File Info

Filename
FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.log
Full Path
s3://natera-platform-sandbox/pipeline-outputs/cgp_runs/nextflow/dev_rna_exp0002/A23LGNLLT4/nfcore_rnafusion_100M__5f1fa79--20260304-095416/fastp/FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.log
Size
1.6 KB
Workflow Run
dev_rna_exp0002_5f1fa79
Published
Mar 09, 2026 10:59 AM

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: 100000000
total bases: 15100000000
Q20 bases: 14862746594(98.4288%)
Q30 bases: 14420338177(95.4989%)

Read2 before filtering:
total reads: 100000000
total bases: 15100000000
Q20 bases: 14860506512(98.414%)
Q30 bases: 14350301491(95.0351%)

Read1 after filtering:
total reads: 98582191
total bases: 13047089825
Q20 bases: 12987356142(99.5422%)
Q30 bases: 12731404579(97.5804%)

Read2 after filtering:
total reads: 98582191
total bases: 13056965445
Q20 bases: 12970205585(99.3355%)
Q30 bases: 12662530535(96.9791%)

Filtering result:
reads passed filter: 197164382
reads failed due to low quality: 2329152
reads failed due to too many N: 146552
reads failed due to too short: 359914
reads with adapter trimmed: 98988973
bases trimmed due to adapters: 3702869652

Duplication rate: 11.7443%

Insert size peak (evaluated by paired-end reads): 129

JSON report: FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.json
HTML report: FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.html

fastp --in1 FFPE_HD789_01_RNA_0002_23LGNLLT4_3_1.fastq.gz --in2 FFPE_HD789_01_RNA_0002_23LGNLLT4_3_2.fastq.gz --out1 FFPE_HD789_01_RNA_0002_23LGNLLT4_3_1.fastp.fastq.gz --out2 FFPE_HD789_01_RNA_0002_23LGNLLT4_3_2.fastp.fastq.gz --json FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.json --html FFPE_HD789_01_RNA_0002_23LGNLLT4_3.fastp.html --thread 12 --detect_adapter_for_pe 
fastp v0.23.4, time used: 258 seconds