Question: Probability of finding a 16S read in 1000 bp fragments
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gravatar for saattaa
6 days ago by
saattaa0
saattaa0 wrote:

I have a statistical problem I need some help with. I was wondering how could I calculate what the probability of finding a 291 bp long V4 region of the 16S rRNA gene in any 1000 bp fragment of a whole genome dna extract would be. If the genome is 3,5 Mbp long.

In other words how many of the 1000 bp fragments would be expected to contain the said region?

Considering two cases: on average 2.7 copies of the gene in a genome or 5.4 copies.

sequence gene • 101 views
ADD COMMENTlink modified 6 days ago • written 6 days ago by saattaa0

Perhaps this question (and its answers) may be useful: Probability Of Finding A Dna Sequence In A Window

ADD REPLYlink written 6 days ago by Alex Reynolds21k

You should take distance from origin of replication as a factor as well, depending on replication rate.

ADD REPLYlink written 6 days ago by Asaf4.6k
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