Trimming is one of three Project Report views and is only available for de novo assemblies of Sanger trace data. When present, the report provides information about quality trimming and vector removal done as part ot the SeqMan NGen assembly.

The Trimming report lists the name of each sequence, its average quality, amount trimmed, and the trimmed and pre-trimmed lengths.

Data Type Description
Trace Threshold
Qual Threshold
Non-Trace Window Size and Max Ns SeqMan NGen trims data from sequence ends based on the number of ambiguous residues (Ns) within each sliding window. If the first number was 50 and the second number was 2, for example, this would show that SeqMan NGen trimmed sequence ends to leave two or fewer ambiguous bases (Ns) in the first and last 50 bases in the sequence.
Name Name of the read file followed by parentheses showing the position of the sequence on the consensus.
Average Quality The average quality of bases that remained after trimming.
Amount Trimmed Number of bases removed from the read file, in bp.

To export data from this view, press the Export data tool ( ) in the top right of the view. This opens a save dialog in which you can save the tabular data in comma-separated (.csv) or tab-separated (.tab) format.

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