Table 2.

The statistical table of sample sequencing data quality control and sequence alignment.

Breed	Raw base (bp)	Clean base (bp)	Effective ratio (%)	GC rate (%)	Q20 (%)	Mapping rate	Depth
TH	24,016,411,224 ± 9,189,778,298	23,563,532,076 ± 8,970,587,798	98.19 ± 1.72	42.80 ± 0.39	97.95 ± 0.65	98.45 ± 0.97	21.25 ± 7.82
GF	24,817,858,934.04 ± 9,096,634,473.59	24,328,986,906.38 ± 9,007,748,701.52	97.98 ± 2.52	42.84 ± 0.26	98.43 ± 0.41	98.66 ± 0.13	20.74 ± 7.95
SC	24,127,459,858.82 ± 9,265,408,060.40	23,646,575,752.94 ± 9,047,621,436.39	98.05 ± 1.98	42.75 ± 0.27	98.37 ± 0.41	98.59 ± 0.14	20.65 ± 7.94
XP	24,767,606,656.25 ± 9,368,470,498.39	24,253,905,925.31 ± 9,250,685,134.96	97.86 ± 2.16	42.85 ± 0.42	97.88 ± 1.19	98.63 ± 0.15	21.18 ± 8.02
YJ	22,252,817,186.44 ± 8,583,711,329.31	21,873,614,933.89 ± 8,366,239,017.01	98.46 ± 2.01	43.08 ± 0.34	97.83 ± 1.63	98.61 ± 0.12	19.04 ± 7.11
ALL	23,919,693,009.41 ± 9,083,820,257.11	23,460,176,930.59 ± 8,906,156,249.17	98.13 ± 2.08	42.87 ± 0.36	98.08 ± 1.04	98.60 ± 0.41	19.78 ± 7.44