Identification of two major QTLs for pod shell thickness in peanut (Arachis hypogaea L.) using BSA-seq analysis

BMC Genomics

Table 1 The summary of the sequencing quality and alignment results for BSA-seq analysis

Sample ID	Raw Base (bp)	Clean Base (bp)	Effective Rate (%)	Error Rate (%)	Q20 (%)	Q30 (%)	GC Rate (%)	Mapped (%)	Coverage Rate (%)	Mean Depth
Thin-pool	173,104,773,300	172,337,628,000	99.56	0.04	95.19	88.15	36.61	99.74	98.82	83.03×
Thick-pool	168,069,016,500	167,308,148,700	99.55	0.03	95.94	89.66	36.86	99.76	98.91	85.32×
WH8	28,116,614,100	27,991,626,600	99.56	0.03	95.5	88.75	36.51	99.65	98.25	42.52×
YY18	30,575,037,300	30,427,013,700	99.52	0.04	95.4	88.59	36.37	99.8	98.62	43.66×

Sample ID, name of sample; Raw Base (bp), number of original bases; Clean Base (bp), number of filtered bases; Effective Rate (%), proportion of the raw bases that were clean bases; Error Rate (%), proportion of all bases that were incorrect; Q20 (%), proportion of all bases with a Phred value greater than 20; Q30 (%), proportion of all bases with a Phred value greater than 20; GC Rate (%), proportion of all bases that were C or G; Mapped (%), proportion of the clean bases that were mapped to the reference genome; Coverage Rate (%), proportion of the genome covered by the bases; Mean Depth, average sequencing depth

ISSN: 1471-2164