cd "/Volumes/NGS 2TB/160707_Biomass"


usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF10_BR14_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF10_BR14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF10_BR14_merged.txt" -report BP_rerun_L001_BF10_BR14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF10_BR24_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF10_BR24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF10_BR24_merged.txt" -report BP_rerun_L001_BF10_BR24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF11_BR13_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF11_BR13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF11_BR13_merged.txt" -report BP_rerun_L001_BF11_BR13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF11_BR23_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF11_BR23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF11_BR23_merged.txt" -report BP_rerun_L001_BF11_BR23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF12_BR12_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF12_BR12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF12_BR12_merged.txt" -report BP_rerun_L001_BF12_BR12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF12_BR22_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF12_BR22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF12_BR22_merged.txt" -report BP_rerun_L001_BF12_BR22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF13_BR11_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF13_BR11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF13_BR11_merged.txt" -report BP_rerun_L001_BF13_BR11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF13_BR21_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF13_BR21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF13_BR21_merged.txt" -report BP_rerun_L001_BF13_BR21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF14_BR10_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF14_BR10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF14_BR10_merged.txt" -report BP_rerun_L001_BF14_BR10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF14_BR20_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF14_BR20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF14_BR20_merged.txt" -report BP_rerun_L001_BF14_BR20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF20_BR14_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF20_BR14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF20_BR14_merged.txt" -report BP_rerun_L001_BF20_BR14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF20_BR24_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF20_BR24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF20_BR24_merged.txt" -report BP_rerun_L001_BF20_BR24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF21_BR13_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF21_BR13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF21_BR13_merged.txt" -report BP_rerun_L001_BF21_BR13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF21_BR23_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF21_BR23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF21_BR23_merged.txt" -report BP_rerun_L001_BF21_BR23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF22_BR12_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF22_BR12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF22_BR12_merged.txt" -report BP_rerun_L001_BF22_BR12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF22_BR22_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF22_BR22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF22_BR22_merged.txt" -report BP_rerun_L001_BF22_BR22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF23_BR11_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF23_BR11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF23_BR11_merged.txt" -report BP_rerun_L001_BF23_BR11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF23_BR21_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF23_BR21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF23_BR21_merged.txt" -report BP_rerun_L001_BF23_BR21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF24_BR10_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF24_BR10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF24_BR10_merged.txt" -report BP_rerun_L001_BF24_BR10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BF24_BR20_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BF24_BR20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BF24_BR20_merged.txt" -report BP_rerun_L001_BF24_BR20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR10_BF14_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR10_BF14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR10_BF14_merged.txt" -report BP_rerun_L001_BR10_BF14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR10_BF24_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR10_BF24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR10_BF24_merged.txt" -report BP_rerun_L001_BR10_BF24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR11_BF13_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR11_BF13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR11_BF13_merged.txt" -report BP_rerun_L001_BR11_BF13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR11_BF23_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR11_BF23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR11_BF23_merged.txt" -report BP_rerun_L001_BR11_BF23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR12_BF12_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR12_BF12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR12_BF12_merged.txt" -report BP_rerun_L001_BR12_BF12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR12_BF22_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR12_BF22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR12_BF22_merged.txt" -report BP_rerun_L001_BR12_BF22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR13_BF11_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR13_BF11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR13_BF11_merged.txt" -report BP_rerun_L001_BR13_BF11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR13_BF21_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR13_BF21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR13_BF21_merged.txt" -report BP_rerun_L001_BR13_BF21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR14_BF10_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR14_BF10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR14_BF10_merged.txt" -report BP_rerun_L001_BR14_BF10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR14_BF20_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR14_BF20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR14_BF20_merged.txt" -report BP_rerun_L001_BR14_BF20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR20_BF14_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR20_BF14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR20_BF14_merged.txt" -report BP_rerun_L001_BR20_BF14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR20_BF24_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR20_BF24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR20_BF24_merged.txt" -report BP_rerun_L001_BR20_BF24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR21_BF13_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR21_BF13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR21_BF13_merged.txt" -report BP_rerun_L001_BR21_BF13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR21_BF23_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR21_BF23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR21_BF23_merged.txt" -report BP_rerun_L001_BR21_BF23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR22_BF12_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR22_BF12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR22_BF12_merged.txt" -report BP_rerun_L001_BR22_BF12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR22_BF22_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR22_BF22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR22_BF22_merged.txt" -report BP_rerun_L001_BR22_BF22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR23_BF11_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR23_BF11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR23_BF11_merged.txt" -report BP_rerun_L001_BR23_BF11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR23_BF21_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR23_BF21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR23_BF21_merged.txt" -report BP_rerun_L001_BR23_BF21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR24_BF10_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR24_BF10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR24_BF10_merged.txt" -report BP_rerun_L001_BR24_BF10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L001_demultiplexed/BP_rerun_L001_BR24_BF20_r1.txt" -reverse "L001_demultiplexed/BP_rerun_L001_BR24_BF20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L001_BR24_BF20_merged.txt" -report