RAST

[…] draft genome completeness and contamination was assessed using checkm (13). the final draft genome was annotated using the ncbi prokaryotic genome annotation pipeline (pgap) (14) and reviewed using rast v2.0 (15)., this resulted in a 3.47-mbp draft genome estimated to be 93.9% complete with 1.79% potential contamination, comprising 5 scaffolds with a gc content of 36%, 3,354 coding sequences, […]

[…] concisus whole genomes using a previously described method36. briefly, the 104 genomes from this study and an additional 9 c. concisus reference genomes were automatically annotated using the seed/rast system37,38 and a pangenome reference list of unique genes was assembled using blast with the following parameters: a sequence was considered to be an allelic variant of an existing gene […]

[…] sequences of pufl and pufm genes were obtained in the present study from an ongoing genome project. genome sequences were annotated using the rapid annotations using subsystems technology (rast, aziz et al., 2008; overbeek et al., 2014). sequences of pufl and pufm were retrieved from the annotated genomes and deposited in the embl database under the accession numbers mf563614–mf563648, […]

[…] software (4). functional annotation was achieved using the blastp algorithm (5) against the clusters of orthologous groups (cogs) database and the rapid annotations using subsystems technology (rast) web server (6). ribosomal rnas (5s, 16s, and 23s rrnas) were predicted using rnammer software (7)., the genome was 1,672,788-bp long, assembled in five scaffolds (seven contigs) with a g+c […]

[…] not directly observed for the living, isolated sample but based on a generally accepted property for the species or anecdotal evidence). these evidence codes are from the gene ontology project., rast analysis predicted 5253 genes in total: 5179 protein encoding genes (pegs) and 74 rnas, of which 65 are trnas. 54.0% of pegs (2757) were arranged into 527 subsystems, and a total of 1125 […]