Contig Coverage is one of three Contig Report views that may be available, depending on the assembly type that is currently open. For information on accessing or performing tasks in this view, see Contig Report View.

This tabular view contains the following columns:

Column Name Description
Contig ID The name of the contig.
Type The type of coverage for the particular region.
Feature If a feature on the reference sequence intersects the area of coverage, the feature name will be listed in this column. Note that when a Contig Coverage report is created from features, the features are used to confine the coverage analysis to the areas that have features. In this case, the Feature column shows which feature was used to constrain the analysis area.
Location The range of sequence corresponding to the region of coverage.
Length The length of the range of sequence corresponding to the region of coverage.
Depth The minimum depth of coverage in the specified region. Note that adjacent areas with identical types of coverage will be combined. Note that the “Depth” column may not match the depth of coverage seen in the lower portion of the Alignment view. For instance, the Contig Coverage report may show a depth of “3” for a particular range even though you can see 5 or more sequences in the same range of the Alignment view. The apparent discrepancy occurs because the Coverage Report shows the minimum depth of coverage for a location, while the Alignment view shows all sequences that contribute to the coverage.
SNP Count The number of variants in the region. This column is only present if the sequences were assembled to a reference/template.

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