Fig. 2From: BreakAlign: a Perl program to align chimaeric (split) genomic NGS reads and allow visual confirmation of novel retroviral integrationsFlow chart illustrating the basic steps within BreakAlign. Parts of chimaeric reads that align to the virus are shown in red. Generating the local blastn database can be time-consuming (see text). Other stages in Breakalign will typically take a minute or lessBack to article page