Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/928d434150a22d0ca11301a5843191/output/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L003_R2_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/928d434150a22d0ca11301a5843191/output/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L003_R1_001.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/75475f946219592e94279ed453cdda/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/75475f946219592e94279ed453cdda/.command.run
==> STAGING COMPLETE (4 inputs)

Detecting adapter sequence for read1...
>Illumina TruSeq Adapter Read 1
AGATCGGAAGAGCACACGTCTGAACTCCAGTCA

Detecting adapter sequence for read2...
>Illumina TruSeq Adapter Read 2
AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT

Read1 before filtering:
total reads: 80799551
total bases: 12200732201
Q20 bases: 11881081607(97.3801%)
Q30 bases: 11271339520(92.3825%)
Q40 bases: 11271339520(92.3825%)

Read2 before filtering:
total reads: 80799551
total bases: 12200732201
Q20 bases: 11549868673(94.6654%)
Q30 bases: 10486764874(85.9519%)
Q40 bases: 10486764874(85.9519%)

Read1 after filtering:
total reads: 79034109
total bases: 11582248322
Q20 bases: 11333970013(97.8564%)
Q30 bases: 10798381055(93.2322%)
Q40 bases: 10798381055(93.2322%)

Read2 after filtering:
total reads: 79034109
total bases: 11583112457
Q20 bases: 11086250467(95.7105%)
Q30 bases: 10151905558(87.644%)
Q40 bases: 10151905558(87.644%)

Filtering result:
reads passed filter: 158068218
reads failed due to low quality: 3518706
reads failed due to too many N: 9768
reads failed due to too short: 2410
reads with adapter trimmed: 19361195
bases trimmed due to adapters: 705808611

Duplication rate: 12.4602%

Insert size peak (evaluated by paired-end reads): 271

JSON report: 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.json
HTML report: 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.html

fastp --in1 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L003_R1_001.fastq.gz --in2 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L003_R2_001.fastq.gz --out1 1029_FZX-T1-TDNA-1_A23MHWWLT4_1/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_FZX-T1-TDNA-1_A23MHWWLT4_1/1029_FZX-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_FZX-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 983 seconds