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Long PCR- Handles sequences up to 50 KB.

Algorithm- Calculates Tm using Breslauer values.

Multiple sequence alignment- Use the popular Clustal W algorithm to align sequences from your desktop (available in Windows version only).

Clustal W alignments- Load the aligned sequences after performing ClustalW alignment using any resource, including EBI.

Restriction enzyme and motif analysis- Select from the database of over 800 enzymes and 200 common motifs.

Nested/multiplex- Checking homology among multiple candidate oligos.

Degenerate- Start with an amino acid sequence, reverse translate and design oligos in regions of low degeneracy automatically.

Allele specific- Exclusively amplify a single member of a set of related sequences.

Pathogenic detection- Locate oligos in highly conserved regions.

Cross species- Amplify sequences from multiple species.

PCR primer design- design primer pairs for PCR and multiplex experiments.

Primer Premier is a comprehensive primer design application.