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Let me teach you guys how to assemble mitochondrial genome from Illumina short reads sequence. Here is a XX-assembly.pbs script. We have been used Getorganelle software. Insert function: -1 xxx-1.fq.gz / -2 xxx-2.fq.gz / -t available CPU / -k kmers / -R 10 / -F animal_mt / -o output-directory You will get a log file to trace the details. https://t.me/EvolutionaryGenomics