Identification of recombination events in outbred species with next-generation sequencing data

BMC Genomics

Table 1 Summary of the sequencing data in aspects of quality, mapping results and duplicate reads for the two parents and their 10 progeny

Sample ID	Clean PE reads (M)	Clean Bases (Gb)	HQ PE reads (M)	HQ bases (Gb)	Mapped reads (%)	Uniquely mapped reads^a (%)	Duplicate reads^b (%)	Remained reads (M)
P1^c	144.06	29.10	117.67	23.77	96.15	57.40	12.69	48.19
P2^d	163.46	33.02	131.28	26.52	95.67	59.27	33.99	37.43
B35–2	54.45	13.72	48.41	12.20	97.33	55.55	7.03	50.27
C25–3	51.93	13.09	46.09	11.60	97.78	55.91	5.26	51.80
C3–2	48.75	12.29	43.48	10.96	97.84	55.55	5.54	51.34
C32–2	52.76	13.29	46.86	11.81	97.85	55.84	3.92	52.50
C5–3	56.36	14.20	50.19	12.65	97.69	55.66	5.26	51.51
3–12	55.94	14.09	52.09	13.13	99.58	57.27	10.19	51.22
3–14	53.10	13.37	47.56	11.98	99.47	56.05	17.32	46.10
3–15	55.79	14.05	52.02	13.11	98.52	60.15	11.78	52.28
3–16	58.35	14.70	54.67	13.78	98.84	57.08	20.49	44.86
3–18	58.96	14.85	55.15	13.90	98.40	57.01	22.05	43.73

^aThe percentage of almost uniquely mapped reads in all mapped reads for a sample
^bThe percentage of duplicate reads in uniquely mapped reads for a sample
^cP1, the female parent P. deltoides
^dP2, the male parent P. simonii

ISSN: 1471-2164