Table A2.

Quality evaluation of clean reads.

Samples	Total Raw Reads (Mb)	Total Clean Reads (Mb)	Total Clean Bases (Gb)	Q20 Percentage (%)	Q30 Percentage (%)	Clean Reads Ratio (%)
Gall-1	45.72	44.23	6.63	98.27	95.56	96.73
Gall-2	45.72	44.11	6.62	98.27	95.56	96.47
Gall-3	45.72	44.07	6.61	98.25	95.51	96.39
LWG-1	47.36	45.53	6.84	98.15	95.28	96.15
LWG-2	47.36	45.60	6.83	98.19	95.38	96.28
LWG-3	47.36	45.56	6.84	98.22	95.44	96.21
LNG-1	47.36	45.61	6.84	98.29	95.60	96.31
LNG-2	45.72	44.04	6.61	98.32	95.69	96.33
LNG-3	47.36	45.61	6.84	98.29	95.61	96.31

Sample: Sample name; Total Raw Reads(Mb): The reads amount before filtering; Total Clean Reads(Mb): The reads amount after filtering; Total Clean Bases(Gb): The total base amount after filtering; Clean Reads Q20(%): The rate of bases which quality is greater than 20 value in clean reads; Clean Reads Q30(%): The rate of bases which quality is greater than 30 value in clean reads; Clean Reads Ratio(%): The ratio of the amount of clean reads.