Chromosome-SCCmec junction sequences. The borders of strain CHE482 were aligned with the sequences of the three drug clones, ZH4, ZH43, ZH81, the cured drug clone, strain N315 (type II SCCmec), MSSA476 (SCC476)and ISS*. Light green boxes indicate the orfX region and its integration sequence site, ISS. Yellow shading highlights differences between the SCCmec ends. Direct and indirect repeats are indicated with arrows. The red letters represent the similarity of the inverted repeats. attBSCC** and ISS** consensus sequences were taken from Ito et al. .