SYSTEMS AND METHODS FOR ENGINEERING NUCLEIC ACID CONSTRUCTS USING SCORING TECHNIQUES

[003381 Systems and methods are provided for defining a nucleic acid construct for integration at locus L of an organism. Nucleic acid requests are received, each such request specifying a genetic change to L, and expanded into component polynucleotides. In some embodiments, the component polynucleotides are arranged into {ARi, ... , ARm} different arrangements, each ARi in {ARi, ... , ARm} defining a different arrangement of the component polynucleotides . In some embodiments, a score Si for each ARi in {ARi, ARm} is determined based on whether source constructs encoding a portion of ARi are physically present. In some embodiments, an ARf in {ARi, ... , ARm} is selected based on the score for ARf. In some embodiments, primer pairs are calculated to amplify the portions of ARf not represented in the source constructs. In some embodiments, the portions of ARf amplified by the primer pairs and the portions of ARf in the source constructs, ordered by ARf, define the nucleic acid construct.