Table 9 Summary statistics for the mapping of several read datasets against the cork oak draft genome.

Study and data type	SRA accession number	Total number of reads	Number of mapped reads	Percentage of mapped reads
Magalhães et al.³ (454)
Medium drought	SRR1812375	587,184	439,362	74.8
Severe drought	SRR1812376	473,117	342,671	72.4
Well-watered	SRR1812377	645,761	484,889	75.1
Rocheta et al.⁴ (454)
Male flower	SRR1609152	659,399	493,298	74.8
Female flower	SRR1609153	535,665	401,025	74.9
Teixeira et al.³⁹ (454)
Good cork quality	SRR1009171	573,548	409,169	71.3
Bad cork quality	SRR1009172	600,102	417,493	69.6
Sebastiana et al.² (454)
ECM roots	SRR1012033	1,159,845	769,423	66.3
Non-symbiotic roots	SRR1012034	969,271	636,048	65.6
Somatic embryogenesis (Illumina PE)
Embryo globular stage	SRX2239661	71,706,998	62,998,568	87.9
Embryo heart/torpedo stage	SRX2239662	71,964,732	64,487,926	89.6
Embryo immature cotyledonary stage	SRX2239663	84,482,546	73,969,188	87.6
Embryo mature cotyledonary stage	SRX2239664	84,022,498	73,715,150	87.7
Chaves et al.⁴⁰ (Illumina SE)
Leaf	SRR988108	16,838,439	13,900,006	82.5
Cork	SRR988109	9,333,712	7,223,415	77.4
HL8 RNA-Seq (Illumina PE)
Pollen	SRR5986741	192,418,402	161,872,000	84.1
Leaf	SRR5986739	299,960,018	245,400,286	81.8
Xylem	SRR5986738	361,255,569	296,903,800	82.2
Inner bark	SRR5986740	311,378,053	251,537,756	80.8
Phellem	SRR5986737	353,687,405	285,006,172	80.6

The reads were downloaded from NCBI’s Sequence Read Archive and mapped to the draft genome using BWA-mem.

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