Regression analysis between two genes - (Feb/27/2011 )

Hi everyone

I am trying to determine if there is an association between the extent of sequence divergence of gene "A" between two species and the extent of divergence of gene "B." I would have one axis with the number of nucleotide mismatch of gene A, and another axis of gene B.

Is there a software that allows me to put in my sequence data, perform pairwise sequence analysis of both eachs in each paired combinations, and plot that as a regression analysis?

Thank you so much

Hi Enthusiast.. I'm having few doubts with regard to your query.

1. What kind of association do you expect to find between the divergence patterns of Gene A and Gene B? Which biologically significant aspect are you trying to address through the association derived between two similarity/dissimilarity % for two different genes which is usually the product of a pairwise alignment?

2. What data do you want to plot in the graph?

If you could elaborate more on these, I can try and give a better solution to your query.