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_6_s456.fastq.gz zr1394_6_s456.fastq.gz Processing reads on 1 core in single-end mode ... Finished in 1176.98 s (25 us/read; 2.39 M reads/minute). === Summary === Total reads processed: 46,944,411 Reads with adapters: 262,281 (0.6%) Reads written (passing filters): 45,882,466 (97.7%) Total basepairs processed: 2,363,416,290 bp Quality-trimmed: 2,071,080 bp (0.1%) Total written (filtered): 1,860,889,616 bp (78.7%) === Adapter 1 === Sequence: AGATCGGAAGAGC; Type: regular 3'; Length: 13; Trimmed: 262281 times No. of allowed errors: 0-9 bp: 0; 10-13 bp: 1 Bases preceding removed adapters: A: 26.3% C: 1.5% G: 34.6% T: 37.6% none/other: 0.0% Overview of removed sequences length count expect max.err error counts 3 205119 733506.4 0 205119 4 46934 183376.6 0 46934 5 4257 45844.2 0 4257 6 546 11461.0 0 546 7 1291 2865.3 0 1291 8 568 716.3 0 568 9 310 179.1 0 31 279 10 633 44.8 1 10 623 11 286 11.2 1 35 251 12 204 2.8 1 1 203 13 90 0.7 1 0 90 14 87 0.7 1 0 87 15 150 0.7 1 0 150 16 331 0.7 1 0 331 17 790 0.7 1 0 790 18 571 0.7 1 0 571 19 65 0.7 1 0 65 20 9 0.7 1 0 9 21 7 0.7 1 0 7 22 3 0.7 1 0 3 23 5 0.7 1 0 5 24 6 0.7 1 0 6 25 9 0.7 1 0 9 26 9 0.7 1 0 9 28 1 0.7 1 0 1