Additional file 12.

Codon usage of pSZ77 genes in comparison to strain SZ chromosomal genes using the codon adaptation index (CAI). Out of 79 total predicted plasmid genes, 42 have normalized CAI > 1.00, indicating that over half of pSZ77 genes have resided in the strain SZ genome for sufficient time to ameliorate their codon usage to the chromosome. The predicted replication/maintenance genes repA and parA have normalized CAI < 1.00 (red font) [82].

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Wagner et al. BMC Genomics 2012 13:200   doi:10.1186/1471-2164-13-200