The phrase "automatically annotated as" is correct and usable in written English.
It can be used in contexts where something is labeled or categorized by a system or process without manual intervention.
Example: "The software automatically annotated the images as 'cat' or 'dog' based on the training data."
Alternatives: "labeled as automatically" or "classified as automatically".
ORFs with no BLAST hit to any other protein were automatically annotated as "hypothetical proteins".
Further, 16.1% of peptide hits automatically annotated as positive were not identified as such by manual curation of the spectra (a selectivity of 83.9%).
The sequences of M. occidentalis were, according to the NCBI database, automatically annotated as peropsin-like sequences (NCBI Reference Sequence: XP_003744578.1 and XP_003744590.1).
In contrast, only four putative HmrR-encoding genes were predicted in STM 4661, none of them being automatically annotated as ZntR.
The sequences in these trees were also automatically annotated as MGE for mobile genetic element (e.g. Virus + Plasmid), EUK for Eukaryote, ARC for Archaea, BAC for Bacteria, and EC1 to EC30 for the different strains of E. coli.
Many cysteine-capped LRR proteins have been automatically annotated as having either N-terminal or C-terminal capping structures, although close inspection of their sequences shows that in many cases both capping motifs are actually present.
The six putative proteins selected were automatically annotated at JGI server except for Aspni5 that has been manually annotated as a putative sterol esterase with homology to the enzyme from O. piceae.
Contigs were annotated as above.
ORF fragments were automatically annotated by Prodigal as ORFs that were bounded by a contig end.
Data from generic (and sometimes automatically annotated) databases such as Uniprot and HPRD was included only when supported by other sources.
Three genes (SCO5886, SCO5887 and SCO5888) in this cluster were automatically annotated in our model as fatty acid biosynthesis genes on the basis of sequence similarity with fatty acid genes (3-oxoacyl-[acyl-carrier-protein] synthase II, acyl carrier protein, 3-oxoacyl-[acyl carrier protein] synthase III).
