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Inter-clade recombinations identified to date. The genes with stars represent loci, which were previously identified as recombinant (Pětrošová et al., 2012; Arora et al., 2016; Mikalová et al., 2017b; Grillová et al., 2018c). Five (out of 10) loci were identified in this study and were found among contemporary clinical samples enriched by a sequence-independent enrichment method.
