Although there are several online bioinformatics tools to predict the target site for CRISPR-Cas9 but I was looking for a offline solution. I am going to share a R script that use two R libraies CRISPRseek and msa. The best part is that it also predict the restriction enzyme sites in target region therefore it will help in downstream analysis of mutant screening. Hope this script will help some one. As always R script is heavily commented to get it easy.

How To Perform Basic Multiple Sequence Alignments In R HERE