The phrase "alignment is well" is not correct in standard written English.
It may be intended to convey that something is in good alignment, but the phrasing is awkward and unclear.
Example: "The alignment is well established, ensuring that all components function together effectively."
Alternatives: "alignment is good" or "alignment is proper".
I tried JSAV in a few browsers including Opera, Chrome and Konqueror and in all browsers the alignment was well displayed.
On the other hand, the DDIs within this alignment are well-conserved across species (the DDI probabilities of ERCC4-Rad10 are 1.00 in both species; the DDI probabilities of Rad10-XPA_C are 1.00 and 0.54 in yeast and fly, respectively).
If range alignment is done well, afterwards, phase adjustment is carried out to remove the error phase.
The fact that there is a function-structure relationship between collagen alignment and mechanical strength is well known [ 14].
As for other RNA structure prediction methods making use of sequence-based alignments, it is well-documented that these work best with an average pairwise sequence identity above 60% (Gardner et al., 2005; Washietl and Hofacker, 2004).
Sequence alignment indicates that the C8α is well conserved during the evolution process from sharks to mammals, with the same modular architecture as well as the identical cysteine composition in the mature protein.
This means that the comparison of gene functions (or names) by CEG_Match will have a much higher accuracy and lower FPs than direct sequence alignment when the query genome is well annotated but is not closely related to any strains in the database.
Design research, with its focus on bringing learning objectives and learning outcomes into better alignment, is particularly well-suited to attending to this balance.
Local alignment is not well-suited to detect lower affinity binding sites, which may be distant in sequence space yet functional; nor can it capture the rapid turnover of binding sites, which often occurs without conservation of position (Dermitzakis and Clark, 2002; Ludwig, 2002; Tautz, 2000; Wray, 2003).
