In case of cloud computing service for business usages, with the growth of business opportunities such as the increased number of employee or commerce site's access, the efficient resource or QoS management in virtual network layer come to be more important. Also, autonomous network configuration in virtual layer which can provide optimal efficient resource and QoS service is needed. Not only network configuration is constructed in physical layer, but also it is needed to be constructed in virtual layer for future services. In this paper, it is discussed about Overlay Cloud Computing Architecture which is consisted of virtual autonomous network configuration in cloud computing service including various server and network services for business intelligent system. In our proposal methods, first of all, there are various kinds of autonomous modes such as eco mode, high power mode, and secure mode. Then, virtual network and server configuration is automatically held in virtual layer with the proper mode setting. Besides, with observation values of network and server condition, virtual configuration is changed optimally. In this optimal configuration changing, Kalman filter is used for the calculation of network and server condition. Then, the prototype of the proposed methods is reported, and the future study is discussed in the paper.