Screenshot of the SNP viewer. In this view, three different screens are merged. The first view (A) indicates there are some polymorphisms with the reads. The reference sequence remains fixed to the top of the browser window. As the user scrolls down (B, C), the reference sequence scrolls down along and the read bases can be super-imposed with the reference for detecting SNPs and finding intron-exon boundaries.
Tripathy et al. BMC Genomics 2012 13:303 doi:10.1186/1471-2164-13-303