Genes are mismodeled at multiple stages of the chdC-null life cycle. Venn diagram indicates significant (P < 2 × 10−16) overlap among genes that are mismodeled in both growing-stage and loose-mound–stage chdC-null cells; P-value was calculated using the hypergeometric test. (Top) When the different mismodeled gene sets are analyzed for paired read midpoint frequency distributions in growing WT (black) or chdC-null (red) cells, only genes that are mismodeled in growing cells exhibit an increased NRL in growing cells; genes that are characterized as only mismodeled in loose-mound–stage cells do not exhibit this increased NRL in growing cells. (Bottom) When the different mismodeled gene sets are analyzed for paired read midpoint frequency distributions in loose-mound–stage WT (black) or chdC-null (red) cells, only genes that are mismodeled in loose-mound–stage cells exhibit an increased NRL in loose-mound–stage cells; genes that are characterized as only mismodeled in growing cells do not exhibit this increased NRL in loose-mound–stage cells.
