One hundred and fifty-one rice hybrids produced in two sets of halfdialell mating crosses designed according to NCⅡ，planting respectively in Chongqing and Luzhou,Sichuan Province of China in 2005 were used to predict the F1 performances of seven yield traits through genetic effects of marker loci of AFLP and SSR.Positive loci (PL)and effect.increasing loci (IL)were screened respectively by yield traits of two sets of crosses and their additive or/and dominant effects were used to founded the prediction model for these yield traits.Predictions of yield traits of crosses derived from different parents (prediction between sets)and fixed parents were conducted by the model founded.The results were as follows:(1)Most predictions between sets were not ideal and changeable.The correlations between predictive values and actual ones ranged from -0.55 to 0.45.(2)The prediction effects of crosses with by PL were similar to those by IL in Set 2,and all better than that of between sets.Predictions of crosses with fixed restorers were more valuable than those of crosses with fixed sterile lines.(3)Most predictions of crosses with fixed parents were relatively better.The predictions by IL of seed setting rate of crosses with fixed sterile lines,panicle number of those of fixed restorers,and those by PL of spikelets per panicle and grain weight per panicle of crosses with fixed restorers were above 0.6.Because the number of PL and IL in prediction model were much less,the prediction models was conveniently applied and particularly,and it was important for the institute by which the models were founded in parentselection in breeding.