correlation between dissimilarity matrices

Hello, I am working with two dissimilarity matrices containing
dissimilarities in taxonomic community structure and environmental
variables, respectively, between different sites. Those sites are grouped in
three different locations. I know I can obtain the correlation between both
matices by using a Mantel test. However, I would also like to know the
correlation between both matrices after removing the effect of the
dissimilarities between locations, i.e. only considering the dissimilarties
within locations. How could I do it? 

Thank you very much,

Carlos



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