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Histograms above the alignment graphically illustrate residues that are absolutely conserved within each of the 11 sequences and W86 is asterisked.
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EnsemblPlants provides highly interactive web interfaces to show phylogenetic tree and alignment summary graphically, but fails to show alignment in details.
For each of the five proportions (i.e. 0%, 10%,..., 50%) of unequal GC-content characters, the number of times that the model tree was correctly inferred from both initial and trimmed alignments is graphically represented in Figure 8.
The sequence alignments were displayed graphically using BIOEDIT package [ 28] with a threshold of 95% consensus residue shading.
The graphically enhanced alignment was obtained using ESPript 2.2 server.
The graphically enhanced alignment was generated with the help of ESPript 2.2 server [ 58].
PCAS also displays graphically the alignment of each domain or motif relative to the query protein.
Using expert curation of the graphically visualized alignments, a total of 1,094 genes were identified from the 1,057 sequences.
The variable regions were indicated by a decrease in the average sequence similarity in the alignments, which were represented graphically (Fig. 3).
We also generated sequence alignments in which we graphically incorporated information about the domain structure based on the available high resolution structure information [see Additional file 4].
This process was performed using a web interface tool described in the alignments procedures section of the methods, where the data on the alignments are reported and graphically displayed.
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