I need to use your results for my research however, there are some missing information in your paper specifically in Figure2-A the following mutation rates are missing:
- G-> C with neighboring of C
- G->T with neighboring of C
- G->A with neighboring of C
We excluded CpG di-nucleotides from our analysis since they are known to have hyper mutation rates than any other di-nucleotides, due to the mechanism of methylation–deamination of cytosine. In fact mammalian genomes are depleted of CpGs, except of CG islands.
We also mentioned this in the paper.