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-000851
(922 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_002702994.1| PREDICTED: ataxin 1-like [Bos taurus]. 114 9e-26
>ref|XP_002702994.1| PREDICTED: ataxin 1-like [Bos taurus].
Length = 357
Score = 114 bits (286), Expect = 9e-26
Identities = 70/133 (52%), Positives = 76/133 (57%)
Frame = +1
Query: 13 VAEPYRTCFTAGGSKTSPVXXXXXXXXXXDTVSXXXXXXXHATPDPFTLYSRSCSRSPGC 192
VAEPYRTCFTAGGSKTSPV DTVS HA DPFTLY + +SP C
Sbjct: 234 VAEPYRTCFTAGGSKTSPVEQQPELQQPQDTVSLPLPPLPHALKDPFTLYRGAGCKSPRC 293
Query: 193 PIQAADLSVIVGXXXXXXXXXXXSPLPRPRQGSVSHISILEHNGRVYFEASKVVLLQMRS 372
IQAADLSV+ G S PR GS + I LE N R Y EAS+ VLLQ +
Sbjct: 294 SIQAADLSVVFG---------QQSLPPRLLWGSPTPIGSLEQNERAYVEASQAVLLQTMN 344
Query: 373 KRESVDLSLQERS 411
KR DLSL ERS
Sbjct: 345 KRGGGDLSLHERS 357
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: 35,795,963
Number of extensions: 982520
Number of successful extensions: 2587
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 2584
Number of HSP's successfully gapped: 1
Length of query: 307
Length of database: 17,681,374
Length adjustment: 102
Effective length of query: 205
Effective length of database: 14,306,398
Effective search space: 2932811590
Effective search space used: 2932811590
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-000851
(922 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: 37,050,631
Number of extensions: 974232
Number of successful extensions: 2361
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2360
Number of HSP's successfully gapped: 0
Length of query: 307
Length of database: 18,874,504
Length adjustment: 102
Effective length of query: 205
Effective length of database: 15,474,232
Effective search space: 3172217560
Effective search space used: 3172217560
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-000851
(922 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: 36,517,793
Number of extensions: 968075
Number of successful extensions: 2487
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2481
Number of HSP's successfully gapped: 0
Length of query: 307
Length of database: 18,297,164
Length adjustment: 102
Effective length of query: 205
Effective length of database: 14,934,836
Effective search space: 3061641380
Effective search space used: 3061641380
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-000851
(922 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: 31,179,346
Number of extensions: 824850
Number of successful extensions: 2372
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2370
Number of HSP's successfully gapped: 0
Length of query: 307
Length of database: 15,617,559
Length adjustment: 101
Effective length of query: 206
Effective length of database: 12,583,923
Effective search space: 2592288138
Effective search space used: 2592288138
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-000851
(922 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_003356578.1| PREDICTED: hypothetical protein LOC100623695... 98 6e-21
>ref|XP_003356578.1| PREDICTED: hypothetical protein LOC100623695 [Sus scrofa].
Length = 150
Score = 98.2 bits (243), Expect = 6e-21
Identities = 50/62 (80%), Positives = 50/62 (80%)
Frame = +2
Query: 164 ADRAADRQGVPFKLQICLSSSXXXXXXXXXXXXPLFLVRGREVCLTSAFWSTMEEFILRL 343
ADRAADRQGVPFKLQICLSSS PLFLVRGREVCLTSAFWSTMEEFILRL
Sbjct: 89 ADRAADRQGVPFKLQICLSSSDGGGGGGGSGGGPLFLVRGREVCLTSAFWSTMEEFILRL 148
Query: 344 QK 349
QK
Sbjct: 149 QK 150
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: 23,288,559
Number of extensions: 669204
Number of successful extensions: 1663
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1663
Number of HSP's successfully gapped: 1
Length of query: 307
Length of database: 11,343,932
Length adjustment: 99
Effective length of query: 208
Effective length of database: 8,879,129
Effective search space: 1846858832
Effective search space used: 1846858832
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 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-000851
(922 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_Chr07 735 0.0
>Sscrofa_Chr07
|| Length = 134764511
Score = 735 bits (371), Expect = 0.0
Identities = 371/371 (100%)
Strand = Plus / Minus
