Metabolic acidosis is one of the most frequent acid-base disorders occurring in the ICU.
Gastro-esophageal reflux disease (GERD) is the most frequent acid-related disease as of today and occurs at all ages from childhood to advanced age [ 1- 3].
The synonymous variability index was computed based on the consensus amino acid (the most frequent amino acid) in each position in the multiple alignment.
After comparison, the amino acid residues for which the most frequent amino acid appeared with a frequency of less than 40% were selected as the flexible amino-acid residues (Table 1).
SIFT calculates the probability that an amino acid at a position is tolerated conditional on the most frequent amino acid being tolerated by interrogating the amino acids appearing at each position in the alignment.
Charged amino acids with long side chains are more frequent in coiled-coil regions: Negatively charged glutamic acid (E ∼ 16%, the most frequent amino acid), positively charged lysine (K ∼ 11%) and arginine (R ∼ 8%).
We also considered using the log-odds of the frequency of the most frequent amino acid and the relative entropy between the amino acid distribution of position x within subtree S and a background distribution (Wang and Samudrala, 2006).
Among the microsatellites in the globe artichoke transcriptome, the six most frequent amino acid stretches present in the CDS were poly-serine (94 unigenes), poly-aspartic acid (75 unigenes), poly-glutamic acid (57 unigenes), poly-lysine (46 unigenes), poly-glycine (45 unigenes) and poly-threonine (35 unigenes).
In general, the white shark was concordant with these findings, as the most frequent amino acid homopolymers within ORFs for the enriched nucleic acid/DNA binding GO term were poly-glutamic acid (28.3%), poly-aspartic acid (19.6%), and poly-proline (17.4%).
In the case of varieties at one position, the most frequent amino acid at this position was chosen for the consensus sequence but according to the following premises: First, an amino acid was exchanged only if solely this amino acid at the specific position inside the contig was ambiguous.
Asparagine was the most frequent amino acid found in eight of nine triplet motifs.
