Table 1. An overview of the RNA-Seq data.

	Free-living bacteria		V. unguiculata bacteroids		L. leucocephala bacteroids
	number	%*	number	%*	number	%*
Total reads#	12988910		12988910		12992456
Reads mapped to genome	12718213		11329803		7383865
perfect match	9760662	76.75%	8638335	76.24%	5642244	76.41%
< = 5 bp mismatch	2957551	23.25%	2691468	23.76%	1741621	23.59%
reads mapped to rRNA	1082203	8.51%	2519658	22.24%	2847571	38.56%
Reads mapped to gene	7705821		3931113		1049762
perfect match	5920834	76.84%	3022804	76.89%	811630	77.32%
< = 5 bp mismatch	1784987	23.16%	908309	23.11%	238132	22.68%
unique match	7629003	99.00%	3390818	86.26%	886105	84.41%

Note: #, 90-base reads; *, the percentage value relative to the reads mapped to genome or gene.