New answers tagged dna-sequencing
Here is the apple genome on NCBI. http://www.ncbi.nlm.nih.gov/genome/?term=Apple
https://www.rosaceae.org/species/malus/malus_x_domestica/genome_v1.0 You can see the data in the URL above. The details are described in this article. As others said, NCBI seems useful. Go to this site. Chose chromosome you want to see and click genebank or refsequence corresponding to the chromosome in the table (Assembly Unit: Primary Assembly). You can ...
Various ways can be apply, I think. But the easiest way could be to indicate the range to set a forward primer. Decide the length of primer you are going to get. Let's say you would like 25 mer. You can set the range from chr12:25398261 to chr12:25398309. When you identify where chr12:25398285 is in NG_007524.1, you are ready to design your primers.
Current DNA sequencing techniques are based on shotgun sequencing, randomly breaking the chromosomes into small pieces, sequencing the pieces (by various techniques), and then computationally reassembling the pieces by looking for overlapping patterns. This depends on sequencing each piece of DNA multiple times; the more coverage or depth, the more reliable ...
If you already know the basic sequence i.e. the fixed regions in the primer; for e.g. the known nucleotides in the sequence - NGATWGCTSATNGC, then you can implement your algorithm like this: Fix the max length of the primers. Lets say 20nt. Generate all combinations of primers (20nt): that is pretty straightforward. You will have 4N × 2(R+Y+S+W+K+M) × ...
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