Table 3.

Reads statistics and quality assessment of sequencing read before and after processing

Sample ID	Sample groups	Before processing			After processing
		Total reads	Q20 bases	Q30 bases	Total reads	Q20 bases	Q30 bases
231-Sum_R1 231-Sum_R2	HS	13,005,572 13,005,572	97.57% 97.57%	94.21% 93.39%	12,637,590 12,637,590	98.72% 98.45%	95.77% 94.74%
231-Win_R1 231-Win_R2	TN	16,721,437 16,721,437	97.92% 97.43%	94.39% 94.26%	16,281,134 16,281,134	98.74% 98.41%	95.75% 94.56%
233-Sum_R1 233-Sum_R2	HS	16,387,759 16,387,759	97.27% 97.39%	93.81% 92.99%	15,906,110 15,906,110	98.71% 98.36%	95.74% 94.51%
233-Win_R1 233-Win_R2	TN	14,736,439 14,736,439	97.48% 97.45%	93.91% 92.95%	14,358,137 14,358,137	98.69% 98.32%	95.61% 94.33%
234-Sum_R 234-Sum_R2	HS	18,909,967 18,909,967	97.87% 97.35%	94.52% 92.85%	18,347,363 18,347,363	98.79% 98.28%	96.02% 94.28%
234-Win_R1 234-Win_R2	TN	14,843,147 14,843,147	97.84% 97.08%	94.23% 92.20%	14,406,658 14,406,658	98.72% 98.02%	95.65% 93.60%
238-Sum_R1 238-Sum_R2	HS	37,588,934 37,588,934	97.53% 97.15%	94.23% 92.56%	36,342,895 36,342,895	98.78% 98.18%	95.96% 94.09%
238-Win_R1 238-Win_R2	TN	16,393,243 16,393,243	97.52% 96.98%	93.91% 91.88%	15,904,473 15,904,473	98.70% 97.91%	95.52%
							93.27%
240-Sum_R1 240-Sum_R2	HS	37,535,592 37,535,592	97.71% 97.30%	94.26% 92.72%	36,366,827 36,366,827	98.71% 98.23%	95.78% 94.15%
240-Win_R1 240-Win_R2	TN	18,670,474 18,670,474	97.80% 97.08%	94.16% 92.13%	18,133,706 18,133,706	98.73% 98.02%	95.62% 93.55%
241-Sum_R1 241-Sum_R2	HS	39,853,328 39,853,328	97.95% 97.27%	94.69% 92.66%	38,620,784 38,620,784	98.80% 98.15%	96.03% 93.97%
241-Win_R1 241-Win_R2	TN	14,489,875 14,489,875	97.67% 97.25%	94.02% 92.58%	14,073,424 14,073,424	98.68% 98.16%	95.53% 93.95%