BP_rerun_L001_BR24_BF20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF10_BR14_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF10_BR14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF10_BR14_merged.txt" -report BP_rerun_L002_BF10_BR14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF10_BR24_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF10_BR24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF10_BR24_merged.txt" -report BP_rerun_L002_BF10_BR24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF11_BR13_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF11_BR13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF11_BR13_merged.txt" -report BP_rerun_L002_BF11_BR13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF11_BR23_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF11_BR23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF11_BR23_merged.txt" -report BP_rerun_L002_BF11_BR23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF12_BR12_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF12_BR12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF12_BR12_merged.txt" -report BP_rerun_L002_BF12_BR12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF12_BR22_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF12_BR22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF12_BR22_merged.txt" -report BP_rerun_L002_BF12_BR22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF13_BR11_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF13_BR11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF13_BR11_merged.txt" -report BP_rerun_L002_BF13_BR11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF13_BR21_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF13_BR21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF13_BR21_merged.txt" -report BP_rerun_L002_BF13_BR21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF14_BR10_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF14_BR10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF14_BR10_merged.txt" -report BP_rerun_L002_BF14_BR10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF14_BR20_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF14_BR20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF14_BR20_merged.txt" -report BP_rerun_L002_BF14_BR20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF20_BR14_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF20_BR14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF20_BR14_merged.txt" -report BP_rerun_L002_BF20_BR14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF20_BR24_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF20_BR24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF20_BR24_merged.txt" -report BP_rerun_L002_BF20_BR24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF21_BR13_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF21_BR13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF21_BR13_merged.txt" -report BP_rerun_L002_BF21_BR13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF21_BR23_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF21_BR23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF21_BR23_merged.txt" -report BP_rerun_L002_BF21_BR23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF22_BR12_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF22_BR12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF22_BR12_merged.txt" -report BP_rerun_L002_BF22_BR12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF22_BR22_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF22_BR22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF22_BR22_merged.txt" -report BP_rerun_L002_BF22_BR22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF23_BR11_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF23_BR11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF23_BR11_merged.txt" -report BP_rerun_L002_BF23_BR11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF23_BR21_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF23_BR21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF23_BR21_merged.txt" -report BP_rerun_L002_BF23_BR21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF24_BR10_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF24_BR10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF24_BR10_merged.txt" -report BP_rerun_L002_BF24_BR10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BF24_BR20_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BF24_BR20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BF24_BR20_merged.txt" -report BP_rerun_L002_BF24_BR20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR10_BF14_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR10_BF14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR10_BF14_merged.txt" -report BP_rerun_L002_BR10_BF14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR10_BF24_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR10_BF24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR10_BF24_merged.txt" -report BP_rerun_L002_BR10_BF24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR11_BF13_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR11_BF13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR11_BF13_merged.txt" -report BP_rerun_L002_BR11_BF13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR11_BF23_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR11_BF23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR11_BF23_merged.txt" -report BP_rerun_L002_BR11_BF23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR12_BF12_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR12_BF12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR12_BF12_merged.txt" -report BP_rerun_L002_BR12_BF12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR12_BF22_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR12_BF22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR12_BF22_merged.txt" -report BP_rerun_L002_BR12_BF22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR13_BF11_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR13_BF11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR13_BF11_merged.txt" -report BP_rerun_L002_BR13_BF11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR13_BF21_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR13_BF21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR13_BF21_merged.txt" -report BP_rerun_L002_BR13_BF21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR14_BF10_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR14_BF10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR14_BF10_merged.txt" -report BP_rerun_L002_BR14_BF10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR14_BF20_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR14_BF20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR14_BF20_merged.txt" -report BP_rerun_L002_BR14_BF20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR20_BF14_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR20_BF14_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR20_BF14_merged.txt" -report BP_rerun_L002_BR20_BF14_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR20_BF24_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR20_BF24_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR20_BF24_merged.txt" -report BP_rerun_L002_BR20_BF24_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR21_BF13_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR21_BF13_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR21_BF13_merged.txt" -report BP_rerun_L002_BR21_BF13_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR21_BF23_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR21_BF23_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR21_BF23_merged.txt" -report BP_rerun_L002_BR21_BF23_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR22_BF12_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR22_BF12_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR22_BF12_merged.txt" -report BP_rerun_L002_BR22_BF12_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR22_BF22_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR22_BF22_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR22_BF22_merged.txt" -report BP_rerun_L002_BR22_BF22_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR23_BF11_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR23_BF11_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR23_BF11_merged.txt" -report BP_rerun_L002_BR23_BF11_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR23_BF21_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR23_BF21_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR23_BF21_merged.txt" -report BP_rerun_L002_BR23_BF21_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR24_BF10_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR24_BF10_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR24_BF10_merged.txt" -report BP_rerun_L002_BR24_BF10_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

usearch -fastq_mergepairs "L002_demultiplexed/BP_rerun_L002_BR24_BF20_r1.txt" -reverse "L002_demultiplexed/BP_rerun_L002_BR24_BF20_r2.txt" -fastqout "2 PE read merging/BP_rerun_L002_BR24_BF20_merged.txt" -report BP_rerun_L002_BR24_BF20_merged.txt -fastq_maxdiffs 99 -fastq_maxdiffpct 99

