Table 1.

Mapping characteristics of Malus sieversii PI613981 (MS) and “Royal Gala” (RG) parental lines in all samples analyzed (healthy tissue at time 0, wounded and wounded–inoculated tissues at 6, 24, and 48 hpi) to the reference genome Malus × domestica v1.0 (see Supplementary Table 3 for detailed information for each library, each replicate).

Sample	Raw reads	Clean reads	Reads mapped onto the M. domestica v1.0	Number of Identified Genes
MS
Sum	148,488,797	129,356,853 (87.1%)	110,607,140 (85.5%)
Average Reads per Sample	7,070,895	6,159,850	5,267,007	52,493
RG
Sum	160,199,881	137,184,823 (85.6%)	126,281,310 (92.1%)
Average Reads per Sample	7,628,566	6,532,611	6,013,396	53,408