Input read QC
This section contains information about the input reads before quality and adapter trimming. Full descriptions of the per-sequence plots are available at https://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Per_sequence_analysis.html and full descriptions of the per-sequence plots are available at https://resources.qiagenbioinformatics.com/manuals/clcgenomicsworkbench/current/index.php?manual=Per_base_analysis.html.
Per-sequence analysis
- Lengths distribution Plot showing the distribution of R1 and R2 read lengths.
- GC-content Plot showing the distribution of GC-content in R1 and R2 reads.
- Ambiguous base-content Plot showing the distribution of ambiguous base-content in R1 and R2 reads.
- Quality distribution Plot showing the distribution of average quality per read for R1 and R2 reads.
- Reads passing average quality thresholds Table providing the percentage of R1 and R2 reads with average quality above 25, 30 and 35.
Per-base analysis
- Coverage Plot showing the coverage for individual base positions of R1 and R2.
- Nucleotide contributions Plots for R1 and R2 showing the nucleotide contributions per position.
- GC-content Plot showing the GC content in R1 and R2 reads per position.
- Ambiguous base-content Plot showing the ambiguous base-content in R1 and R2 reads per position.
- Quality distribution Plots for R1 and R2 individually and combined showing the quality per position.