Hi, I used the software glimmer and online database RAST to annotate a draft genome. Both results showed that the genome does not contain some genes(here named A,B,C,D). But I used the gene and protein sequences of A,B,C,D to search(blast) the draft genome and got the complete matches. in these alignment-match areas, there are no ORFs predicted by glimmer or RAST. I was confused and didn't know how to deal with these results. Dose the genome have the genes A,B,C,D? hope to get some answers from you!