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# Filter reads by conservation

This filter identifies reads mapping to the references of multiple taxa with similar alignment scores. It is useful when dealing with reads mapping to highly conserved or orthologous genes that are shared across multiple taxa. The filter requires you to specify the permitted deviation from the maximal alignment score (default is 5) and the maximum number of taxa that a read can be mapped to within this range of alignment scores before it gets excluded (default is 10).

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