Guides: Bioinformatics Tutorials: Sequences, Genomes, and Maps

Analysis Tools

Basic Local Alignment Search (BLAST)
Basic BLAST (nucleotide, protein or translated)
Specialized BLAST (primer, cluster sequence, similar etc.)
BLAST Link (BLink)
Use to search protein against other protein sequences at NCBI
COBALT
Compute multiple protein sequence alignments
Concise Microbial Protein BLAST
Search within all proteins from complete microbial genomes used in the protein cluster database
Conserved Domain Search Service (CD Search)
Locates conserved domains present in protein sequence (in Conserved Domain Database)
Electronic PCR (e-PCR)
e-PCR is retired. Use BLAST instead - link goes to blog post with more information
Gene Expression Omnibus Nucleotide Blast
Query sequence using accession numbers, gi(s) or FASTA sequences
Genome BLAST
Compares nucleotide or protein sequence to genomic sequence databases
Genome ProtMap
Search protein from a COG/VOG back to its genome
Sequence Viewer
Configurable graphical display of sequence
Splign
Compute cDNA-to-Genomic (spliced) sequence alignments
VecScreen
Screen a sequence for vector contamination

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