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Subsequences representing the conserved region according to the PSI-Blast alignment, corresponding to residues 35 378 of the query sequence, were aligned using ClustalX, and a Pfam type profile was generated and calibrated using tools from the HMMER package.
B Detail of the Atlantys LTRs alignment corresponding to the putative TATA box indicated with "*" in A. _5 5′ LTR, _3 3′ LTR, _s solo-LTR.
The alignment corresponding to the A-box motif of Aur-A and -B is shown in Figure 3B.
The segment of the promoter alignment corresponding to the coordinates of the human proximal promoter (1 kb) and the corresponding intronic reference were used to fit the parameters of the models (Table S1).
Columns of the multiple alignment corresponding to codon positions previously associated to drug resistance were deleted, in order to avoid the possible bias coming from convergent evolution due to treatment experience.
The alignment corresponding to the structural alignment has the most favorable score in 9 out of the 10 test cases, associated with statistically significant p-values, ranging from 5.0⋅10−2 to 2.2⋅10−32.
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MglA, MglB, and Rup homologs that were 150 240 aa were independently aligned using MAFFT, then the core region of the alignments corresponding to the following residue ranges were extracted for phylogenetic analyses: 14 189 of MglA from M yx.
Based on this definition, the set included 1484 sequences from 74 different metabolic maps, with 69%% of the total alignments corresponding to alignments between the same metabolic maps (1805 of 2633), whereas 31%% corresponded to alignments between different metabolic maps (Fig. 2a).
No alignments corresponding to the surface trace of the (001) plane are apparent.
EdiPy takes into account the presence of sites subjected to RNA editing and provides multiple artificial alignments corresponding to both genomic and cDNA sequences.
The low plasticity of β-HMX is shown by the lack of etch pit alignments corresponding to mechanically induced dislocation arrays.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com