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The number of R tracts of each length can be seen to be roughly equal to the number Y tracts.
These oligo Y regions, and their complementary R tracts, were found to be sensitive to the single-strand specific nuclease P1 when under normal cellular superhelical stress.
It should be stressed that alternating A and G (poly A-G) are only one component of R tracts, and any combination of A's and G's an make an R tract – see Additional file: 7. Examining increasing number of genes revealed that R.Y tracts are not the only over-represented binary DNA motif.
Oligo A or Oligo T tracts are partial components of quite a number of R tracts (as well as of W and M tracts) and for these an additional mechanism may be operative.
Opposite each Y tract there is of course an R tract, and vice versa.
The longest tract found is a 367 nt long, an R tract (second column).
For example, the long 367 nt R tract has a number of GGGAGGAGAGA repeats in it (see Additional file: 7).
reuteri strains that are currently available, which originate from the pig (p), human (h) and rodent (r) GI tracts and from sourdough (s).
This justifies the joint consideration of the R and Y tracts as a pair (R.Y) at this stage.
In columns 2 and 3 of the table, the number of R and Y tracts of each length found in the GenBank-listed strand is listed.
Homopurine (R) and homopyrimidine (Y) tracts will be referred to jointly as "R.Y tracts", because whenever a run of pyrimidines is present on one strand, it is complemented by a run of purines on the opposite strand (the dot separates complementary strands, in accordance with IUBMB rules).
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