File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/3ae40a326c8147b89327d0a5df87eb/.command.err
Size
1.8 KB
Task
DAQ:FASTP (1029_0W2-N1-BDNA-1_B23KGCJLT4_1;L003)
Attempt

Content

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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: 19337105
total bases: 2919902855
Q20 bases: 2859723032(97.939%)
Q30 bases: 2742681833(93.9306%)
Q40 bases: 2742681833(93.9306%)

Read2 before filtering:
total reads: 19337105
total bases: 2919902855
Q20 bases: 2800007541(95.8939%)
Q30 bases: 2597893429(88.9719%)
Q40 bases: 2597893429(88.9719%)

Read1 after filtering:
total reads: 19011838
total bases: 2808724070
Q20 bases: 2761020891(98.3016%)
Q30 bases: 2655955970(94.5609%)
Q40 bases: 2655955970(94.5609%)

Read2 after filtering:
total reads: 19011838
total bases: 2808817008
Q20 bases: 2717090499(96.7343%)
Q30 bases: 2538141877(90.3634%)
Q40 bases: 2538141877(90.3634%)

Filtering result:
reads passed filter: 38023676
reads failed due to low quality: 647744
reads failed due to too many N: 2664
reads failed due to too short: 126
reads with adapter trimmed: 3268815
bases trimmed due to adapters: 124427180

Duplication rate: 14.9%

Insert size peak (evaluated by paired-end reads): 180

JSON report: 1029_0W2-N1-BDNA-1_B23KGCJLT4_1.fastp.json
HTML report: 1029_0W2-N1-BDNA-1_B23KGCJLT4_1.fastp.html

fastp --in1 1029_0W2-N1-BDNA-1_B23KGCJLT4_1_S48_L003_R1_001.fastq.gz --in2 1029_0W2-N1-BDNA-1_B23KGCJLT4_1_S48_L003_R2_001.fastq.gz --out1 1029_0W2-N1-BDNA-1_B23KGCJLT4_1/1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz --out2 1029_0W2-N1-BDNA-1_B23KGCJLT4_1/1029_0W2-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_0W2-N1-BDNA-1_B23KGCJLT4_1.fastp.json --html 1029_0W2-N1-BDNA-1_B23KGCJLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 245 seconds