Figure 5. Small number of variants that became fixed (>95 or <5% frequency) throughout the course of the experiment.

Including both single nucleotide polymorphisms and insertions/deletions (INDELs) identified by Popoolation2, Breseq, and/or Pilon. Highlighted in bold are two instances of convergent adaptation we observed within the L4.9 and L4.4.1.1 sub-lineages. These mutations are exclusive to strains passaged as pellicles, see Supplementary file 2 for mutations arising in strains passaged planktonically.