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Retained sequences of 179 bp were visualized using GS Amplicon Variant Analyzer (Roche).
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Pairwise whole-genome alignments were performed on the whole-genome concatemer produced by CONTIGuator using the megablast algorithm from Blast+ (Camacho et al. 2009), with an e-value threshold of 1e− and an alignment size above 10,000 bp; The alignment were visualized using the GenomeDiagram (Pritchard et al. 2006) module inside the BioPython library (Cock et al. 2009).
PCR products were visualized using agarose gel electrophoresis, with a 440-bp band indicating the wild-type (WT) allele, and a 390-bp band indicating the KO allele.
Cell surface proteins were visualized using SA-AP.
Mapped reads were visualized using IGV software29.
Blots were visualized using ECL (Amersham).
Mapped reads were visualized using IGV software.
Nuclei were visualized using DAPI (Sigma).
The blots were visualized using a detection kit (Immobilon).
Nuclei were visualized using DAPI (1.0 μl/ml).
Read coverage and SNPs were visualized using custom scripts.
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