Sequence-based ultra-dense genetic and physical maps reveal structural variations of allopolyploid cotton genomes

Table 1 Summary of sequencing data from two parents and the mapping population in tetraploid cotton

Sample	Insert size (bp)	Read length (bp)	Raw data (Gbp)		HQ data (Gbp)
Sample	Insert size (bp)	Read length (bp)	Total data (Gbp)	Valid sequence depth (×)	Total data (Gbp)	Valid sequence depth (×)
TM-1	180 and 300	2 × 100	185.0	74.0	154.7	61.9
Hai7124	300	2 × 100	111.8	44.7	97.9	39.1
THF₂ ^a	300	2 × 100	938.0	375.2	784.0	313.6

^aTHF₂: 59 F₂ populations from a cross between TM-1 and Hai7124. The estimated genome size is 2.5G. The cutoff value for the PHRED quality score for high-quality filtering is 20. The cutoff value for the percentage of read length that should be of given quality is 70

ISSN: 1474-760X