What are the meanings of the symbols on the summary and evidence pages?

Archer Analysis uses symbols on the summary and evidence pages to indicate known fusions, show QC metrics, denote fusion partner sequence similarity and show if a fusion is an exon/intron fusion

Means the fusion passed all QC metrics

Means the fusion is a known fusion according to the Quiver database

Means the fusion and the exact breakpoint are known according to the Quiver database

Means the percent fusion reads for the GSP2 detecting that fusion is below the set threshold

Means the fusion partners show sequence similarity to each other and could therefore be a mispriming event

Means the fusion is an exon/intron fusion. Most fusions are expected to be exon/exon fusions.

Means the unique start sites for this fusion was below the threshold of MIN_UNIQUE_START_SITES_FOR_VALID_FUSION (default=3).

Represents a transcriptional read-through event. The fusion event is the results of a gene transcribing into the next gene downstream of it.

Means there is expression imbalance within the gene.

Means there is likely intra-run sample contamination that induced this fusion call.

These genes are known Ensembl paralogs

This annotation met at least one of the following criteria

  1. Too many mutations between reference and consensus
  2. The maximum expect score returned by BLAST across all segments is too high
  3. More than two genes were found in the consensus
  4. Insufficient number of bases aligning to each fusion partner

Each symbol has a tool-tip associated with it. Hover your mouse over any of these in the Archer Analysis UI for additional information.


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For Research Use Only. Not for use in diagnostic procedures. For Research Use Only. Not for use in diagnostic procedures.