File Info

Filename
.command.err
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/bbda3b208993a48f5aab8bd09fdc12/.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: 131659966
total bases: 19880654866
Q20 bases: 19289021137(97.0241%)
Q30 bases: 18179879591(91.4451%)
Q40 bases: 18179879591(91.4451%)

Read2 before filtering:
total reads: 131659966
total bases: 19880654866
Q20 bases: 18742825197(94.2767%)
Q30 bases: 16900780373(85.0112%)
Q40 bases: 16900780373(85.0112%)

Read1 after filtering:
total reads: 128519768
total bases: 18815173647
Q20 bases: 18353506136(97.5463%)
Q30 bases: 17381233766(92.3788%)
Q40 bases: 17381233766(92.3788%)

Read2 after filtering:
total reads: 128519768
total bases: 18816567307
Q20 bases: 17950453966(95.3971%)
Q30 bases: 16338628223(86.8311%)
Q40 bases: 16338628223(86.8311%)

Filtering result:
reads passed filter: 257039536
reads failed due to low quality: 6253936
reads failed due to too many N: 20392
reads failed due to too short: 6068
reads with adapter trimmed: 32089641
bases trimmed due to adapters: 1186004046

Duplication rate: 12.2861%

Insert size peak (evaluated by paired-end reads): 270

JSON report: 1029_N5D-T1-TDNA-1_A23MHWWLT4_1.fastp.json
HTML report: 1029_N5D-T1-TDNA-1_A23MHWWLT4_1.fastp.html

fastp --in1 1029_N5D-T1-TDNA-1_A23MHWWLT4_1_S1_L007_R1_001.fastq.gz --in2 1029_N5D-T1-TDNA-1_A23MHWWLT4_1_S1_L007_R2_001.fastq.gz --out1 1029_N5D-T1-TDNA-1_A23MHWWLT4_1/1029_N5D-T1-TDNA-1_A23MHWWLT4_1_R1.fastq.gz --out2 1029_N5D-T1-TDNA-1_A23MHWWLT4_1/1029_N5D-T1-TDNA-1_A23MHWWLT4_1_R2.fastq.gz --detect_adapter_for_pe --length_required 15 --json 1029_N5D-T1-TDNA-1_A23MHWWLT4_1.fastp.json --html 1029_N5D-T1-TDNA-1_A23MHWWLT4_1.fastp.html --thread 4 --split_by_lines 400000000 
fastp v1.0.1, time used: 1613 seconds