Accession information used in this study and the number and percentage of short reads mapped onto the Cotton D genome reference assembly.

CRB252-Derives from a double cross, SG 248/PHY 72//ST 474/Maxxa.data from the study number SRP001603 at NCBI SRA. Fiber samples from TX2094 and Maxxa were collected in different growing seasons; thus, this TX2094 was noted as “YUC” to be distinguished from TX2094, which was collected in the same year as the other materials.