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Evaluation of the sequence patterns and data entry were independently performed by two observers.
For a comprehensive evaluation of the sequence data, we expanded our data set with orthologous sequences, already deposited at GenBank, from two L. ruficaudatus and one L. dorsalis.
Evaluation of the sequence logos dismisses Ty1/Copia and Bel/Pao LTRCAPs from this relationship because these 2 families exhibit phenotypic features distinguishing them from other CAPs.
Evaluation of the sequence alignment led to the finding that 89 out of 94 RNA11 sequences can form a short helix with at least three base pairs (Fig. 1).
In the evaluation of the sequence of the coreceptor tropism status of the patients at the three time points, 5 of the 8 subjects with plasma RNA levels below 2.5 copies/ml at T2 were stable R5, one was R5-R5-X4, one was R5-X4-R5, and one was X4-R5-X4 ( p= ns).
This analysis is based on PathoPlant's microarray expression database and correlates motif sequence occurrences with stress-specific gene expression data resulting in an evaluation of the sequence to identify the stress this sequence is most likely to be responsive for [ 31].
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The evaluation of the sequences' motion intensity is shown in Table 3.
This was the case during our visual evaluation of the sequences.
Authors' visual evaluation of the sequences played back at frame rates of 15 fps and 30 fps revealed highest flicker in the sequences generated using Floyd and Steinberg [14] error diffusion.
Figure 2 shows the final multiple sequence alignment (MSA) of the HEN1 family, which was refined based on the results of structure prediction and evaluation of the sequence-structure fit on the three-dimensional level (see below).
Initially, the model of the protein core was constructed by iterating the homology modeling procedure, evaluation of the sequence-structure fit by VERIFY3D, merging of fragments with best scores, and local realignment in poorly scored regions.
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