ISSR banding are more confident in respect to RAPD. Polymorphism significance depends on the level of clonal dispersal vs sexual reproduction intrapopolation. The less sexual reproduction is the less polymorphysm you've get. So you have to pay attention on genetic previous data if any

Dear Ahmed : According to your massage there ia an equation depend on presence and absence of bands in the comparative profiles

GSxy= 2 Nxy / (Nx + Ny)

furthermore there are many software exist on the web analyse the genetic diversity (similarity)

good luck

 Ahmed A Khalafallah

hi,RAPD or ISSR calculated by percentage of monomorphism and polymorphism

Hi Ahmed, you can use the GenAlEx software, it's free and works in Excel. It´s very friendly and you can calculate the genetic diversity by Nei and Shannon, %polymorphism, PCA... using your molecular profile with 0 and 1 (absence and presence of bands).

I hope it can be helpful.

the excel file has to be generated using presence and absence of band (0 & 1 scoring).  then this file uploaded to NTsys software. furthermore, u can analyze similarity index and can draw phylogenic tree using different modules.  

Power Marker is a software for gene diversity analysis. It is very easy and gives all the details in a tabular format like PIC, Heterozygosity, gene diversity etc. But it is a paid version.

DARWin is a free software for graphical display like Dendrogram. It also give Dissimilarity index and PCoA.

thanks for all. i was already calculate the polymorphic and monomorphic bans and i dendrogram and PCoA was drown .