Sentence examples for informative alignment from inspiring English sources
To see if Adaptive GDDA-BLAST alignments could be used to encode informative alignment profiles for proteins, we took on the challenge of detecting structural homology in highly divergent protein sequences.
In order to obtain a more informative alignment of the mammalian clade, the multi-species alignment EPO track was downloaded from EnsEMBL containing elements conserved along 29 eutherian mammals and subsequently converted into a *.gff file (supplementary texts S1 and S2).
Using the slightly less informative alignment in which the most diverged sequence was from the sea urchin, the logistic regression trend test gave Ptrend = 0.014 (data not shown).
The presence of a great number of phylogenetic diverse sequences resulted in a highly informative alignment, despite its short length of 32 amino acid positions.
These observations rely on a substantially longer sequence and thus a more informative alignment than in previous studies (e.g., Jansen et al. 2002), implying that Przewalski's horses are not monophyletic for mtDNA.
The most divergent sequence (S. cerevisiae virus La (L-BC)) and the shortest sequence (C. parapsilosis) were culled for this analysis because we wanted to retain informative alignment positions when gapped sites are completely deleted.
As a result, both failed to filter out random and noisy alighments effecively while informative alignments are kept.
Another orthogonal feature to accuracy is that of reproducibility or precision: how similar are an algorithm's predictions given different equally informative alignments?
Further analysis with a sufficiently large data set is required to identify and optimize the multiple variables that can identify highly divergent, yet informative alignments.
This leads to the failure to produce informative alignments of full-length catalytic domains.
Only the informative alignments obtained using the full rainbow trout coding sequence (CDS) or a substantial part of the CDS are presented.
