Table 1.

Sequencing details of parental line and bulks and mapping of sequence reads.

Sample	Number of lines bulked	Total reads generated (Million reads)	High quality reads (Million reads)	Reads mapped (Million reads)	Genome coverage at 1X	Average depth (X)
ICP 5529a		58.63	35.33	15.33	90.70%	9.15
EFb	15	66.34	62.64	30.28	93.13%	15.10
LFb	15	76.46	63.99	30.25	93.26%	15.08
OLSb	15	60.86	51.13	26.86	92.93%	13.39
LLSb	15	61.88	52.23	26.90	92.95%	13.41

EF Early flowering pool, LF Late flowering pool, OLS Obcordate leaf shape pool, LLS Lanceolate leaf shape pool.

^aICP 5529 short reads were aligned to the publicly available pigeonpea genome of Asha (Varshney et al. 2012).

^bThe short reads of bulks were aligned to the ICP 5529 assembly developed by replacement of SNPs between ICP 5529 and Asha.