Table 1.

Classification performance for A. kamchatica. Results are averaged across eight samples, four each for A. halleri and A. lyrata. The percent mapped refers to the number of reads that were mappable and in the case of subgenome classification, the number of reads mappable to any subgenome. The classification error refers to the proportion of mapped reads which were assigned to the wrong subgenome. The number of expressed homeologs with more than one read in any sample is also shown for each subgenome as a percentage of the set of 24 329 homeologs

		Classification error		A. halleri	A. lyrata
	Mapped, %	H to L, %	L to H, %	Homeologs, %	Homeologs, %
STAR	93.40	11.09	11.40	90.34	90.55
LAST	71.59	2.87	2.50	90.10	90.39
Kallisto	92.22	12.42	12.44	95.34	95.50
HomeoRoq	93.67	1.64	1.23	89.28	80.78
EAGLE-RC	93.67	0.48	0.33	87.90	88.60