With the rapid growth of biological technology, large amount of biological data can be produced in few days or months. Many of common-used tools become computation-consuming in analyzing such big biological data. Cloud computing has emerged to provide the huge amount of computing power and play important role in development of bioinformatics tools. We propose a cloud computing framework that is able to easily deploy the bioinformatics tools on cloud virtualization platform based on Hadoop. This framework can work on the public cloud platform vendor such as Amazon EC2 and also private cloud platform. All the tools performed by cloud computing framework as Bioinformatics as a Services are available at http://bioinfo.cs.pu.edu.tw/CBBTS. The tools deployed on cloud platform by the proposed framework are tested in Providence University cloud platform and provided good proportional acceleration when scaled out onto many computational units. In the big biological data era, cloud computing based solutions are important role to develop bioinformatics services over internet. In the work, the proposed framework is able to simply deploy several well-known bioinformatics tools on cloud virtualization platform and as web services. This framework can work on the public cloud platform vendor such as Amazon EC2 and also private cloud platform.