With the recent breakthrough in bioinformatics, demand of more storage space is increasing day-by-day. With this exponentially increasing data i.e. the big data of bioinformatics sector, the data needs to be handled in more flexible and cost effective manner. With this growth in the volume, variety and velocity of data, cloud computing promises to address big data issues and analysis of challenges of big data in bioinformatics. Big data of bioinformatics consisting of various sequences (nucleotide or amino acid) which are now showing exponential growth because of high throughput experimental technologies.