Fig. 1

Whole-genome sequencing of 20 varieties and the characteristics of the generated polymorphisms, with the addition of two Spanish genotypes. (a) Number of reads obtained from the whole-genome sequencing of 20 rice varieties. The violin plot represents the distribution of total reads, mapped reads, mapped and paired, and unique alignments obtained from the alignment with the rice reference genome. (b) Length of the InDels identified in 22 rice varieties, in comparison with Nipponbare. Negative numbers correspond to deletions and positive to insertions of a number of nucleotides. The number of InDels with each size is on a logarithmic scale. (c) Substitutions detected on SNPs data. A- Adenine, C- Cytosine, G- Guanine, T- Thymine. The number of SNPs is on a logarithmic scale.