Hi all . I'm new to this field as I'm working on my thesis , and I'm kind of lost here .
My main objective is to prove the hypothesis assumes that Microsatellites regions in plants genomes could be one of the forces that lead to defect existing or generate new genes or lead to form pseudo-genes or non-translated expressed genes as they are considered hotspots for homologous and non-homologous crossing over .
Also , I need to detect the changes in the functional annotation of genes , and the changes that might occur in the same family using synteny analysis and pairwise alignment by evaluating the resemblance degree between the left sides of Microsatellites regions in multiple genes , and the right ones as well .
My supervisor directed me to use the NCBI BLAST+ and BioEdit software to perform some of the main objectives , but when I get into it them I was confused and didn't know what to do .
Any valuable comments and help would be appreciated .