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_2_s456.fastq.gz zr1394_2_s456.fastq.gz Processing reads on 1 core in single-end mode ... Finished in 1173.30 s (25 us/read; 2.39 M reads/minute). === Summary === Total reads processed: 46,666,438 Reads with adapters: 293,129 (0.6%) Reads written (passing filters): 45,444,310 (97.4%) Total basepairs processed: 2,346,424,714 bp Quality-trimmed: 2,325,584 bp (0.1%) Total written (filtered): 1,841,649,396 bp (78.5%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 293129 times No. of allowed errors: 0-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 26.3% C: 1.8% G: 36.1% T: 35.8% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 231914 729163.1 0 231914 4 47964 182290.8 0 47964 5 5843 45572.7 0 5843 6 651 11393.2 0 651 7 1872 2848.3 0 1872 8 729 712.1 0 729 9 428 178.0 0 34 394 10 867 44.5 1 9 858 11 372 11.1 1 56 316 12 207 2.8 1 0 207 13 102 0.7 1 0 102 14 90 0.7 1 0 90 15 171 0.7 1 0 171 16 402 0.7 1 0 402 17 850 0.7 1 0 850 18 560 0.7 1 0 560 19 58 0.7 1 0 58 20 11 0.7 1 0 11 21 4 0.7 1 0 4 22 9 0.7 1 0 9 23 3 0.7 1 0 3 24 4 0.7 1 0 4 25 5 0.7 1 0 5 26 5 0.7 1 0 5 27 1 0.7 1 0 1 28 2 0.7 1 0 2 29 5 0.7 1 0 5