Total input reads
Total number of input reads
QC-failed reads
Total number of reads failing one or more quality checks
% QC-failed
Percentage of reads failing one or more quality checks
Unique reads
Total number of unique reads
% Unique
Percentage of reads that are unique
Mapped reads
Total number of mapped reads, adjusted for filtered and excluded targets
% Mapped
Percentage of reads that are mapped, adjusted for filtered and excluded targets
Total Bases
Total number of input bases
Mapped R1
Total number of mapped bases on R1
% Mapped R1
Percentage of R1 bases mapped
% Q30 R1
Percentage of R1 bases with phred quality score >=30
The deduplication bar chart reflects the ratio of unique and deduplicated reads.
The read MAPQs bar chart reflects the percent of reads in various categories of phred quality score (Q0-Q10, Q10-Q20, Q20-Q30, Q30-Q40, Q40+).
Last updated 1 year ago
Was this helpful?
