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export information on sequence reads

asked 2019-06-24 10:55:15 -0600

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We are studying the rate of de novo mutagenesis after genetic engineering. We have deep-sequenced a target region of 2kb and are interested to know how many mutations have been generated and at what percentage. I understand we can click on a specific nucleotide and obtain from the data console the read information. Is there a way that I can obtain the collective read information for each nucleotide of the whole 2kb region without having to click on each of them one by one?

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answered 2019-06-28 10:28:12 -0600

No, GenomeBrowse does not have an output that represents the per-base pileup information of a whole region.

The samtools mpileup tool may provide the type of output you are looking for

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Asked: 2019-06-24 10:55:15 -0600

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Last updated: Jun 28 '19