Additional file 1 of Comparative genomics identifies thousands of candidate structured RNAs in human microbiomes

Additional file 1: Table S1. Overview of candidate structured RNAs. We show information the 3161 candidate structured RNAs, including the p score from RNAphylo [2], number of significant covarying bases from R-scape [11], length of structure, number of instances of structure in HMP2 [9], taxonomic breakdown of contigs in which the structure is found (including domain, phylum, class, order, family, genus, and species) from One Codex [16], average percent of k-mers mapped for classification, and protein domains found within 5 kb of the structures. In a separate tab, we also include the same analyses for the 2022 candidate structured RNAs that overlapped the nr database. Additionally, we indicate which structures in Rfam [13] were predicted using this pipeline and consequently discarded because they were known structures.