I have received fungal Nanopore sequences and assembled (de novo) trimmed reads using Flye 2.9+. I used Bandage on the assembly to be able to visualize the data. However, the assembly looks highly scrambled and I wonder why that is? When you see a graph like below, what is your immediate first thought on how to improve things?

Flye does not have a large number of parameters, but I tried increasing the minimal read overlap and retainment of haplotypes, but results are (largely) the same. No scaffolding. Ofcourse, I also realize the Nanopore data could be completely rubbish.

I'm fairly new to genomic analysis but I wish to learn and improve.