The GS FLX+ system performs applications including de novo sequencing, resequencing of whole genomes and target DNA regions, metagenomics, RNA analysis, and ultra-deep amplicon sequencing. This system can deliver one million reads with an accuracy and length comparable to traditional Sanger-based methods, which can help researchers discover genetic variants and work with difficult-to-sequence regions of genomes, transcriptomes, and metagenomic samples.