Konnector merges very few reads for high-coverage genome

[zcalamari]

abyss-pe version 2.1.5 (singularity container)
Linux Distribution: Rocky Linux release 8.9 (Green Obsidian)

Hello,

I am trying to troubleshoot using Konnector to generate pseudoreads for a mammalian genome around 2.7 Gb. The genome in question is approximately 100x coverage, but Konnector merges very few reads. Here is an example output:

Bloom filter FPR: 0.672%
Connecting read pairs
Processed 920776180 read pairs
Merged (Unique path + Multiple paths): 18 (1.95e-06%)
No start/goal kmer: 96582293 (10.5%)
No path: 515094849 (55.9%)
Unique path: 18 (1.95e-06%)
Multiple paths: 0 (0%)
Too many paths: 667414 (0.0725%)
Too many branches: 0 (0%)
Too many path/path mismatches: 16476 (0.00179%)
Too many path/read mismatches: 0 (0%)
Contains cycle: 0 (0%)
Max cost exceeded: 308415130 (33.5%)
Skipped: 0 (0%)
Bloom filter FPR: 0.672%

This was generated with this command:
singularity exec /home/calamari/abyss.sif konnector -j 128 -k 95 -b 220G --fastq -o Kon_2 -v Mg_1P.fq.gz Mg_2P.fq.gz

I have tried different k-mers, bloom filter sizes, and minimum coverage settings, with no improvement. I also increased the maximum search cost (--max-cost), but the operation timed out after a week without producing a result. Konnector has worked for me with lower coverage genomes (30x coverage for a species with a similar sized genome), so I am hoping I can get it to work as well again with these higher-coverage genomes. Is there anything I can do to address the number of reads with "no path" or "max cost exceeded"?

Thanks for the help!

Best,
Zac