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One sample of a fresh leaf from each rice variety was collected for next generation sequencing. Leaf samples were then wrapped in aluminum foil and put in liquid nitrogen for 2 hours, prior to storing at -80 degree Celsius overnight for sequencing. Sequencing was performed on the Illumina HiSeq X Ten (Illumina, Inc., San Diego, CA, USA) with data processing software Illumina Casava 1.8. Raw data was filtered for cleaner reads