This is cutadapt 2.10 with Python 3.6.7 Command line parameters: -j 1 -a AGATCGGAAGAGC -u 10 -q 20 -m 36 -O 3 -o fastq/zr1394_3_s456.fastq.gz zr1394_3_s456.fastq.gz Processing reads on 1 core in single-end mode ... Finished in 1227.72 s (25 us/read; 2.39 M reads/minute). === Summary === Total reads processed: 48,926,620 Reads with adapters: 277,349 (0.6%) Reads written (passing filters): 47,722,636 (97.5%) Total basepairs processed: 2,461,374,827 bp Quality-trimmed: 2,376,214 bp (0.1%) Total written (filtered): 1,934,522,075 bp (78.6%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 277349 times No. of allowed errors: 0-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 25.8% C: 1.7% G: 36.2% T: 36.3% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 220013 764478.4 0 220013 4 45725 191119.6 0 45725 5 5399 47779.9 0 5399 6 519 11945.0 0 519 7 1563 2986.2 0 1563 8 655 746.6 0 655 9 293 186.6 0 31 262 10 784 46.7 1 17 767 11 298 11.7 1 20 278 12 194 2.9 1 2 192 13 107 0.7 1 0 107 14 55 0.7 1 0 55 15 151 0.7 1 0 151 16 310 0.7 1 0 310 17 725 0.7 1 0 725 18 488 0.7 1 0 488 19 42 0.7 1 0 42 20 9 0.7 1 0 9 21 2 0.7 1 0 2 22 2 0.7 1 0 2 23 1 0.7 1 0 1 24 1 0.7 1 0 1 25 3 0.7 1 0 3 26 7 0.7 1 0 7 27 1 0.7 1 0 1 28 1 0.7 1 0 1 30 1 0.7 1 0 1