This report provides an assessment of coverage for Example 2.
It contains the following sections:
Summary including per gene coverage chart.
Table of exons with sub-optimal coverage (<100% coverage at 100x).
Interactive plots of exons with sub-optimal coverage.
A summary table of average coverage across all genes.
Full gene coverage plots.
Table of per exon coverage across all genes.
Coverage of known variants (if specified).
n.b. all coverage plots are displayed relative to the + strand.
Summary
Panel(s) / gene(s) included in report: tso500 exons nirvana 210813 511 genes v1 0
Genes in the applied panel(s): 511
Low coverage threshold: < 100x
Panel coverage at 100x: 98.13 %
Genes with 100% coverage at 100x: 347
Genes not 100% covered at 100x: 164
Exons with <100% coverage at 100x
Of the 511 genes included in the panel, 255 exons in
164 genes had sub optimal-coverage.
To assess what portion of the exon(s) have sub-optimal coverage, the plots below display
an interactive window on hovering, showing the coverage at that current base.
The top right also contains a toolbar, with functions such as panning and zooming.
Plot
Per gene coverage summary
The following section provides coverage metrics of each gene.
The table below contains metrics for each gene averaged across all of its exons. Plots of each gene are also included below.
Gene
Transcript
Min
Mean
Max
50x
100x
150x
250x
Per exon coverage
The following section provides coverage metrics for every exon of each gene.
Gene
Transcript
Chr
Exon
Length
Start
End
Min
Mean
Max
50x
100x
150x
250x
Coverage of Known Variants
Below are tables giving coverage of known variants. The low coverage table gives those not covered at 100x,
and the high coverage table contains those covered above 100x.
0 variants were within the given panel regions and included for analysis
Table of variants with high coverage (>= 100x)  
VCF
Gene
Exon
Chromosome
Position
Ref
Alt
Coverage
Coverage per chromosome
The following section provides an overview of global read coverage per chromosome.
Please note that if the source data is derived from a target-capture assay, coverage
data will be plotted within target regions only.