skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -t 8 -l 30 -n -u -o test -z test_read1.fastq.gz test_read2.fastq.gz Input file: test_read1.fastq.gz Paired file: test_read2.fastq.gz trimmed: test-trimmed-pair1.fastq.gz, test-trimmed-pair2.fastq.gz Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- minimum read length allowed after trimming (-l): 30 -- file format (-f): Sanger/Illumina 1.8+ FASTQ (auto detected) -- number of concurrent threads (-t): 8 Tue Sep 19 14:19:03 2017 >> started Tue Sep 19 14:19:18 2017 >> done (15.786s) 1000000 read pairs processed; of these: 3931 ( 0.39%) degenerative read pairs filtered out 0 ( 0.00%) undetermined read pairs filtered out by contaminant control 2 ( 0.00%) short read pairs filtered out after trimming by size control 406 ( 0.04%) empty read pairs filtered out after trimming by size control 995661 (99.57%) read pairs available; of these: 995661 (100.00%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 50 995661 100.00%