Query: 552 tgcagttttccaaagaaattagtccgttgtctgggtgaagagaaacccgtctgctgtttc 611
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095746 tgcagttttccaaagaaattagtccgttgtctgggtgaagagaaacccgtctgctgtttc 13095687
Query: 612 cacagggtgagtctttgacccttttatgtatgtgttttactcacatgacttgatgagcgc 671
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095686 cacagggtgagtctttgacccttttatgtatgtgttttactcacatgacttgatgagcgc 13095627
Query: 672 gcattctctggatgttgtctttcacctggaaccaagatgtcctttctactcatcaagtct 731
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095626 gcattctctggatgttgtctttcacctggaaccaagatgtcctttctactcatcaagtct 13095567
Query: 732 ccccttctctttggagagaaaggttcccccttgtgttttcctgccatttcttttggcggt 791
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095566 ccccttctctttggagagaaaggttcccccttgtgttttcctgccatttcttttggcggt 13095507
Query: 792 ctgtaggttttgtgtcttctgagttggtaccaccattgctgtcgccttgttcagctggca 851
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095506 ctgtaggttttgtgtcttctgagttggtaccaccattgctgtcgccttgttcagctggca 13095447
Query: 852 gacggaatgagaggggaagtttctctttgtttagtggctgttgcacagaaacacggccgt 911
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13095446 gacggaatgagaggggaagtttctctttgtttagtggctgttgcacagaaacacggccgt 13095387
Query: 912 gggcaaggaga 922
|||||||||||
Sbjct: 13095386 gggcaaggaga 13095376
Score = 283 bits (143), Expect = 8e-74
Identities = 157/164 (95%)
Strand = Plus / Minus
Query: 1 atttctactacagtggcggagccgtacaggacctgtttcactgcagggggatccaaaaca 60
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13321839 atttctactacagtggcggagccgtacaggacctgtttcactgcagggggatccaaaaca 13321780
Query: 61 agccccgtggagcagcagccagagctacagcagccgcaagacactgtttctctccctctg 120
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13321779 agccccgtggagcagcagccagagctacagcagccgcaagacactgtttctctccctctg 13321720
Query: 121 nnnnnnnttccccacgcaaccccagatccatttacactttacag 164
|||||||||||||||||||||||||||||||||||||
Sbjct: 13321719 cccccccttccccacgcaaccccagatccatttacactttacag 13321676
Score = 260 bits (131), Expect = 1e-66
Identities = 131/131 (100%)
Strand = Plus / Minus
Query: 426 ggtctaggcattttacattgagtttctccactgcctccctttctgctcaagcaaaatctg 485
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13156104 ggtctaggcattttacattgagtttctccactgcctccctttctgctcaagcaaaatctg 13156045
Query: 486 tgcgaaaaagatctgctgggaaggaaccaactgcttgggattctccattgtgatgaaagc 545
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13156044 tgcgaaaaagatctgctgggaaggaaccaactgcttgggattctccattgtgatgaaagc 13155985
Query: 546 acgtggtgcag 556
|||||||||||
Sbjct: 13155984 acgtggtgcag 13155974
Score = 250 bits (126), Expect = 1e-63
Identities = 126/126 (100%)
Strand = Plus / Minus
Query: 303 cagcattctggagcacaatggaagagtttattttgaggcttcaaaagtagtgctgctaca 362
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13216139 cagcattctggagcacaatggaagagtttattttgaggcttcaaaagtagtgctgctaca 13216080
Query: 363 gatgaggagcaagagagaaagtgtggacctcagcctgcaggagcggtcttgaaagtgatc 422
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13216079 gatgaggagcaagagagaaagtgtggacctcagcctgcaggagcggtcttgaaagtgatc 13216020
Query: 423 ttgggt 428
||||||
Sbjct: 13216019 ttgggt 13216014
Score = 129 bits (65), Expect = 3e-27
Identities = 65/65 (100%)
Strand = Plus / Minus
Query: 164 gccgatcgtgcagcagatcgccagggtgtcccattcaagctgcagatttgtctgtcatcg 223
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13314490 gccgatcgtgcagcagatcgccagggtgtcccattcaagctgcagatttgtctgtcatcg 13314431
Query: 224 tcgga 228
|||||
Sbjct: 13314430 tcgga 13314426
Score = 87.7 bits (44), Expect = 1e-14
Identities = 44/44 (100%)
Strand = Plus / Minus
Query: 262 tcccctcttcctcgtccgcggcagggaagtgtgtctcacatcag 305
||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 13314392 tcccctcttcctcgtccgcggcagggaagtgtgtctcacatcag 13314349
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: 29,167,312
Number of extensions: 187
Number of successful extensions: 187
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 186
Number of HSP's successfully gapped: 6
Length of query: 922
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 901
Effective length of database: 2,808,413,156
Effective search space: 2530380253556
Effective search space used: 2530380253556
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)