File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/586ffaa9cb6ead3a1ea1193a9b3c31/.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: 61835546
total bases: 9337167446
Q20 bases: 9120193903(97.6762%)
Q30 bases: 8757076171(93.7873%)
Q40 bases: 8757076171(93.7873%)

Read2 before filtering:
total reads: 61835546
total bases: 9337167446
Q20 bases: 9078328608(97.2279%)
Q30 bases: 8641790014(92.5526%)
Q40 bases: 8641790014(92.5526%)

Read1 after filtering:
total reads: 61353333
total bases: 8453349678
Q20 bases: 8322965900(98.4576%)
Q30 bases: 8033661909(95.0352%)
Q40 bases: 8033661909(95.0352%)

Read2 after filtering:
total reads: 61353333
total bases: 8454632870
Q20 bases: 8290157600(98.0546%)
Q30 bases: 7954556158(94.0852%)
Q40 bases: 7954556158(94.0852%)

Filtering result:
reads passed filter: 122706666
reads failed due to low quality: 950698
reads failed due to too many N: 11424
reads failed due to too short: 2304
reads with adapter trimmed: 44279879
bases trimmed due to adapters: 1625690745

Duplication rate: 10.7569%

Insert size peak (evaluated by paired-end reads): 128

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

fastp --in1 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1_S22_L007_R1_001.fastq.gz --in2 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1_S22_L007_R2_001.fastq.gz --out1 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1/1029_BICJ-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1/1029_BICJ-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_BICJ-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 
fastp v1.0.1, time used: 623 seconds