The sequences have sets of length of around 500 nucleotides (ABS) and 2K nucleotides (ORegAnno).
The oligopeptide sets of length four, five and six overlap in informational content because an oligopeptide set of length six is a partitioning of the set of length five, and that of length five is a partitioning of the set of length four.
To put the information content in perspective, we also did simulations in which 43 random sequence data sets of length 100 nt (for flanking exons) and 109 (total number of introns analyzed) random data sets of length 29 nt (for conserved intron regions) were generated at the nucleotide frequencies of Euascomycetes rRNA and the information content of these was calculated.
For data sets of length 300 or 600 reconstructions using the Jukes Cantor BSI invariants outperform those using the Kimura 2 parameter invariants regardless of which model was used to create the data sets.
The tree resulting from this analysis, with its associated ML branch lengths and model parameters, was used as the model tree on which 100 data sets of length 1766 (the length of the original SSU rDNA data set) were simulated in Seq-Gen 1.2.7 [ 69].
Otherwise, a partial trace formula over a certain set of lengths of well-behaved geodesic arcs is obtained.
For a given spectrum and set of lengths, the existence of such frames is characterized by the Schur Horn Theorem they exist if and only if the spectrum majorizes the squared lengths the classical proof of which is nonconstructive.
Given a desired number of expansion levels n (or target number of BFs), DPCPE uses dynamic programming to compute the set of lengths to be used so that the total number of prefixes in the resulting FIB is minimized.
The range tested always covered the entire oculomotor range (i.e., the set of lengths that are achieved in physiologic conditions, which in monkeys correspond to approximately ±45° of rotation), but never exceeded it by more than one mm.
