File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/635ce6412e6570d7b25b66f5406865/.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: 85573033
total bases: 12921527983
Q20 bases: 12455092347(96.3902%)
Q30 bases: 11571853228(89.5548%)
Q40 bases: 11571853228(89.5548%)

Read2 before filtering:
total reads: 85573033
total bases: 12921527983
Q20 bases: 12011041166(92.9537%)
Q30 bases: 10569801845(81.7999%)
Q40 bases: 10569801845(81.7999%)

Read1 after filtering:
total reads: 82790971
total bases: 12209783132
Q20 bases: 11836421266(96.9421%)
Q30 bases: 11062361827(90.6024%)
Q40 bases: 11062361827(90.6024%)

Read2 after filtering:
total reads: 82790971
total bases: 12210514554
Q20 bases: 11527905915(94.4097%)
Q30 bases: 10275561872(84.1534%)
Q40 bases: 10275561872(84.1534%)

Filtering result:
reads passed filter: 165581942
reads failed due to low quality: 5553028
reads failed due to too many N: 7742
reads failed due to too short: 3354
reads with adapter trimmed: 16362259
bases trimmed due to adapters: 584991273

Duplication rate: 9.52395%

Insert size peak (evaluated by paired-end reads): 188

JSON report: 1136_00H-T1-TDNA-1_A23MHWWLT4_1.fastp.json
HTML report: 1136_00H-T1-TDNA-1_A23MHWWLT4_1.fastp.html

fastp --in1 1136_00H-T1-TDNA-1_A23MHWWLT4_1_S28_L005_R1_001.fastq.gz --in2 1136_00H-T1-TDNA-1_A23MHWWLT4_1_S28_L005_R2_001.fastq.gz --out1 1136_00H-T1-TDNA-1_A23MHWWLT4_1/1136_00H-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1136_00H-T1-TDNA-1_A23MHWWLT4_1/1136_00H-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1136_00H-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1136_00H-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 771 seconds