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We also performed an alignment of the 14 enriched scaffolds with top 20 compounds of the active dataset (Figure 4).
We obtained the PCA genome sequence, translated ORFs, and functional annotation from NCBI (RefSeq ID NC_002939) and the RefSeq database [16] and performed an alignment using BLAST [11].
We performed an alignment compared with Arabidopsis thaliana (Supplementary Figure 1).
After manually editing for base call errors, we performed an alignment between homologous regions obtained in extant and ancient individuals.
We also performed an alignment search of the novel transcripts against the databases of human and mouse miRNAs (mirbase.org), but failed to detect homologous sequences.
We then performed an alignment of the previously defined blocks (seed alignment) with the query multiple sequence alignment using a dynamic programming algorithm.
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For each query position q identified in Step 2, we perform an alignment with the seed S inserted in its corresponding position to generate the final alignments.
First 10 sequences were taken to perform an alignment of them.
To perform an alignment of the reads against all possible CYP2D6 alleles, we constructed each allele at basepair resolution.
Two of the methods, MAFFT and hmmalign, are exceptionally fast and perform an alignment in seconds (Table 1).
To explore the biological functions of cold-responsive genes, a total of 20,840 sequences were used as a query to perform an alignment with Arabidopsis proteins.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com