New answers tagged dna
1
If you're looking for an exact match, you don't really need a complex aligner. Perl regular expressions are pretty powerful at string transformations or conditional matching of substrings. For example, to find all matches of AASYWSRA in a nucleotide sequence $seq, you can do:
@matches = $seq =~ m/AA[CG][CT][AT][CG][AG]A/g;
The [] brackets are known as ...
0
I think you may have been misled by graphic representations of the process: The actual replication fork is very small as, like Rex Kerr mentions, it costs a lot of energy to keep DNA single stranded.
Have a watch of https://www.youtube.com/watch?v=yqESR7E4b_8 at minute 1:45, it contains a relatively realistic representation of the replication fork. Of ...
0
It's in fragments for efficiency. Single-stranded DNA is not very stable without proteins to stabilize it. If you tried to replicate the entire strand in one go, you'd need to keep the entire strand in single-stranded form one way or another (e.g. start at both ends and meet in the middle would still leave each half as an old/new duplex, plus an old ...
3
Here is a possible answer given by this paper:
http://www.ncbi.nlm.nih.gov/pubmed/16794952
or
http://www.math.unl.edu/~bdeng1/Papers/DengDNAreplication.pdf
It gives a Darwinian explanation to the question. It approaches the problem from Claude Shannon's theory for communication. It treats DNA replication conceptually and mathematically the same as a data ...
4
Not accurately. Assuming the DNA information is the DNA sequence, you can't tell which genes are being expressed and which are being silenced. These are through chemical groups on the DNA which aren't generally picked up.
Also there's the environment that grossly affects what you look like, how much you weigh, your skin colour and cosmetic surgery.
4
Just to flesh out Daniel Standage's answer a bit, remember that a genome is double stranded with one strand being complementary to the other. Genes can be found on either strand, the two are equivalent biologically. However, sequencing projects choose one of the two strands (randomly) and call it the plus (+) strand and then save all sequences with respect ...
6
Note that the query sequence you have provided matches the minus strand of your target sequence. That means not only that the target sequence will be reversed (as you have noted), but it will also be complemented as well. So in the GenBank record, you should not look for the sequence CCGACCGA... starting at position 10835, you should look for the sequence ...
5
Goods question! Only mutations that occurred when we were in the early stages of development will affect all cells. That's why pregnant mothers shouldn't smoke. The reason for this is that one cell goes on to divide and become all our cells so any mutations in that cell are passed on to cells formed when it divides. That same principle explains your smoker ...
0
I've never utilized the feature, but I know Vmatch allows you to define your own alphabets and symbol mappings, which should allow you to handle the IUPAC ambiguous nucleotide symbols. The default alphabet/mapping may even include these symbols.
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