I want to test gene copy number of some genes. I designed the primer using primer3 and what to test whether the primers are specific to my genes. I know some tools can do this. For example, I tried primer-blast, but it can not work when I test it against the whole genome (about 3G base pairs). I also know others (e.g., UCSC In-Silico PCR), but since our genome is new, I can not provide my genome. Do anyone knows some tools can handle large genome to check specificity of primers?