File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c8/0fddeb7f0dfa87e1f4fd95a52cd87a/.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: 81160148
total bases: 12255182348
Q20 bases: 11933799589(97.3776%)
Q30 bases: 11325104758(92.4107%)
Q40 bases: 11325104758(92.4107%)

Read2 before filtering:
total reads: 81160148
total bases: 12255182348
Q20 bases: 11611129138(94.7446%)
Q30 bases: 10553975695(86.1185%)
Q40 bases: 10553975695(86.1185%)

Read1 after filtering:
total reads: 79422566
total bases: 11655155529
Q20 bases: 11404388924(97.8484%)
Q30 bases: 10868299347(93.2489%)
Q40 bases: 10868299347(93.2489%)

Read2 after filtering:
total reads: 79422566
total bases: 11655960747
Q20 bases: 11161683008(95.7594%)
Q30 bases: 10229928224(87.7656%)
Q40 bases: 10229928224(87.7656%)

Filtering result:
reads passed filter: 158845132
reads failed due to low quality: 3455942
reads failed due to too many N: 16888
reads failed due to too short: 2334
reads with adapter trimmed: 18586067
bases trimmed due to adapters: 677263516

Duplication rate: 13.7294%

Insert size peak (evaluated by paired-end reads): 269

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_L001_R1_001.fastq.gz --in2 1029_FZX-T1-TDNA-1_A23MHWWLT4_1_S36_L001_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: 855 seconds