Sentence examples for alignment which does from inspiring English sources
Contig pairs with a single alignment which does not extend over the full length of the shortest contig may represent different genes which share a conserved protein domain.
Notice that the alignment between the two trees maps the intervals in a manner that preserves the tertiary structural information and the other information surrounding the loops - thus exemplifies a biologically verified alignment which does not preserve branch ordering.
Fill in your heath, healing surges, skills (such as acrobatics) and other information about your paladin such as your deity and alignment, which do matter!
Closer inspection of the repeats in these alignments which did not conform revealed them to be either obvious misalignments or apparent false positives.
For alignments which do not fall into those ranges probability estimates of the SVM need to be regarded with certainty.
Finally, if high-resolution structures are available, one can use structure-based alignments, which do not optimize sequence similarity and hence avoid sequence alignment bias altogether.
The total lengths of the alignments, which do not include start or stop codons but which do include gaps, are 1311 bp (437 codons) for mammals, 1335 bp (445 codons) for birds, and 1494 bp (498 codons) for fishes.
The text is well written and the advantage of JSAV over other tools becomes clear: It is a simple Java script library for basic alignment visualization which does not require any other server program.
First, many tools that compute differential expression (eg, cuffdiff) require that one annotation can be given for all input alignment files, which does not function when comparing between species, with a different annotation for each species.
The third category includes slider (Malhis et al., 2009) which does alignment by merge-sorting the reference subsequences and read sequences.
In order to optimize alignment parameters or measure the quality of alignments, a cost function was used which does not rely on any reference or ideal alignments.
