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2-1.assembling_50_plastomes_using_GetOrganelle.sh
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2-1.assembling_50_plastomes_using_GetOrganelle.sh
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# auto
get_organelle_from_reads.py -1 SRR5602593_1.fastq.gz -2 SRR5602593_2.fastq.gz -F plant_cp -o auto--SRR5602593-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602583_1.fastq.gz -2 SRR5602583_2.fastq.gz -F plant_cp -o auto--SRR5602583-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602588_1.fastq.gz -2 SRR5602588_2.fastq.gz -F plant_cp -o auto--SRR5602588-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602608_1.fastq.gz -2 SRR5602608_2.fastq.gz -F plant_cp -o auto--SRR5602608-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602587_1.fastq.gz -2 SRR5602587_2.fastq.gz -F plant_cp -o auto--SRR5602587-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 ERR2206741_1.fastq.gz -2 ERR2206741_2.fastq.gz -F plant_cp -o auto--ERR2206741-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602607_1.fastq.gz -2 SRR5602607_2.fastq.gz -F plant_cp -o auto--SRR5602607-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 ERR1917165_1.fastq.gz -2 ERR1917165_2.fastq.gz -F plant_cp -o auto--ERR1917165-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602584_1.fastq.gz -2 SRR5602584_2.fastq.gz -F plant_cp -o auto--SRR5602584-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602592_1.fastq.gz -2 SRR5602592_2.fastq.gz -F plant_cp -o auto--SRR5602592-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 ERR268390_1.fastq.gz -2 ERR268390_2.fastq.gz -F plant_cp -o auto--ERR268390-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602610_1.fastq.gz -2 SRR5602610_2.fastq.gz -F plant_cp -o auto--SRR5602610-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602603_1.fastq.gz -2 SRR5602603_2.fastq.gz -F plant_cp -o auto--SRR5602603-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5028199_1.fastq.gz -2 SRR5028199_2.fastq.gz -F plant_cp -o auto--SRR5028199-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602609_1.fastq.gz -2 SRR5602609_2.fastq.gz -F plant_cp -o auto--SRR5602609-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602581_1.fastq.gz -2 SRR5602581_2.fastq.gz -F plant_cp -o auto--SRR5602581-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602598_1.fastq.gz -2 SRR5602598_2.fastq.gz -F plant_cp -o auto--SRR5602598-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602594_1.fastq.gz -2 SRR5602594_2.fastq.gz -F plant_cp -o auto--SRR5602594-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 ERR964904_1.fastq.gz -2 ERR964904_2.fastq.gz -F plant_cp -o auto--ERR964904-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR2037123_1.fastq.gz -2 SRR2037123_2.fastq.gz -F plant_cp -o auto--SRR2037123-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602575_1.fastq.gz -2 SRR5602575_2.fastq.gz -F plant_cp -o auto--SRR5602575-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602591_1.fastq.gz -2 SRR5602591_2.fastq.gz -F plant_cp -o auto--SRR5602591-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602586_1.fastq.gz -2 SRR5602586_2.fastq.gz -F plant_cp -o auto--SRR5602586-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602572_1.fastq.gz -2 SRR5602572_2.fastq.gz -F plant_cp -o auto--SRR5602572-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602596_1.fastq.gz -2 SRR5602596_2.fastq.gz -F plant_cp -o auto--SRR5602596-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602606_1.fastq.gz -2 SRR5602606_2.fastq.gz -F plant_cp -o auto--SRR5602606-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602605_1.fastq.gz -2 SRR5602605_2.fastq.gz -F plant_cp -o auto--SRR5602605-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR4428742_1.fastq.gz -2 SRR4428742_2.fastq.gz -F plant_cp -o auto--SRR4428742-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602579_1.fastq.gz -2 SRR5602579_2.fastq.gz -F plant_cp -o auto--SRR5602579-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR2057084_1.fastq.gz -2 SRR2057084_2.fastq.gz -F plant_cp -o auto--SRR2057084-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602604_1.fastq.gz -2 SRR5602604_2.fastq.gz -F plant_cp -o auto--SRR5602604-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602595_1.fastq.gz -2 SRR5602595_2.fastq.gz -F plant_cp -o auto--SRR5602595-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602601_1.fastq.gz -2 SRR5602601_2.fastq.gz -F plant_cp -o auto--SRR5602601-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602602_1.fastq.gz -2 SRR5602602_2.fastq.gz -F plant_cp -o auto--SRR5602602-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602574_1.fastq.gz -2 SRR5602574_2.fastq.gz -F plant_cp -o auto--SRR5602574-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR1145775_1.fastq.gz -2 SRR1145775_2.fastq.gz -F plant_cp -o auto--SRR1145775-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR6932851_1.fastq.gz -2 SRR6932851_2.fastq.gz -F plant_cp -o auto--SRR6932851-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602576_1.fastq.gz -2 SRR5602576_2.fastq.gz -F plant_cp -o auto--SRR5602576-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602573_1.fastq.gz -2 SRR5602573_2.fastq.gz -F plant_cp -o auto--SRR5602573-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR6478596_1.fastq.gz -2 SRR6478596_2.fastq.gz -F plant_cp -o auto--SRR6478596-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602582_1.fastq.gz -2 SRR5602582_2.fastq.gz -F plant_cp -o auto--SRR5602582-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602600_1.fastq.gz -2 SRR5602600_2.fastq.gz -F plant_cp -o auto--SRR5602600-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602597_1.fastq.gz -2 SRR5602597_2.fastq.gz -F plant_cp -o auto--SRR5602597-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602589_1.fastq.gz -2 SRR5602589_2.fastq.gz -F plant_cp -o auto--SRR5602589-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602577_1.fastq.gz -2 SRR5602577_2.fastq.gz -F plant_cp -o auto--SRR5602577-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602590_1.fastq.gz -2 SRR5602590_2.fastq.gz -F plant_cp -o auto--SRR5602590-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602585_1.fastq.gz -2 SRR5602585_2.fastq.gz -F plant_cp -o auto--SRR5602585-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602578_1.fastq.gz -2 SRR5602578_2.fastq.gz -F plant_cp -o auto--SRR5602578-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR5602599_1.fastq.gz -2 SRR5602599_2.fastq.gz -F plant_cp -o auto--SRR5602599-plastome -R 10 -t 1 -k 21,55,91,127
get_organelle_from_reads.py -1 SRR7630500_1.fastq.gz -2 SRR7630500_2.fastq.gz -F plant_cp -o auto--SRR7630500-plastome -R 10 -t 1 -k 21,55,91,127
# -w 0.60 -R 10
get_organelle_from_reads.py -1 SRR5602593_1.fastq.gz -2 SRR5602593_2.fastq.gz -F plant_cp -o w0.60--SRR5602593-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602583_1.fastq.gz -2 SRR5602583_2.fastq.gz -F plant_cp -o w0.60--SRR5602583-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602588_1.fastq.gz -2 SRR5602588_2.fastq.gz -F plant_cp -o w0.60--SRR5602588-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602608_1.fastq.gz -2 SRR5602608_2.fastq.gz -F plant_cp -o w0.60--SRR5602608-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602587_1.fastq.gz -2 SRR5602587_2.fastq.gz -F plant_cp -o w0.60--SRR5602587-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 ERR2206741_1.fastq.gz -2 ERR2206741_2.fastq.gz -F plant_cp -o w0.60--ERR2206741-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602607_1.fastq.gz -2 SRR5602607_2.fastq.gz -F plant_cp -o w0.60--SRR5602607-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 ERR1917165_1.fastq.gz -2 ERR1917165_2.fastq.gz -F plant_cp -o w0.60--ERR1917165-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602584_1.fastq.gz -2 SRR5602584_2.fastq.gz -F plant_cp -o w0.60--SRR5602584-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602592_1.fastq.gz -2 SRR5602592_2.fastq.gz -F plant_cp -o