Primer designer
primer_designDe-novo PCR primer design (Primer3-style penalty picker): enumerate and score candidate primer pairs against length/Tm/GC/3'-clamp/structure constraints.
Input Schema
| Name | Required | Description | Default |
|---|---|---|---|
| mgMM | No | Divalent cation [Mg2+] (mM). | |
| naMM | No | Monovalent cation [Na+]/[K+] (mM). | |
| gcMax | No | ||
| gcMin | No | ||
| tmMax | No | ||
| tmMin | No | ||
| tmOpt | No | ||
| dntpMM | No | Total [dNTP] (mM), chelates Mg2+. | |
| lenMax | No | ||
| lenMin | No | ||
| lenOpt | No | ||
| oligoNM | No | Total strand concentration (nM). | |
| template | Yes | Nucleotide sequence (raw or FASTA; IUPAC accepted). | |
| maxReturn | No | Number of best pairs to return. | |
| targetEnd | No | 1-based inclusive end of the target region (optional). | |
| tmMaxDiff | No | Max Tm difference within a pair (°C). | |
| ampliconMax | No | ||
| ampliconMin | No | ||
| targetStart | No | 1-based inclusive start of a region the product must span (optional). |