File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/40/c2b25367e5b17154e9f29a8f9b8f69/.command.err
Size
1.8 KB
Attempt
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: 90120289
total bases: 13608163639
Q20 bases: 13255530951(97.4087%)
Q30 bases: 12579461570(92.4406%)
Q40 bases: 12579461570(92.4406%)

Read2 before filtering:
total reads: 90120289
total bases: 13608163639
Q20 bases: 13101723857(96.2784%)
Q30 bases: 12221976682(89.8136%)
Q40 bases: 12221976682(89.8136%)

Read1 after filtering:
total reads: 89147512
total bases: 12751935441
Q20 bases: 12476629426(97.8411%)
Q30 bases: 11883641707(93.1909%)
Q40 bases: 11883641707(93.1909%)

Read2 after filtering:
total reads: 89147512
total bases: 12753340399
Q20 bases: 12367060830(96.9711%)
Q30 bases: 11606079990(91.0042%)
Q40 bases: 11606079990(91.0042%)

Filtering result:
reads passed filter: 178295024
reads failed due to low quality: 1934600
reads failed due to too many N: 9218
reads failed due to too short: 1736
reads with adapter trimmed: 41211038
bases trimmed due to adapters: 1422163050

Duplication rate: 10.0528%

Insert size peak (evaluated by paired-end reads): 152

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

fastp --in1 1029_HTI-T1-TDNA-1_A23MHWWLT4_1_S23_L005_R1_001.fastq.gz --in2 1029_HTI-T1-TDNA-1_A23MHWWLT4_1_S23_L005_R2_001.fastq.gz --out1 1029_HTI-T1-TDNA-1_A23MHWWLT4_1/1029_HTI-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_HTI-T1-TDNA-1_A23MHWWLT4_1/1029_HTI-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_HTI-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_HTI-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 968 seconds