w0.60--SRR5602592-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 ERR268390_1.fastq.gz -2 ERR268390_2.fastq.gz -F plant_cp -o w0.60--ERR268390-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602610_1.fastq.gz -2 SRR5602610_2.fastq.gz -F plant_cp -o w0.60--SRR5602610-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602603_1.fastq.gz -2 SRR5602603_2.fastq.gz -F plant_cp -o w0.60--SRR5602603-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5028199_1.fastq.gz -2 SRR5028199_2.fastq.gz -F plant_cp -o w0.60--SRR5028199-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602609_1.fastq.gz -2 SRR5602609_2.fastq.gz -F plant_cp -o w0.60--SRR5602609-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602581_1.fastq.gz -2 SRR5602581_2.fastq.gz -F plant_cp -o w0.60--SRR5602581-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602598_1.fastq.gz -2 SRR5602598_2.fastq.gz -F plant_cp -o w0.60--SRR5602598-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602594_1.fastq.gz -2 SRR5602594_2.fastq.gz -F plant_cp -o w0.60--SRR5602594-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 ERR964904_1.fastq.gz -2 ERR964904_2.fastq.gz -F plant_cp -o w0.60--ERR964904-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR2037123_1.fastq.gz -2 SRR2037123_2.fastq.gz -F plant_cp -o w0.60--SRR2037123-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602575_1.fastq.gz -2 SRR5602575_2.fastq.gz -F plant_cp -o w0.60--SRR5602575-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602591_1.fastq.gz -2 SRR5602591_2.fastq.gz -F plant_cp -o w0.60--SRR5602591-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602586_1.fastq.gz -2 SRR5602586_2.fastq.gz -F plant_cp -o w0.60--SRR5602586-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602572_1.fastq.gz -2 SRR5602572_2.fastq.gz -F plant_cp -o w0.60--SRR5602572-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602596_1.fastq.gz -2 SRR5602596_2.fastq.gz -F plant_cp -o w0.60--SRR5602596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602606_1.fastq.gz -2 SRR5602606_2.fastq.gz -F plant_cp -o w0.60--SRR5602606-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602605_1.fastq.gz -2 SRR5602605_2.fastq.gz -F plant_cp -o w0.60--SRR5602605-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR4428742_1.fastq.gz -2 SRR4428742_2.fastq.gz -F plant_cp -o w0.60--SRR4428742-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602579_1.fastq.gz -2 SRR5602579_2.fastq.gz -F plant_cp -o w0.60--SRR5602579-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR2057084_1.fastq.gz -2 SRR2057084_2.fastq.gz -F plant_cp -o w0.60--SRR2057084-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602604_1.fastq.gz -2 SRR5602604_2.fastq.gz -F plant_cp -o w0.60--SRR5602604-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602595_1.fastq.gz -2 SRR5602595_2.fastq.gz -F plant_cp -o w0.60--SRR5602595-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602601_1.fastq.gz -2 SRR5602601_2.fastq.gz -F plant_cp -o w0.60--SRR5602601-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602602_1.fastq.gz -2 SRR5602602_2.fastq.gz -F plant_cp -o w0.60--SRR5602602-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602574_1.fastq.gz -2 SRR5602574_2.fastq.gz -F plant_cp -o w0.60--SRR5602574-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR1145775_1.fastq.gz -2 SRR1145775_2.fastq.gz -F plant_cp -o w0.60--SRR1145775-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR6932851_1.fastq.gz -2 SRR6932851_2.fastq.gz -F plant_cp -o w0.60--SRR6932851-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602576_1.fastq.gz -2 SRR5602576_2.fastq.gz -F plant_cp -o w0.60--SRR5602576-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602573_1.fastq.gz -2 SRR5602573_2.fastq.gz -F plant_cp -o w0.60--SRR5602573-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR6478596_1.fastq.gz -2 SRR6478596_2.fastq.gz -F plant_cp -o w0.60--SRR6478596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602582_1.fastq.gz -2 SRR5602582_2.fastq.gz -F plant_cp -o