# analyzed 

By [popomatter](https://paragraph.com/@popomatter) · 2021-10-28

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We analyzed the conservation of TGA-flanking regions in all six reading frames using BLASTX. If the best hit, which covered the TGA codon with at least a 10-nt overlap, was in a different reading frame than the TGA codon, the corresponding sequence was filtered out. RPS-BLAST was then used to search against conserved domains database (CDD). If the best hit which covered the TGA codon with at least a five-residue overlap was in a different reading frame or additional stop codons appeared within the conserved domain in the same frame, the sequence was removed.

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*Originally published on [popomatter](https://paragraph.com/@popomatter/analyzed)*