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Despite the high correlations, reflecting the informativeness of the genome-scale sequence alignment, the three divergence time analyses differ in their absolute age estimates for Placentalia, as well as for many other intrinsic clades.
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According to this alignment, the two catalytic triads are superposed with an RMSD of 0.5 Å (Figure 3A).
Similarly, for plastid alignment, the two components are biologically relevant.
To yield the final alignment, the two local ones should simply be combined.
Under relaxed conditions that allow an overall alignment, the two protein sequences are 70% similar and 63% identical (see Methods).
Then we submitted the pair-wise alignment to the HHrepID server to obtain an accurate alignment of the three PUR repeats, from which the multiple alignment of the six repeats from human and D. melanogaster Pur-α was manually reconstructed.
There has to be an alignment of the three crucial items needed in making a shadow happen.
An alignment of the three protein sequences shows that they are 60% identical (Fig. 1).
(B ) Structural alignment of the three Ecp6 LysM domains.
The multiple sequence alignment for the three human Aurora kinase proteins was obtained using CLUSTALW [ 41].
Alignment of the three known tick AE is shown in Figure 15b.
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