Figure 2.

HiC interactions detected in the previously published G. raimondii genome sequence (Paterson et al. 2012). A) Most interaction maps of chromosome sequences suggested that the genome sequence was assembled in the correct order. B) A sequence was incorrectly assembled within Chr. 9 (now D5_05) that created a large insertion (red box). Few interactions were found between the inserted segment and the remainder of Chr. 9. C) Corresponding interactions were identified in the HiC interaction plot between Chr. 9 and Chr. 12 (now D5_04), as well as ‘pinch’ within the diagonal interaction map in Chr. 12, indicating the true position of the incorrectly assembled sequence.