The QC traffic light system is meant to indicate the quality of the input data. The overall QC traffic light is calculated as the value of the worst QC measure of the given locus. The meaning of the different colours is the following:

• (green) – PASSED: the locus passed all QC tests
• (yellow/green) – INFO: one or more QC tests produced lower than average results
• (yellow) – INSPECT: one or more QC tests produced concerning results, manual inspection of the results needed
• (red/yellow) – INVESTIGATE: one or more QC tests showed low result quality, manual inspection and possibly reanalysis is needed
• (red) – FAILED: one or more QC tests showed very low result quality, manual inspection is needed to determine the cause and the locus or sample likely needs re-sequencing or to be re-typed by alternative methods