Documentation

Sequence features

  • GC (%): Percentage of guanine and cytosine nucleotides in the microRNA sequence.

  • AG (%): Percentage of purine nucleotides (adenine and guanine) in the microRNA sequence.

  • Reference overlap: Number of nucleotides overlapping with either hsa-miR-16-5p or cel-miR-39-3p RT-qPCR primers.

Secondary structure features

  • Free nt (%): Number of unpaired hydrogen bonds along the microRNA sequence at user-defined temperature.

  • Free nt_toe (%): Number of unpaired hydrogen bonds in the toehold region (first 6 nt from 5’ end) of the microRNA sequence at user-defined temperature.

Package features

  • Composite Score: Normalised sum of GC (%), AG (%), Free nt (%), and Free nt_toe (%). Higher scores indicate better suitability for toehold-mediated strand displacement applications. All inputs carry equal weight.