact 57094885
Query: 267 aaag-gctgagtgcggggcgcctgctcccgtgcttgcggcccaggccccggtgtccagaa 325
||| | ||||||||||||||||||||||||| ||| |||| |||||||||||| ||
Sbjct: 57094886 gaagccccgagtgcggggcgcctgctcccgtgcctgcagcccgggccccggtgtctaggg 57094945
Query: 326 ccgcgaggcggtcttgggtgccgcccggtttctgaagg-cggtgtgatggcgcgtgggag 384
| | | ||| |||||||||| | | ||||||| || |||||||||||||||||||||
Sbjct: 57094946 cggtggggccgtcttgggtggggtcttatttctgacggacggtgtgatggcgcgtgggag 57095005
Query: 385 aggctgcagggga 397
||||| |||||||
Sbjct: 57095006 aggctacagggga 57095018
Score = 101 bits (51), Expect = 7e-19
Identities = 113/131 (86%), Gaps = 2/131 (1%)
Strand = Plus / Plus
Query: 197 cggtgctgaaggacccgtctcaggtaaacgctcgtcctcaggccctccccgccctc-ccc 255
|||||||| ||||||| |||||||||| |||||||||||||| ||||||||||| |||
Sbjct: 57167395 cggtgctgtgggacccgcctcaggtaaatactcgtcctcaggccttccccgccctcaccc 57167454
Query: 256 taccagacactaaag-gctgagtgcggggcgcctgctcccgtgcttgcggcccaggcccc 314
| |||||||| ||| | ||||||||||||||||||||||||| ||| || ||| ||||
Sbjct: 57167455 caacagacactgaagccccgagtgcggggcgcctgctcccgtgcctgcagcacagacccc 57167514
Query: 315 ggtgtccagaa 325
||||||||||
Sbjct: 57167515 agtgtccagaa 57167525
Score = 91.7 bits (46), Expect = 7e-16
Identities = 148/178 (83%), Gaps = 3/178 (1%)
Strand = Plus / Plus
Query: 309 ggccccggtgtccagaaccgcgaggcggtcttgggtgccgcccggtttctgaagg-cggt 367
|||||||| |||||| || ||||||||||| |||||||||||| |||| || || ||||
Sbjct: 57195382 ggccccggagtccaggacggcgaggcggtcgtgggtgccgccctatttc-gacggacggt 57195440
Query: 368 gtgatggcgcgtgggagaggctgcaggggaaggggctggtcggtgtaaaggcttggaggt 427
|||| ||||||||||||||| | |||||| |||| | | |||| ||||||| ||||||
Sbjct: 57195441 gtgacggcgcgtgggagagggtacagggg-agggacccgcaggtgcaaaggctcggaggt 57195499
Query: 428 gcgactgggacgggaggatccgggaaacctggggtccatctgatgtctgcaggaaaca 485
| ||| | | |||||| |||||||||||||| ||||| |||||||||||||||||
Sbjct: 57195500 caggctgagccccgaggattcgggaaacctggggcccatcagatgtctgcaggaaaca 57195557
Score = 77.8 bits (39), Expect = 1e-11
Identities = 77/87 (88%), Gaps = 2/87 (2%)
Strand = Plus / Minus
Query: 206 aggacccgtctcaggtaaacgctcgtcctcaggccctccccgccct-cccctaccagaca 264
|||||||| ||||||||||||| ||||||||||||||| |||||| |||| ||| ||||
Sbjct: 57264484 aggacccgcctcaggtaaacgcctgtcctcaggccctcctcgccctccccccaccggaca 57264425
Query: 265 ctaaag-gctgagtgcggggcgcctgc 290
|||||| | |||||||||||||||||
Sbjct: 57264424 ctaaagccccgagtgcggggcgcctgc 57264398
Score = 71.9 bits (36), Expect = 6e-10
Identities = 45/48 (93%)
Strand = Plus / Plus
Query: 216 tcaggtaaacgctcgtcctcaggccctccccgccctcccctaccagac 263
|||||||||||||||||| ||||||||||||||||||| | |||||||
Sbjct: 57195300 tcaggtaaacgctcgtccgcaggccctccccgccctccgccaccagac 57195347
Score = 63.9 bits (32), Expect = 2e-07
Identities = 47/52 (90%)
Strand = Plus / Plus
Query: 774 agcccagccatggttgccttccccttcccacaggttctgacggttgaaaaag 825
||||||||||||| |||||||| ||||||| | ||||||| |||||||||||
Sbjct: 56942146 agcccagccatggctgccttcctcttcccatatgttctgaaggttgaaaaag 56942197
Score = 61.9 bits (31), Expect = 6e-07
Identities = 37/39 (94%)
Strand = Plus / Minus
Query: 441 gaggatccgggaaacctggggtccatctgatgtctgcag 479
|||||| |||||||||||||| |||||||||||||||||
Sbjct: 57084150 gaggattcgggaaacctggggcccatctgatgtctgcag 57084112
>gb|GL894076.2| Sus scrofa unplaced genomic scaffold ChrUScaf1960
Length = 31077
Score = 60.0 bits (30), Expect = 2e-06
Identities = 33/34 (97%)
Strand = Plus / Plus
Query: 364 cggtgtgatggcgcgtgggagaggctgcagggga 397
|||||||||||||||||||||||||| |||||||
Sbjct: 47 cggtgtgatggcgcgtgggagaggctacagggga 80
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: 24,129,718
Number of extensions: 175
Number of successful extensions: 175
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 167
Number of HSP's successfully gapped: 13
Length of query: 1011
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 990
Effective length of database: 2,808,413,156
Effective search space: 2780329024440
Effective search space used: 2780329024440
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)