CleanDTR is an efficient paramagnetic bead-based system, designed to remove unincorporated dye terminators from Sanger sequencing reactions. The CleanDTR process involves three simple steps including bind, wash and elute. While binding the sequencing product selectively to the magnetic particles, unincorporated dyes, nucleotides, salts and primers will be removed during ethanol washes. This principle allows for elution of the pure Sanger Sequencing product in the elution buffer of choice. The protocol can be adapted to your current liquid handling workstation (e.g. Beckman, Hamilton, Tecan, Caliper, Perkin Elmer, Agilent and Eppendorf) utilizing your current protocol as well as it can be performed manually.