Sentence examples for medium confident annotation from inspiring English sources
12 tRNAs and 15 miRNAs were moved to the medium confident annotation as part of the curation procedure.
Finally 6 sequences were moved to the medium confident annotation due to overlap with protein coding annotation.
However, as part of the cleanup of the annotation we changed the 12 tRNAs not detected by tRNAscan-SE from high to medium confident annotation.
We found a total of 3,391 homology based high confident structured RNA loci and structural RNA elements after moving 12 tRNAs and 15 miRNAs to the medium confident annotation (Table 2).
In 7 instances of novel miRNAs, we found that the precursor sequences overlapped with protein coding annotation, which led to the move of 6 precursor sequences to the medium confident annotation.
While, we apply a maximum Infernal E-value cutoff of 1e-3 for most families, we can use more strict cutoffs of 1e-6 or 1e-9, for low and medium confident annotation of Rfam miRNA families since we observed that the seed sequences of the miRNA families in general have much lower Infernal E-values.
We do, however, include the Rfam miRNA families at the medium and low confident annotation levels.
For the medium and low confident annotations of Rfam miRNA families, we impose Infernal E-value cutoffs of 1e-9, and 1e-6, respectively.
The next section will deal with the small RNA-seq data, which will not only add confidence to the high confident miRNAs annotated above, but will also move a few medium or low confident miRNAs annotated by homology into the high confident annotation.
In our medium confident network, the protein At5g50850, which is annotated as pyruvate dehydrogenase, has an interaction with At1g54220, which is annotated as putative dihydrolipoamide S-acetyltransferase.
The curated structured RNAs are clearly those that comes with the highest certainty, however, fields such as small RNA-seq, will benefit from the high confident annotation, and in some cases even from the medium or low confident annotations.
