I designed specific EST-SSR primer but when i applied it that gave me many of band in agarose gel , how many of optimum number of band the EST-SSR product it ?
You often see this with this type of PCR. However one usually sees main bands with ghost bands rather than several clear bands. You could increase the annealing temperature but with this i would to be honest make new primers as you could spend a lot of time on this. Another approach is to do a double PCR- take the product of this design primers that are staggered in from this and re-PCR using this as your template.