issues with mitogenome assembly

[lew213]

Hello Dr jin

I'm currently trying to assemble a mitogenome from Illumina paired reads. due to the volume of assemblies, I'm running in parallel on a cluster I've had to downsize my command. here are the settings from my batch script and the assembly graph.

get_organelle_from_reads.py -1 read_1 -2 read_2 -s refmitogenome -t 32 -o -R 2 -F embplant_mt

I've only managed partial assemblies of the plant's mitogenomes so far.

How could I improve the assembly quality?

kind regards