Tatajuba: exploring the distribution of homopolymer tracts.

ABSTRACT: Length variation of homopolymeric tracts, which induces phase variation, is known to regulate gene expression leading to phenotypic variation in a wide range of bacterial species. There is no specialized bioinformatics software which can, at scale, exhaustively explore and describe these features from sequencing data. Identifying these is non-trivial as sequencing and bioinformatics methods are prone to introducing artefacts when presented with homopolymeric tracts due to the decreased base diversity. We present tatajuba, which can automatically identify potential homopolymeric tracts and help predict their putative phenotypic impact, allowing for rapid investigation. We use it to detect all tracts in two separate datasets, one of Campylobacter jejuni and one of three Bordetella<

SUBMITTER: de Oliveira Martins L 

PROVIDER: S-EPMC8808543 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature