Cas12a and Cas13a do something no probe does: once they recognise their target they start cutting any single-stranded nucleic acid nearby. Feed the reaction a quenched reporter and that collateral cleavage becomes the signal. This tool designs the three oligonucleotides such an assay needs the crRNA, the isothermal pre-amplification primers (RPA, with a T7 promoter where Cas13a needs a transcript), and the reporter and, where you mark a variant as [C/T], an allele-specific crRNA pair with the discriminating base placed where the enzyme actually reads it.
Method: Gootenberg et al. (Science 2017, SHERLOCK) and 2018 (SHERLOCKv2); Chen et al. (Science 2018, DETECTR). Scope: nothing here predicts a limit of detection, and target accessibility is a local hairpin proxy rather than a folding calculation — the Warnings tab spells both out. LAMP primer sets for a one-pot Cas12b assay come from the LAMP tool.
One target sequence, 5′→3′, with or without a FASTA header. Mark the variant to genotype as [C/T], or leave the brackets out for presence/absence detection. Paste 400–600 nt around the site: the RPA primers are 30–35 nt and sit well outside the crRNA target.
Export: use Copy / Download above each report, or click inside a result area → Ctrl+A → Ctrl+C.