It is well known fact that Indian aquaculture is mostly confined to carp farming. Most of the carp hatcheries do not maintain data on pedigree. It is not sure that how many times brooders are changed in the hatcheries. It is said that declining productivity is observed in the carp farming due to inbreeding happening in the hatcheries. Therefore, I wish to know that molecular markers can be useful to estimate the inbreeding accurately. It yes, the result would be the same that of classical method.