Genome comparisons between D5 (new), D10, D5 (previous), and Dt (Wang et al. 2018). A) Genome alignment between G. turneri (D10) and G. raimondii (D5) B) Genome alignment between G. hirsutum (Dt) and G. turneri (D10) C) Genome alignment between G. hirsutum (Dt) and G. raimondii (D5) D) Genome alignment between G. raimondii (Paterson et al. 2012) and our new assembly of G. raimondii (D5). Red circles indicate assembly errors in the 2012 sequence as identified by these alignments and independent HiC data (e.g. D5_13 – Chr01, D5_11 – Chr03, D5_04 – Chr09, D5_02 – Chr13).