File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/4a88c3d65b8ecd6315dfe94692a291/.command.err
Size
1.8 KB
Task
DAQ:FASTP (1029_0I-N1-BDNA-1_B23KGCJLT4_1;L002)
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: 19932155
total bases: 3009755405
Q20 bases: 2957829439(98.2747%)
Q30 bases: 2862388916(95.1037%)
Q40 bases: 2862388916(95.1037%)

Read2 before filtering:
total reads: 19932155
total bases: 3009755405
Q20 bases: 2923895933(97.1473%)
Q30 bases: 2778102748(92.3033%)
Q40 bases: 2778102748(92.3033%)

Read1 after filtering:
total reads: 19690895
total bases: 2884588835
Q20 bases: 2846349620(98.6744%)
Q30 bases: 2761632498(95.7375%)
Q40 bases: 2761632498(95.7375%)

Read2 after filtering:
total reads: 19690895
total bases: 2884792986
Q20 bases: 2822844947(97.8526%)
Q30 bases: 2697800064(93.518%)
Q40 bases: 2697800064(93.518%)

Filtering result:
reads passed filter: 39381790
reads failed due to low quality: 479058
reads failed due to too many N: 3030
reads failed due to too short: 432
reads with adapter trimmed: 4825604
bases trimmed due to adapters: 177915545

Duplication rate: 13.6994%

Insert size peak (evaluated by paired-end reads): 220

JSON report: 1029_0I-N1-BDNA-1_B23KGCJLT4_1.fastp.json
HTML report: 1029_0I-N1-BDNA-1_B23KGCJLT4_1.fastp.html

fastp --in1 1029_0I-N1-BDNA-1_B23KGCJLT4_1_S42_L002_R1_001.fastq.gz --in2 1029_0I-N1-BDNA-1_B23KGCJLT4_1_S42_L002_R2_001.fastq.gz --out1 1029_0I-N1-BDNA-1_B23KGCJLT4_1/1029_0I-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz --out2 1029_0I-N1-BDNA-1_B23KGCJLT4_1/1029_0I-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_0I-N1-BDNA-1_B23KGCJLT4_1.fastp.json --html 1029_0I-N1-BDNA-1_B23KGCJLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 157 seconds