Platform for analysis of high-throughput sequencing data

A system for processing biomolecule sequencing data, the system comprising:

• one or more processors;
• an interface module that interacts with the one or more processors to obtain biomolecule sequencing data comprising a plurality of reads;
• and
• one or more tools that interact with the one or more processors to process the biomolecule sequencing data, the one or more tools comprising:
• a short read alignment module that classifies the plurality of reads into subsets based on alignment to one or more reference genomes,
• wherein the interface module further provides a web-based interface that causes a client device to display results of analysis performed by the one or more tools, the results including data describing the subsets of the plurality of reads.