Note that, in case of the chimeras with C-terminal seed, the search space is limited to the upper-left corner from the start position of the seed.
For C-terminal calculations, if <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0013596.e064.PNG" class= inline-graphic"/> is larger than <img src="http://journals.plos.org/plosone/article/asset?id=info:doi/10.1371/journal.pone.0013596.e065.PNG" class="inline-graphic"/>, then no C-terminal seed is inserted.
For example, if the N-terminal seed is inserted at the beginning of the query, then q is <img src="http://journals.plos.org/plosone/article/asset?id=info?doi/10.1371/journal.pone.0013596.e063.PNG" class= inline-graphic"/> in order to preserve the original query sequence positions in the alignment.
The inserting positions for the C-terminal seeds are similarly represented.
Employing a conservative cutoff for alignment reliability of identical sum-of-pairs score >80% resulted in 56,297 alignments for which we reconstructed maximum-likelihood trees; the remaining 59,453 alignments were excluded because about half (49 ± 16%) of the site patterns (columns) in the alignment were irreproducible in the simplest alignment comparison (N-terminal vs. C-terminal seeding).
Thus, the functions of miRNA 5′ terminal and seed regions in miRNA-mediated gene silencing may differ.
Fruit: spreading to ascending, 3--7 cm, 2--4 5) mm wide, cylindric, narrowed between seeds; terminal segment 10--2--4 5 1(3)-seeded; pedicel spreading, 8--15 mm.
Between plant species (but not within a species), seed terminal velocity is an additional important determinant of long-distance dispersal.
The parameters of this kernel vary with the flow field inside the canopy and the seed terminal velocity.
Predicted spread rates vary substantially among 12 study species, primarily due to inter-specific variation in maturation age, fecundity and seed terminal velocity.
As the terminal point in seed oil biosynthesis, TAG is comprised of a glycerol backbone onto which three fatty acids are sequentially esterified.
