Summary
Percentages in the summary table are calculated relative to Input reads.
- Input reads Total number of reads in the reads files.
- Average read length Average length of input reads.
- Median read quality Median quality of input reads.
- Read N50 The read length that 50% of reads are longer than or equal to.
- Reads discarded by quality trimming Trimmed reads, that after trimming are shorter than specified in the option "Minimum read length after quality trim" and have been discarded.
- Reads trimmed by quality trimming Reads that have been trimmed and are longer than "Minimum read length after quality trim".
- Average read length after trimming Average length of reads after quality trimming.
- Unmapped reads Reads that did not map to the reference.
- Mapped reads The total number of mapped reads.