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-014755
(1071 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: 41,552,892
Number of extensions: 1090265
Number of successful extensions: 2956
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2954
Number of HSP's successfully gapped: 0
Length of query: 357
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 253
Effective length of database: 15,407,560
Effective search space: 3898112680
Effective search space used: 3898112680
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)
Animal-Genome cDNA 20110601C-014755
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-014755
(1071 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: 39,918,544
Number of extensions: 1070385
Number of successful extensions: 2836
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2834
Number of HSP's successfully gapped: 0
Length of query: 357
Length of database: 17,681,374
Length adjustment: 103
Effective length of query: 254
Effective length of database: 14,273,310
Effective search space: 3625420740
Effective search space used: 3625420740
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-014755
(1071 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_003353963.1| PREDICTED: t-complex protein 11-like protein... 50 2e-06
>ref|XP_003353963.1| PREDICTED: t-complex protein 11-like protein 1-like [Sus scrofa].
Length = 269
Score = 50.1 bits (118), Expect = 2e-06
Identities = 26/51 (50%), Positives = 26/51 (50%)
Frame = +1
Query: 502 MRAGAAWRLRDILPVDXXXXXXXXXXXXXACGGNVXXXXXXXXXXXXVFTC 654
MRAGAAWRLRDILPVD ACGGNV VFTC
Sbjct: 1 MRAGAAWRLRDILPVDRPSSESRPQSSERACGGNVISSDICSRSCCSVFTC 51
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: 25,876,790
Number of extensions: 712328
Number of successful extensions: 1862
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 1861
Number of HSP's successfully gapped: 1
Length of query: 357
Length of database: 11,343,932
Length adjustment: 100
Effective length of query: 257
Effective length of database: 8,854,232
Effective search space: 2275537624
Effective search space used: 2275537624
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-014755
(1071 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: 34,544,445
Number of extensions: 896117
Number of successful extensions: 2283
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2283
Number of HSP's successfully gapped: 0
Length of query: 357
Length of database: 15,617,559
Length adjustment: 102
Effective length of query: 255
Effective length of database: 12,553,887
Effective search space: 3201241185
Effective search space used: 3201241185
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-014755
(1071 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: 40,666,288
Number of extensions: 1062782
Number of successful extensions: 2772
Number of sequences better than 1.0e-05: 0
Number of HSP's gapped: 2771
Number of HSP's successfully gapped: 0
Length of query: 357
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 253
Effective length of database: 14,868,908
Effective search space: 3761833724
Effective search space used: 3761833724
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 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-014755
(1071 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_Chr02 1760 0.0
Sscrofa_Chr01 295 3e-77
>Sscrofa_Chr02
|| Length = 162569375
Score = 1760 bits (888), Expect = 0.0
Identities = 965/992 (97%), Gaps = 4/992 (0%)
Strand = Plus / Plus
Query: 83 tgtaatataaaagaagatgcctgaagttgtcactgaaaaactcactctgttagaatacat 142
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30395921 tgtaatataaaagaagatgcctgaagttgtcactgaaaaactcactctgttagaatacat 30395980
Query: 143 aggtatattgattagatgtgaattccagaattggatttaagnnnnnnncagataaaatag 202
||||||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 30395981 aggtatattgattagatgtgaattccagaattggatttaagtttttttcagataaaatag 30396040
Query: 203 cctaagcctacatatttgttggataaggaagtcatagaaaatccctgggtttttgaaccg 262
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396041 cctaagcctacatatttgttggataaggaagtcatagaaaatccctgggtttttgaaccg 30396100
Query: 263 tatttactgaggaacttgggtgacaataattcctggcagatcctgtgactgaaaaggtcg 322
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396101 tatttactgaggaacttgggtgacaataattcctggcagatcctgtgactgaaaaggtcg 30396160
Query: 323 cttaggtctcgcaaatgacctgttctgctaaaaaataaaatgtgtgcacgtgcctgtgtg 382
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396161 cttaggtctcgcaaatgacctgttctgctaaaaaataaaatgtgtgcacgtgcctgtgtg 30396220
Query: 383 cgttttagacagggccatcaggatagaaacagagccatgacctaagttgtggggccatcg 442
