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Fig. 1 | Genome Biology

Fig. 1

From: PAM-repeat associations and spacer selection preferences in single and co-occurring CRISPR-Cas systems

Fig. 1

Spacer targets found with BLAST. A Computational pipeline for finding spacer targets. Targets of 72,099 spacers were found using blastn and filtered based on the fraction of spacer nucleotides matching a target sequence (see the “Methods” section). B Venn diagram of spacers with matches in the NCBI nucleotide database vs metagenomic databases. C Plotted is the number of unique spacers (total 72,099) for which a match was found. Generally, spacers < 4 mismatches fall within > 90% identity threshold and are selected directly, and spacers with 4 or more mismatches generally within the > 80% and < 90% threshold and were selected in case another spacer from the same genus targeted the same sequence. D Number of sequences targeted by each spacer. Due to redundancy in the datasets, some of these sequences can be identical. E Fraction of spacers with hits for the ten genera with the highest and ten genera with the lowest fraction of hits. Only genera with at least 500 spacers are shown. F Number of spacers per subtype. The subtype of a spacer was predicted based on the similarity of the repeat sequence to repeats with a known subtype (see the “Methods” section). G Fraction of spacers with hits per subtype

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