You are annotating some contigs that you have assembled from a metagenomic dataset. Now, you end up with a contig apparently matching a 16S rRNA sequence in a Pseudomonas strain, based on a closely related match to this 16S gene sequence: LT221672.1
You are happy with that annotation, as it means that you can now build a phylogenetic tree from this gene and some other 16S rRNA sequences you identified in the data set. But, will that tree really be that relevant? Or could there be some other problem here?
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