With the limitations of conventional sequencing technologies, there still remains many gaps in complex genomes including the completed human genome. The closure of gaps as well as the solution of other problems caused by repeat sequences call for the development of novel techniques and strategy. Thus an ordered sequencing strategy is proposed based on the experimental advancements in positioning dissection and isolation of single DNA molecules with AFM nanomanipulation. The preliminary results of computer simulation verify its feasibility and indicate the potentialities in overcoming some intractable problems in current sequencing projects.