w0.60--SRR5602582-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602600_1.fastq.gz -2 SRR5602600_2.fastq.gz -F plant_cp -o w0.60--SRR5602600-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602597_1.fastq.gz -2 SRR5602597_2.fastq.gz -F plant_cp -o w0.60--SRR5602597-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602589_1.fastq.gz -2 SRR5602589_2.fastq.gz -F plant_cp -o w0.60--SRR5602589-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602577_1.fastq.gz -2 SRR5602577_2.fastq.gz -F plant_cp -o w0.60--SRR5602577-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602590_1.fastq.gz -2 SRR5602590_2.fastq.gz -F plant_cp -o w0.60--SRR5602590-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602585_1.fastq.gz -2 SRR5602585_2.fastq.gz -F plant_cp -o w0.60--SRR5602585-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602578_1.fastq.gz -2 SRR5602578_2.fastq.gz -F plant_cp -o w0.60--SRR5602578-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR5602599_1.fastq.gz -2 SRR5602599_2.fastq.gz -F plant_cp -o w0.60--SRR5602599-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
get_organelle_from_reads.py -1 SRR7630500_1.fastq.gz -2 SRR7630500_2.fastq.gz -F plant_cp -o w0.60--SRR7630500-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.60
# -w 0.70 -R 10
get_organelle_from_reads.py -1 SRR5602593_1.fastq.gz -2 SRR5602593_2.fastq.gz -F plant_cp -o w0.70--SRR5602593-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602583_1.fastq.gz -2 SRR5602583_2.fastq.gz -F plant_cp -o w0.70--SRR5602583-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602588_1.fastq.gz -2 SRR5602588_2.fastq.gz -F plant_cp -o w0.70--SRR5602588-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602608_1.fastq.gz -2 SRR5602608_2.fastq.gz -F plant_cp -o w0.70--SRR5602608-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602587_1.fastq.gz -2 SRR5602587_2.fastq.gz -F plant_cp -o w0.70--SRR5602587-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 ERR2206741_1.fastq.gz -2 ERR2206741_2.fastq.gz -F plant_cp -o w0.70--ERR2206741-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602607_1.fastq.gz -2 SRR5602607_2.fastq.gz -F plant_cp -o w0.70--SRR5602607-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 ERR1917165_1.fastq.gz -2 ERR1917165_2.fastq.gz -F plant_cp -o w0.70--ERR1917165-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602584_1.fastq.gz -2 SRR5602584_2.fastq.gz -F plant_cp -o w0.70--SRR5602584-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602592_1.fastq.gz -2 SRR5602592_2.fastq.gz -F plant_cp -o w0.70--SRR5602592-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 ERR268390_1.fastq.gz -2 ERR268390_2.fastq.gz -F plant_cp -o w0.70--ERR268390-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602610_1.fastq.gz -2 SRR5602610_2.fastq.gz -F plant_cp -o w0.70--SRR5602610-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602603_1.fastq.gz -2 SRR5602603_2.fastq.gz -F plant_cp -o w0.70--SRR5602603-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5028199_1.fastq.gz -2 SRR5028199_2.fastq.gz -F plant_cp -o w0.70--SRR5028199-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602609_1.fastq.gz -2 SRR5602609_2.fastq.gz -F plant_cp -o w0.70--SRR5602609-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602581_1.fastq.gz -2 SRR5602581_2.fastq.gz -F plant_cp -o w0.70--SRR5602581-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602598_1.fastq.gz -2 SRR5602598_2.fastq.gz -F plant_cp -o w0.70--SRR5602598-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602594_1.fastq.gz -2 SRR5602594_2.fastq.gz -F plant_cp -o w0.70--SRR5602594-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 ERR964904_1.fastq.gz -2 ERR964904_2.fastq.gz -F plant_cp -o w0.70--ERR964904-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR2037123_1.fastq.gz -2 SRR2037123_2.fastq.gz -F plant_cp -o w0.70--SRR2037123-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602575_1.fastq.gz -2 SRR5602575_2.fastq.gz -F plant_cp -o