Table 3.

Unigenes with top 20 highest RPKM values in Sclerotinia trifoliorum

Rank	Transcript	Length	RPKM	Description	Ratioa
1	JP555362	912	26338	SS1G_09707, hypothetical protein	889
2	JP555364	1119	22093	SS1G_11468, hypothetical protein	225
3	JP555401	2585	10339	SS1G_00134, heat shock 70 kda protein	368
4	JP556651	1008	5188	SS1G_00849, hypothetical protein	18
5	JP555400	1856	4995	SS1G_04403, fatty acid desaturase	9
6	JP555429	1130	4889	SS1G_04857, hypothetical protein	N/A
7	JP555402	756	4881	SS1G_03138, hypothetical protein	N/A
8	JP555422	1232	4318	SS1G_09963, hypothetical protein	216
9	JP555363	3159	3935	SS1G_03527, hypothetical protein	1
10	JP555421	1386	3855	SS1G_09038, formate dehydrogenase	2
11	JP557401	1675	3832	SS1G_05520, elongation factor 1-alpha	1
12	JP555387	812	3792	SS1G_02599, hypothetical protein	4
13	JP555430	1680	3180	SS1G_10197, acyl- desaturase	4
14	JP555441	569	3084	SS1G_13462, hypothetical protein	110
15	JP556642	498	3069	Not found in the S. s. genome	N/A
16	JP555371	2600	3052	SS1G_04923, hypothetical protein	4
17	JP557814	1552	2939	SS1G_13599, hypothetical protein	6
18	JP555368	2429	2824	SS1G_13600, hypothetical protein	3
19	JP555427	635	2442	SS1G_06992, hypothetical protein	77
20	JP555388	2739	2414	SS1G_07425, zinc finger protein	25
Average		1517	6073		115

^aThe ratio value is the ratio of RPKM value (S. trifoliorum/orthologs from S. sclerotiorum). N/A means no orthologs.