1 / 7

Shotgun sequencing

Shotgun sequencing. “Coverage” is simply the average number of reads that overlap each true base in genome. Here, the coverage is ~10 – just draw a line straight down from the top through all of the reads. Reducing to k- mers overlaps.

kami
Download Presentation

Shotgun sequencing

An Image/Link below is provided (as is) to download presentation Download Policy: Content on the Website is provided to you AS IS for your information and personal use and may not be sold / licensed / shared on other websites without getting consent from its author. Content is provided to you AS IS for your information and personal use only. Download presentation by click this link. While downloading, if for some reason you are not able to download a presentation, the publisher may have deleted the file from their server. During download, if you can't get a presentation, the file might be deleted by the publisher.

E N D

Presentation Transcript

  1. Shotgun sequencing “Coverage” is simply the average number of reads that overlap each true base in genome. Here, the coverage is ~10 – just draw a line straight down from the top through all of the reads.

  2. Reducing to k-mersoverlaps Note that k-mer abundance is not properly represented here! Each blue k-mer will be present around 10 times.

  3. Errors create new k-mers Each single base error generates ~k new k-mers. Generally, erroneous k-mers show up only once – errors are random.

  4. So, k-mer abundance plots are mixtures of true and false k-mers.

  5. Counting k-mers - histograms Low-abundance peak (errors)

  6. Counting k-mers - histograms High-abundance peak (true k-mers)

More Related