w0.70--SRR5602575-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602591_1.fastq.gz -2 SRR5602591_2.fastq.gz -F plant_cp -o w0.70--SRR5602591-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602586_1.fastq.gz -2 SRR5602586_2.fastq.gz -F plant_cp -o w0.70--SRR5602586-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602572_1.fastq.gz -2 SRR5602572_2.fastq.gz -F plant_cp -o w0.70--SRR5602572-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602596_1.fastq.gz -2 SRR5602596_2.fastq.gz -F plant_cp -o w0.70--SRR5602596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602606_1.fastq.gz -2 SRR5602606_2.fastq.gz -F plant_cp -o w0.70--SRR5602606-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602605_1.fastq.gz -2 SRR5602605_2.fastq.gz -F plant_cp -o w0.70--SRR5602605-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR4428742_1.fastq.gz -2 SRR4428742_2.fastq.gz -F plant_cp -o w0.70--SRR4428742-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602579_1.fastq.gz -2 SRR5602579_2.fastq.gz -F plant_cp -o w0.70--SRR5602579-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR2057084_1.fastq.gz -2 SRR2057084_2.fastq.gz -F plant_cp -o w0.70--SRR2057084-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602604_1.fastq.gz -2 SRR5602604_2.fastq.gz -F plant_cp -o w0.70--SRR5602604-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602595_1.fastq.gz -2 SRR5602595_2.fastq.gz -F plant_cp -o w0.70--SRR5602595-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602601_1.fastq.gz -2 SRR5602601_2.fastq.gz -F plant_cp -o w0.70--SRR5602601-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602602_1.fastq.gz -2 SRR5602602_2.fastq.gz -F plant_cp -o w0.70--SRR5602602-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602574_1.fastq.gz -2 SRR5602574_2.fastq.gz -F plant_cp -o w0.70--SRR5602574-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR1145775_1.fastq.gz -2 SRR1145775_2.fastq.gz -F plant_cp -o w0.70--SRR1145775-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR6932851_1.fastq.gz -2 SRR6932851_2.fastq.gz -F plant_cp -o w0.70--SRR6932851-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602576_1.fastq.gz -2 SRR5602576_2.fastq.gz -F plant_cp -o w0.70--SRR5602576-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602573_1.fastq.gz -2 SRR5602573_2.fastq.gz -F plant_cp -o w0.70--SRR5602573-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR6478596_1.fastq.gz -2 SRR6478596_2.fastq.gz -F plant_cp -o w0.70--SRR6478596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602582_1.fastq.gz -2 SRR5602582_2.fastq.gz -F plant_cp -o w0.70--SRR5602582-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602600_1.fastq.gz -2 SRR5602600_2.fastq.gz -F plant_cp -o w0.70--SRR5602600-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602597_1.fastq.gz -2 SRR5602597_2.fastq.gz -F plant_cp -o w0.70--SRR5602597-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602589_1.fastq.gz -2 SRR5602589_2.fastq.gz -F plant_cp -o w0.70--SRR5602589-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602577_1.fastq.gz -2 SRR5602577_2.fastq.gz -F plant_cp -o w0.70--SRR5602577-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602590_1.fastq.gz -2 SRR5602590_2.fastq.gz -F plant_cp -o w0.70--SRR5602590-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602585_1.fastq.gz -2 SRR5602585_2.fastq.gz -F plant_cp -o w0.70--SRR5602585-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602578_1.fastq.gz -2 SRR5602578_2.fastq.gz -F plant_cp -o w0.70--SRR5602578-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR5602599_1.fastq.gz -2 SRR5602599_2.fastq.gz -F plant_cp -o w0.70--SRR5602599-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
get_organelle_from_reads.py -1 SRR7630500_1.fastq.gz -2 SRR7630500_2.fastq.gz -F plant_cp -o w0.70--SRR7630500-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.70