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396221 cgttttagacagggccatcaggatagaaacagagccatgacctaagttgtggggccatcg 30396280
Query: 443 ctccaactgctaggacagcaaggggtgaaatcacacaaggaatcccttcactgaagctga 502
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396281 ctccaactgctaggacagcaaggggtgaaatcacacaaggaatcccttcactgaagctga 30396340
Query: 503 tgagggccggggcggcttggaggttgagagacatcctccccgtagaccgaccgtccagtg 562
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396341 tgagggccggggcggcttggaggttgagagacatcctccccgtagaccgaccgtccagtg 30396400
Query: 563 agagcaggccccagagcagtgagcgggcatgtggggggaatgtgatttcttcagatattt 622
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396401 agagcaggccccagagcagtgagcgggcatgtggggggaatgtgatttcttcagatattt 30396460
Query: 623 gctccagatcgtgctgtagtgtttttacctgcggtcagaaatgtacatgacatggttgga 682
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396461 gctccagatcgtgctgtagtgtttttacctgcggtcagaaatgtacatgacatggttgga 30396520
Query: 683 ggtcatatgatccaagttttaggctcaaggaccacaaaccttccctgatttctctgggag 742
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396521 ggtcatatgatccaagttttaggctcaaggaccacaaaccttccctgatttctctgggag 30396580
Query: 743 gggatgaaagttcaataagtagaacttttaaagaacagcttcacatctagtattcagtga 802
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396581 gggatgaaagttcaataagtagaacttttaaagaacagcttcacatctagtattcagtga 30396640
Query: 803 ggccacctctggaacagtctctggagataaggagccctggcagctgtgctccgggctcgt 862
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30396641 ggccacctctggaacagtctctggagataaggagccctggcagctgtgctccgggctcgt 30396700
Query: 863 agagaatgggcttccgggtgcagcgctcttg-ttttgcctcagcattgggtgcnnnnnnn 921
||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 30396701 agagaatgggcttccgggtgcagcgctcttgtttttgcctcagcattgggtgc-gggggg 30396759
Query: 922 agggtggtcccccaccctaccagcaacagggatgaaggggagaggagcttta-ccccact 980
||||||||||||||||||||||||||||||||||| |||||||||||||||| |||||||
Sbjct: 30396760 agggtggtcccccaccctaccagcaacagggatgagggggagaggagctttacccccact 30396819
Query: 981 gatgcaannnnnnntcacccgctcctacagcaaatatcctcaaaagctctttctgatttc 1040
|||||| ||||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 30396820 gatgcaggggggggtcacccgctcctacagcaattatcctcaaaagctctttctgatttc 30396879
Query: 1041 ttgtgtaaaagtt-actctcagtagatttttt 1071
||||||||||||| ||||||||||||||||||
Sbjct: 30396880 ttgtgtaaaagttaactctcagtagatttttt 30396911
Score = 111 bits (56), Expect = 8e-22
Identities = 56/56 (100%)
Strand = Plus / Plus
Query: 1 cttggggacctagagaaaggaaaattctgtgacttttatgccttgaaagtaaggaa 56
||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 30395839 cttggggacctagagaaaggaaaattctgtgacttttatgccttgaaagtaaggaa 30395894
>Sscrofa_Chr01
|| Length = 315321322
Score = 295 bits (149), Expect = 3e-77
Identities = 262/296 (88%), Gaps = 8/296 (2%)
Strand = Plus / Plus
Query: 83 tgtaatataaaagaaga----tgcctgaagttgtcactgaaaaactcactctgttagaat 138
||||||||||||||||| || |||||||| ||||||||||| ||||||||||| |||
Sbjct: 126820201 tgtaatataaaagaagacagatgtctgaagttctcactgaaaaattcactctgttacaat 126820260
Query: 139 acataggtatattgattagatgtgaattccagaattggatttaagnnnnnnncagataaa 198
||| || ||| |||||||||| ||||||||||||||||||||||| ||||||||
Sbjct: 126820261 acagagatatgttgattagatttgaattccagaattggatttaagtgtttt-cagataaa 126820319
Query: 199 atagcctaagcctacatatttgttggataaggaagtcatagaaaatccctgggtttttga 258
|||| |||||||||| |||||||||||||||||||||||||||||||| ||| ||||| |
Sbjct: 126820320 atagtctaagcctacttatttgttggataaggaagtcatagaaaatccttggattttt-a 126820378
Query: 259 accgtatttactgaggaacttgggtgacaataattcctggcagatcctgtgactgaaaag 318
|| ||||| |||||||||||| ||||||| ||||||||||| |||||||||||||||||
Sbjct: 126820379 acagtatt-actgaggaacttcagtgacaagaattcctggcatatcctgtgactgaaaag 126820437
Query: 319 gtcgcttaggtctcgcaaatgacctgttctgct-aaaaaataaaatgtgtgcacgt 373
|| ||||||||||| || ||||||||||||||| ||||||||||||||||||||||
Sbjct: 126820438 gtagcttaggtctcacagatgacctgttctgctaaaaaaataaaatgtgtgcacgt 126820493
Score = 77.8 bits (39), Expect = 1e-11
Identities = 45/47 (95%)
Strand = Plus / Plus
Query: 9 cctagagaaaggaaaattctgtgacttttatgccttgaaagtaagga 55
|||||||||||||||||||| ||||||||||| ||||||||||||||
Sbjct: 126820127 cctagagaaaggaaaattctatgacttttatgtcttgaaagtaagga 126820173
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: 33,834,351
Number of extensions: 220
Number of successful extensions: 220
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 216
Number of HSP's successfully gapped: 7
Length of query: 1071
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1050
Effective length of database: 2,808,413,156
Effective search space: 2948833813800
Effective search space used: 2948833813800
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)