Sequence Assembly Method Based on a Single Reference Genome

Abstract

Although genetic sequencing technology has made great progress, read errors and large repetitive regions still occur during the genome assembly process. Many current assembly methods typically yield only sets of contigs whose relative positions and orientations along the sequenced genome are unknown. In order to further obtain its correct and complete sequence, this paper proposes a new sequence assembly method based on a single reference genome of similar species: BRS. For a specific species, assuming that its own reference genome is unknown, due to the high genetic similarity between similar species. the reference genome of similar species is used as an aid and the alignment tool is used to compare the contig collection and the reference genome of similar species. We analyze the alignment information and determine the direction and position of the contigs according to the final alignment result and complete the sequence assembly of the gene. The BRS method is compared with two other common methods: RaGOO and Ragout2 on two bacterial datasets. The experimental results show that this method can indeed achieve good results.