You sequence 1000 rice lines inbred strains collected from f

You sequence 1000 rice lines (inbred strains) collected from farmers in Southeast Asia. Your goal is to examine the resulting sequence data with the hope of locating genomic regions that have been selected because they confer favorable traits (that is, genomic regions and genes that farmers have selected for good grain yield). Name two patterns in the sequence data that you would look for to identify regions harboring alleles because they were favorable for agriculture (and explain the rationale for why you would look for these patterns.

Solution

Consensus sequence patterns and conserved sequence patterens can be used to identify regions harboring alleles.

We can use molecular markers alongwith appropriate DNA sequencing method as well as there are free online databases like NCBI that can be used to get information about those genomic patterns.