Words similar to aligned

Example sentences for: aligned

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The amino acid sequences of the Runt domains of all each of the collected genes, together with two previously described sequences from the spider Cupiennius salei [ 15 ] , a sequence from the crayfish Pacifastacus leniusculus , and one from the nematode Meloidogyne hapla , were aligned using Clustal W [ 16 ] , as shown in Figure 2. Functionally, the Runt domain is required both for DNA binding and for interaction with its heterodimeric partner (the beta subunit), which serves to allosterically enhance the DNA binding of the Runt domain [ 1 14 ] . Superposition of the alignment and the known crystal structure of mouse Runx1 [ 14 17 ] reveals that residues that make either direct or indirect contact with DNA are invariant (marked by asterisks in Fig.
Inspection of the aligned sequences (Fig.
A subset of probable orthologous pairs that met the criteria used for identification of paralogs (score density of 1.5 bit/position and aligned over at least 95% of their lengths) was selected.
Phylogenies were reconstructed from amino acid sequences aligned using CLUSTAL X 1.8 [ 45 ] . The topologies of the depicted trees were calculated using neighbor joining as implemented in CLUSTAL X with correction for multiple substitutions.
We also aligned the M1-P-M2 region of KcsA with the ten bacterial sequences in the microbial sequence database that were most similar to KcsA to produce a KcsA-like family.