Fig. 2

Sequence optimization. This figure shows the example sequence processed with the three possible options to optimize the sequence. a shows the “One-click optimize” option. The original sequence with highlighted rare codons can be seen (top) and the optimized sequence is shown (below) with far less rare codons than the original sequence. b shows the “bulk-optimization” option. This option can be used to target a certain codon-type. The table listing all the codons of the input sequence provides additional information to the user such as their usage frequency, how often they appear in the target sequence and the possible options to exchange the codon with another one. c shows the “optimize by codon” option. Under each codon a drop-down menu shows all the possibilities to exchange a specific individual codon into one that has a higher usage frequency. Hovering over these codons displays their individual usage frequency. All options (a-c) can also be applied subsequently