PAMComAligner

PAMComAligner is integrated as software and can even create gRNA by executing main.py.

1. Save the sequence you want to knock out in a directory.
2. Add an argument to main.py with the file path you just specified.
3. Then run the following command to create gRNA (20 base spacer sequence + PAM sequence 'NGG')

python main.py --input_gene_path 'your_direct/your_file.fasta'

How to see the output of PAMConAligner

• Target: gRNA
• Ratio: Percentage of the sequences that can be recognized by gRNAs among the collected sequences.
• Average DNA Distance Matrix: A measure of the common ancestry of the populations that can be recognized by gRNAs, which can be calculated based on evolutionary distance. (See engineering for details.)
• Off-Target Rate: Percentage of off-targets
• id: specific to NCBI database
• Actual sequence: (blue where gRNAs recognize it)

For example, if the coagulase gene is set as the input sequence:

Out_put