MFE
primer
4.1.0
PCR Primer Design and Quality Control Tools
Doc
Publications
Hairpin analysis
* Primer sequences (<= 1000) (
FASTA format
or just plain sequences one per line,
example
,
clear
)
Min loop size
Min
Max loop size
Max
Min double helix size
Min
Allowed max gaps for a hairpin
Max
Score
Min
Score cutoff value to filter hairpins
ΔG
Max
kcal/mol
ΔG cutoff value to filter hairpins
Advanced settings
Concentration of monovalent cations (usually KCl)
mM
Concentration of divalent cations (usually MgCl
2
)
mM
Concentration of dNTPs
mM
Annealing oligo concentration
nM
Run
MP2: Primer Design for Reference Genomes
Singleplex PCR
Multiplex PCR
MPD: Primer Design for Diverse Genomes
Multiplex qPCR
MFEprimer: Primer Quality Control Tools
Coverage analysis for various microbial strains
Specificity analysis
Dimer analysis
Hairpin analysis
Contact
For bug reports or suggestions, please
email
us.
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