Figure 2: Comparison of high-copy k-mers between B73 and Mo17. | Scientific Reports

Figure 2: Comparison of high-copy k-mers between B73 and Mo17.

From: Unbiased K-mer Analysis Reveals Changes in Copy Number of Highly Repetitive Sequences During Maize Domestication and Improvement

Figure 2

(a) A scatter plot of counts of high abundance k-mers from error corrected WGS reads. K-mers were annotated by BLASTN to the maize repeat database. (b) Four major repeat classes containing k-mers that exhibit statistically significant differential counts and at least two-fold changes between B73 and Mo17, were shown. Two types, Mo17-gain and B73-gain, respectively represent more counts in Mo17 and more counts in B73. (c) Genome-wide view of the distribution on the B73Ref3 reference genome of k-mers with differential B73 and Mo17 counts. All perfect hits each of which is end-to-end and 100% matching to the reference genome were used for determining the number of hits per bin (100 kb). The number of hits in each bin with at least 10 hits was plotted versus bin physical locations on the B73Ref3. Different functional groups were color- and shape-coded.

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