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>> Blast Searches
1. Blast Parameters (Optional)
Filter
Low complexity (default).
Mask (lookup table only)
Expect
0.0001
0.01
1
10
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1000
Matrix
PAM30
PAM70
BLOSUM80
BLOSUM62
BLOSUM45
Frame shift penalty
6
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1000
No OOF
Perform ungapped alignment
Genetic Codes
Standard (1)
Vertebrate Mitochond.(2)
Yeast Mitochond. (3)
Mold Mitochond.; ... (4)
Invertebrate Mitochond. (5)
Ciliate Nuclear; ... (6)
Echinoderm Mitochond. (9)
Euplotid Nuclear (10)
Bacterial (11)
Alternative Yeast Nuc. (12)
Ascidian Mitochond (13)
Flatworm Mitochond (14)
Blepharisma Macronuc (15)
Other advanced options:
Alignment view
Pairwise
master-slave identities
master-slave no identities
flat master-slave identities
flat master-slave no identities
BLAST XML
Hit Table
Descriptions
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Alignments
0
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2. Enter your sequence/s in
FASTA
format
Paste you sequence below
Or Upload it from disk
3. Select a
Database
NR, non redundant database from Genbank (protein)
NT, non rendundat database from Genbank (DNA)
Swissprot (protein)
PATAA, database of patented sequences (protein)
HVT, all human virtual transcripts (protein)
HVT, human virtual transcripts predicted by genscan (protein)
HVT, recently added (not annotated) human virtual transcripts (protein)
HVT, human virtual transcripts predicted by genscan (DNA)
MVT, mouse virtual transcripts predicted by genscan (protein)
MVT, recently added (not annotated) mouse virtual transcripts (protein)
MVT, mouse virtual transcripts predicted by genscan (DNA)
PATNT, patented DNA sequences (DNA)
HLA_AA, Human Lymphocyte Antigen database (protein)
HLA_NT, Human Lymphocyte Antigen database (DNA)
TRAJ, J gene segments of TCR (protein)
Human unigene database, one gene, one sequence (DNA)
Mouse unigene database, one gene, one sequence (DNA)
ImMunoGeneTics Database (IMGT): IG, TCRs, and MHC sequences (DNA)
HTG, High Throughput Genomic Sequences (DNA)
PDB, sequences of known structure (protein)
4. Choose a
Program
and Execute
BLASTN, DNA query versus DNA database
BLASTP, protein query versus protein database
BLASTX, translated nucleotide query versus protein database
TBLASTN, protein query versus traslated DNA database
TBLASTX, traslated DNA query versus translated DNA database
Hits since June/2002
Last updated:
MIF Bioinformatics
|
Molecular Immunology Foundation
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