Designed for the bacterial genomes finishing process. CONTIGuator is a software that combines the routines of ABACAS with a contig profiling viewable with the Artemis comparison tool. The software provides Polymerase Chain Reaction (PCR) primers set to close more gaps and gives clues on the relative position of various contigs. Contigs profiling provides a high-resolution map, highlighting regions of the reference genomes that are diverging from assembled contigs. CONTIGuator allows investigation of the structural genomics based on draft genome sequences.