On average, in the 10 25% sequence identity range, alignments are improved by 28 correctly aligned residues compared with alignments made using FUGUE's default substitution tables.
Sequences with alignments not matching these criteria were extracted by notseq [ 55] and subsequently aligned by BLAST searches with lower stringency.
That enabled Fewell, whose defense has been victimized all season by big plays, to get creative with alignments.
This crack orientation is consistent with alignments of volcano-tectonic (VT) earthquake hypocenters and eruptive vents as well as normal faulting (E-W tension) focal mechanisms of the VT earthquakes.
The relocated hypocenters (98 events) roughly coincide with alignments of eruptive vents identified by remote sensing images obtained by Geospatial Information Authority of Japan (Geospatial Information Authority of Japan 2014) (white masked area in Fig. 4 a).
As a result of compromises made to get the U.S. Highway System approved, many routes were divided, with alignments to serve different towns.
The arhcitectural groups of the Arrepentimiento Sector are residential in nature, with low platforms measuring between 10 and high laid out around patios with alignments of uncut stones.
Significance was evaluated by comparison with alignments of the opposite CRISPR flanking region.
We also excluded small CDD families with alignments of less than 50 residues long.
Overall, this results in alignments that are sometimes inconsistent with alignments based on secondary structure.
The diversifying selection analyses were done using codeml from PAML 3.15 [60] with alignments of N-terminal and C-terminal regions.
