NP-Sticky: Model-Guided Ligation Calculator

Circular Ligation Calculator

You can download this Excel worksheet to facilitate concentration conversion and ligation reaction setup: ligation_worksheet.xlsx

Product Distribution Prediction

This circular ligation calculator can predict product distribution given the input concentrations of vector and insert in the ligation reaction.

Please enter reaction conditions for insert-vector ligation reaction.

Insert	Size:bp	Molar concentration	nM
		Mass concentration	ng/μl    Volume:μl
Vector	Size:bp	Molar concentration	nM
		Mass concentration	ng/μl    Volume:μl
		Total volume of reaction:μl (only needed when using mass concentrations)
Sticky end free energy		Sticky end 1	kcal/mol
		Sticky end 2	kcal/mol
Sticky end overhang bases		Sticky end 1	AT CG AT CG 5' overhang 3' overhang
		Sticky end 2	AT CG AT CG 5' overhang 3' overhang

Ligation Recommendation

Ligation incorporation, efficiency, and accuracy will be calculated over a range of concentrations and molar ratios to allow selection of optimal ligation conditions for specific applications.

Please enter reaction conditions for insert-vector ligation reaction.

Insert	Size:bp	Molar concentration	nM
		Mass concentration	ng/μl
Vector	Size:bp
Sticky end free energy		Sticky end 1	kcal/mol
		Sticky end 2	kcal/mol
Sticky end overhang bases		Sticky end 1	AT CG AT CG 5' overhang 3' overhang
		Sticky end 2	AT CG AT CG 5' overhang 3' overhang