Indel Inbreeding Coefficient values vey different from SNPs

Question

[hdtms]

My Inbreeding Coefficient in Indels is very different from SNPs . I don't know if this is normal or if I can apply this to Indels. Any suggestions?

[jean.elbers]

I personally have never compared inbreeding coefficients between SNPs and indels. I would have expected the values to be different (i.e., probably different mutation equilibrium for indels compared to SNPs) but similar at the same time. One thing to think about is whether the SNPs and indels you are comparing are di-allelic (two alleles) or multi-allelic (more than two alleles). For theory, I would have to do a literature search.

[hdtms]

Thank you for your response. They are di-allelic (SNPs and Indels). I will do a literature research to see what I can find.