Figure 1

Segminator II user interface. The table in the center of the GUI displays information that is available after read mapping and alignment. Above the table are the dropdown boxes that allow navigation between projects and data sets. Below the table heatmaps showing cover, entropy, and insertion, deletions and non-consensus frequencies are located. On the right hand side the "Treedar" feature which dynamically generates a neighbor joining tree as the user scrolls along the genome is located. Below this are data set summary panel and the table scan panel, the latter which can be used to query sites based on variation, quality and homopolymeric stretch size (grey rows). On the top right buttons to change the display mode to the read view or tree view are observed.