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Therefore, habitat preference seems to be phylogenetically conserved at an intermediate phylogenetic scale.
Interestingly, the ovate gene (Putative orthologous gene family 6, Figure 5) was found conserved at an orthologous location.
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Two motifs (A-rich and AT-rich) were characterized by one or two highly conserved AT base pairs followed by a poorly conserved portion of six base pairs and then another one or two highly conserved AT base pairs.
The polyadenylation site in the three species seems to be situated between a highly conserved AT-rich sequence and a reasonably conserved GT-rich sequence.
Regions of 10 bp or more with at least 50% identity were classed as conserved and were searched for 7-mers that were conserved at a higher rate than expected based on conservation rates of 7-mers of the same GC-content.
CBX2 has a conserved AT-hook motif adjacent to N-terminal chromodomain.
Interestingly, when we applied the strategy of Blum et al. (2012), who showed that consensus sequences with a rather low cut-off could lead to thermally more stable enzyme variants, Lysine 236 was indeed conserved (at a cut-off of 30%).
A lower value suggests lower entropy more conserved at a position and vice versa.
For instance, a geophysical setting target such as "low elevation forest on limestone" would need to be conserved at a large enough scale to sustain associated species populations and recover from disturbances [32], even as the composition changes through time.
It is apparent on inspection of Fig. 2 that the features of Φ t,192) that correlate with LOD are conserved at a range of window sizes (n), although this correlation modestly declines in magnitude as n deviates from 192 months.
Any motifs lacking at least one amino acid conserved at a rate >1.5 bits were not reported.
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