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aThe full lists of the 489 SNP markers and 101InDel markers discovered from sequence alignment on scaffold84773 are markers in Additional file 3. Names of identified markers are consistent with the names labelled numerically in Additional file 3
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bMarkers showing R-allele genotypes on cultivars without the R gene PhtjR (false positives) are in highlighted in red
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cMarkers showing genotypes consistent with disease resistance phenotypes on all 10 sequenced cultivars are considered as candidate diagnostic markers, and are highlighted in green