File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cd/08de5ae35515708cdeb5e9af205c2f/.command.err
Size
1.8 KB
Task
DAQ:FASTP (1029_01S-N1-BDNA-1_B23KGCJLT4_1;L005)
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: 29565643
total bases: 4464412093
Q20 bases: 4367653773(97.8327%)
Q30 bases: 4179582646(93.62%)
Q40 bases: 4179582646(93.62%)

Read2 before filtering:
total reads: 29565643
total bases: 4464412093
Q20 bases: 4291441243(96.1256%)
Q30 bases: 3999413820(89.5843%)
Q40 bases: 3999413820(89.5843%)

Read1 after filtering:
total reads: 29120780
total bases: 4293431921
Q20 bases: 4215710289(98.1898%)
Q30 bases: 4045225128(94.2189%)
Q40 bases: 4045225128(94.2189%)

Read2 after filtering:
total reads: 29120780
total bases: 4293616421
Q20 bases: 4159924264(96.8863%)
Q30 bases: 3900166030(90.8364%)
Q40 bases: 3900166030(90.8364%)

Filtering result:
reads passed filter: 58241560
reads failed due to low quality: 885260
reads failed due to too many N: 4134
reads failed due to too short: 332
reads with adapter trimmed: 5722020
bases trimmed due to adapters: 208151488

Duplication rate: 13.2275%

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

JSON report: 1029_01S-N1-BDNA-1_B23KGCJLT4_1.fastp.json
HTML report: 1029_01S-N1-BDNA-1_B23KGCJLT4_1.fastp.html

fastp --in1 1029_01S-N1-BDNA-1_B23KGCJLT4_1_S77_L005_R1_001.fastq.gz --in2 1029_01S-N1-BDNA-1_B23KGCJLT4_1_S77_L005_R2_001.fastq.gz --out1 1029_01S-N1-BDNA-1_B23KGCJLT4_1/1029_01S-N1-BDNA-1_B23KGCJLT4_1_R1.fastq.gz --out2 1029_01S-N1-BDNA-1_B23KGCJLT4_1/1029_01S-N1-BDNA-1_B23KGCJLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_01S-N1-BDNA-1_B23KGCJLT4_1.fastp.json --html 1029_01S-N1-BDNA-1_B23KGCJLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 332 seconds