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Fig. 1 | Algorithms for Molecular Biology

Fig. 1

From: Gerbil: a fast and memory-efficient k-mer counter with GPU-support

Fig. 1

Minimizers and super-mers of the DNA string CAAGAACAGTG. Here, \(k=4\) and \(m=3\). For each k-mer, the bold part is its minimizer. The example uses the lexicographic ordering on 3-mers based on \(A<C<G<T\). The sequence is divided into the five super-mers CAAGA, AGAA, GAACA, ACAG, and CAGTG that would be stored in temporary files

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