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Fig. 1 | BMC Genomics

Fig. 1

From: An improved approach for reconstructing consensus repeats from short sequence reads

Fig. 1

High-level procedure of improved repeat construction. Thick bars: genomic sequences. Yellow thick bars: repeat copies. Colored squares within thick bars: mutations (substitutions and indels) within repeats. Thin bars: k-mers. There are six main steps. a K-mer counting for the reads. b Find the highly frequent k-mers and k-mers with intermediate frequencies according to a user-specified cutoff on k-mer frequency. c Find repeat-related k-mers by aligning those k-mers of intermediate frequencies to highly frequent k-mers. d Improve k-mer quality with a consensus-based approach. e Assemble the improved k-mers. f Merge contigs that have reliable prefix-suffix overlap

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