Is it possible to do mummerplot with reference and query sequences that have many contigs?

Hi, I have a reference genome that has 9 contigs and query genome that has 56 contigs. They both has more than 99 % identical nucleotides. I tried to make mummerplot but got really weird results. I don’t have a screenshot to show you but the lines were all over the plot, there are usually 2 lines but I got multiple lines and I can’t really use that output to present my findings. So is there a way to do mummerplot with multiple contigs or is there a similar tool that can use multiple contigs?