# -w 0.80 -R 10
get_organelle_from_reads.py -1 SRR5602583_1.fastq.gz -2 SRR5602583_2.fastq.gz -F plant_cp -o w0.80--SRR5602583-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602588_1.fastq.gz -2 SRR5602588_2.fastq.gz -F plant_cp -o w0.80--SRR5602588-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602608_1.fastq.gz -2 SRR5602608_2.fastq.gz -F plant_cp -o w0.80--SRR5602608-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602587_1.fastq.gz -2 SRR5602587_2.fastq.gz -F plant_cp -o w0.80--SRR5602587-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 ERR2206741_1.fastq.gz -2 ERR2206741_2.fastq.gz -F plant_cp -o w0.80--ERR2206741-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602607_1.fastq.gz -2 SRR5602607_2.fastq.gz -F plant_cp -o w0.80--SRR5602607-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 ERR1917165_1.fastq.gz -2 ERR1917165_2.fastq.gz -F plant_cp -o w0.80--ERR1917165-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602584_1.fastq.gz -2 SRR5602584_2.fastq.gz -F plant_cp -o w0.80--SRR5602584-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602592_1.fastq.gz -2 SRR5602592_2.fastq.gz -F plant_cp -o w0.80--SRR5602592-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 ERR268390_1.fastq.gz -2 ERR268390_2.fastq.gz -F plant_cp -o w0.80--ERR268390-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602610_1.fastq.gz -2 SRR5602610_2.fastq.gz -F plant_cp -o w0.80--SRR5602610-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602603_1.fastq.gz -2 SRR5602603_2.fastq.gz -F plant_cp -o w0.80--SRR5602603-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5028199_1.fastq.gz -2 SRR5028199_2.fastq.gz -F plant_cp -o w0.80--SRR5028199-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602609_1.fastq.gz -2 SRR5602609_2.fastq.gz -F plant_cp -o w0.80--SRR5602609-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602581_1.fastq.gz -2 SRR5602581_2.fastq.gz -F plant_cp -o w0.80--SRR5602581-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602598_1.fastq.gz -2 SRR5602598_2.fastq.gz -F plant_cp -o w0.80--SRR5602598-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602594_1.fastq.gz -2 SRR5602594_2.fastq.gz -F plant_cp -o w0.80--SRR5602594-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 ERR964904_1.fastq.gz -2 ERR964904_2.fastq.gz -F plant_cp -o w0.80--ERR964904-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR2037123_1.fastq.gz -2 SRR2037123_2.fastq.gz -F plant_cp -o w0.80--SRR2037123-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602575_1.fastq.gz -2 SRR5602575_2.fastq.gz -F plant_cp -o w0.80--SRR5602575-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602591_1.fastq.gz -2 SRR5602591_2.fastq.gz -F plant_cp -o w0.80--SRR5602591-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602586_1.fastq.gz -2 SRR5602586_2.fastq.gz -F plant_cp -o w0.80--SRR5602586-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602572_1.fastq.gz -2 SRR5602572_2.fastq.gz -F plant_cp -o w0.80--SRR5602572-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602596_1.fastq.gz -2 SRR5602596_2.fastq.gz -F plant_cp -o w0.80--SRR5602596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602606_1.fastq.gz -2 SRR5602606_2.fastq.gz -F plant_cp -o w0.80--SRR5602606-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602605_1.fastq.gz -2 SRR5602605_2.fastq.gz -F plant_cp -o w0.80--SRR5602605-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR4428742_1.fastq.gz -2 SRR4428742_2.fastq.gz -F plant_cp -o w0.80--SRR4428742-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602579_1.fastq.gz -2 SRR5602579_2.fastq.gz -F plant_cp -o w0.80--SRR5602579-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR2057084_1.fastq.gz -2 SRR2057084_2.fastq.gz -F plant_cp -o w0.80--SRR2057084-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602604_1.fastq.gz -2 SRR5602604_2.fastq.gz -F plant_cp -o w0.80--SRR5602604-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602595_1.fastq.gz -2 SRR5602595_2.fastq.gz -F plant_cp -o w0.80--SRR5602595-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602601_1.fastq.gz -2 SRR5602601_2.fastq.gz -F plant_cp -o w0.80--SRR5602601-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602602_1.fastq.gz -2 SRR5602602_2.fastq.gz -F plant_cp -o w0.80--SRR5602602-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602574_1.fastq.gz -2 SRR5602574_2.fastq.gz -F plant_cp -o w0.80--SRR5602574-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR1145775_1.fastq.gz -2 SRR1145775_2.fastq.gz -F plant_cp -o w0.80--SRR1145775-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR6932851_1.fastq.gz -2 SRR6932851_2.fastq.gz -F plant_cp -o w0.80--SRR6932851-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602576_1.fastq.gz -2 SRR5602576_2.fastq.gz -F plant_cp -o w0.80--SRR5602576-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602573_1.fastq.gz -2 SRR5602573_2.fastq.gz -F plant_cp -o w0.80--SRR5602573-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR6478596_1.fastq.gz -2 SRR6478596_2.fastq.gz -F plant_cp -o w0.80--SRR6478596-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602582_1.fastq.gz -2 SRR5602582_2.fastq.gz -F plant_cp -o w0.80--SRR5602582-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602600_1.fastq.gz -2 SRR5602600_2.fastq.gz -F plant_cp -o w0.80--SRR5602600-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602597_1.fastq.gz -2 SRR5602597_2.fastq.gz -F plant_cp -o w0.80--SRR5602597-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602589_1.fastq.gz -2 SRR5602589_2.fastq.gz -F plant_cp -o w0.80--SRR5602589-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602577_1.fastq.gz -2 SRR5602577_2.fastq.gz -F plant_cp -o w0.80--SRR5602577-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602590_1.fastq.gz -2 SRR5602590_2.fastq.gz -F plant_cp -o w0.80--SRR5602590-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602585_1.fastq.gz -2 SRR5602585_2.fastq.gz -F plant_cp -o w0.80--SRR5602585-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602578_1.fastq.gz -2 SRR5602578_2.fastq.gz -F plant_cp -o w0.80--SRR5602578-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR5602599_1.fastq.gz -2 SRR5602599_2.fastq.gz -F plant_cp -o w0.80--SRR5602599-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
get_organelle_from_reads.py -1 SRR7630500_1.fastq.gz -2 SRR7630500_2.fastq.gz -F plant_cp -o w0.80--SRR7630500-plastome -R 10 -t 1 -k 21,55,91,127 -w 0.80
# customized
get_organelle_from_reads.py -1 ERR964904_1.fastq.gz -2 ERR964904_2.fastq.gz -o customized--ERR964904-plastome -R 8 -t 1 -k 55,85 -F embplant_pt && rm customized--ERR964904-plastome/embplant_pt.K85.contigs.graph1.* && disentangle_organelle_assembly.py -g customized--ERR964904-plastome/filtered_K85.assembly_graph.fastg.extend-embplant_pt-embplant_mt.fastg -t customized--ERR964904-plastome/filtered_K85.assembly_graph.fastg.extend-embplant_pt-embplant_mt.csv --prefix embplant_pt.K85.complete -o customized--ERR964904-plastome -F embplant_pt --weight-f 3 --min-depth 16
get_organelle_from_reads.py -1 SRR5602573_1.fastq.gz -2 SRR5602573_2.fastq.gz -o customized--SRR5602573-plastome -w 105 -R 3 -t 1 -k 75,127 --fast -F embplant_pt
get_organelle_from_reads.py -1 SRR5602574_1.fastq.gz -2 SRR5602574_2.fastq.gz -o customized--SRR5602574-plastome -w 53 -R 3 -t 1 -k 45,115 -F embplant_pt
get_organelle_from_reads.py -1 SRR5602575_1.fastq.gz -2 SRR5602575_2.fastq.gz -o customized--SRR5602575-plastome -w 56 -R 2 -t 1 -k 21,55,115 -F embplant_pt
get_organelle_from_reads.py -1 SRR5602577_1.fastq.gz -2 SRR5602577_2.fastq.gz -o customized--SRR5602577-plastome -w 129 -R 5 -t 1 -k 75,127 -F embplant_pt
get_organelle_from_reads.py -1 SRR5602579_1.fastq.gz -2 SRR5602579_2.fastq.gz -o customized--SRR5602579-plastome -w 95 -R 10 -t 1 -k 75,127 -F embplant_pt
get_organelle_from_reads.py -1 SRR5602609_1.fastq.gz -2 SRR5602609_2.fastq.gz -o customized--SRR5602609-plastome -w 51 -R 5 -t 1 -k 21,45,55,75,85,105,115,127 -F embplant_pt
get_organelle_from_reads.py -1 SRR5602581_1.fastq.gz -2 SRR5602581_2.fastq.gz -F embplant_pt -o customized--SRR5602581-plastome -R 10 -t 1 -k 21,55,91,127 --max-extending-len auto
mkdir GetOrganelle-plastome
mv *plastome GetOrganelle-plastome