Table 1. Summary of Illumina sequencing, assembly and mapping.

	520 leaves	%	520 roots	%	592 leaves	%	592 roots	%	Sum	%
Total no of reads	207,824,532		168,557,233		187,381,473		205,123,179		768,886,417
Total no of bases (Gbp)	20.8		16.9		18,7		20.5		76.9
No of reads after trimming	174,156,958		148,667,480		168,291,008		190,426,984		681,542,430
Average read length after trimming	98.4		98.5		97.9		98.7
Total mapped readsa	64,492,170	37.0b	35,511,470	23.9b	38,630,740	23.0b	39,889,518	20.9b	178,523,898	26.2b
Total unmapped readsc	109,664,788	63.0b	113,156,010	76.1b	129,660,268	77.0b	150,537,466	79.1b	503,018,532	73.8b
Multi-position matchese	19,530,798	30.3d	8,648,426	24.4d	9,284,534	24.0d	10,379,248	26.1d	47,843,006	26.8d
Unique matchesf	44,961,372	69.7d	26,863,044	75.6d	29,346,206	76.0d	29,510,270	74.0d	130,680,892	73.2d

^aNumber of filtered sequencing reads that were aligned to the contigs in the filtered assembly.

^bRelative to the number of reads after trimming.

^cSequencing reads that could not be aligned to the contigs in the filtered assembly.

^dRelative to the number of mapped reads.

^eSequencing reads that aligned to two or more positions in the contigs in the filtered assembly.

^fSequencing reads aligned to only one position in the contigs in the filtered assembly.