Open the GUI (graphical user interface) of ApE. For more info about the input sequence, go to the simulator tab.
Copy a nucleotide FASTA sequence from NCBI. This experiment shows an example with insulin FASTA sequence of Drosophila Melanogaster.
Figure 1: Paste the FASTA sequence
Now select the sequence.
Figure 2: Selecting the sequence
To search for primers, go to "Tools --> Find Primers".
Figure 3: Searching for primers
A window is opened in which the user can change the parameters such as length, melting point, GC content etc. Figure 4 shows the window for changing parameters.
Figure 4: User can change the parameters.
Click "OK" button to search the primer. Now the results is shown in a new page. Figure 6 shows the results.
Figure 5: Primers found in the input.
Here if the user clicks on a particular primer, it will show the position of the particular primer in the input. An exaple is shown in figure 6.
Figure 6: Cliking on a particular sequence will show its position in the input sequence.