Table 2.

Detected jumbo phages and prophages.

Sample	Length (bp)	Predicted type	No. of phage hallmark genes	Taxonomy of the contiga	Note
1	263,225	prophage	1	Patescibacteria group: 0.62 Candidatus Gracilibacteria: 0.62	Encoding a remote homolog of drrA that carries out export of the antibiotics
1	215,658	prophage	6	Treponema (genus): 0.93	Fig. S9
2	294,299	phage	4	Selenomonas (genus): 0.59	Encoding a remote homolog of a beta-lactamase superfamily domain
2	270,161	prophage	10	Lachnospiraceae (family): 0.60	Encoding remote homologs of three metallo-beta-lactamase domain proteins and vanZ
2	223,995	phage (plasmid-like element)	0	Streptococcus sp. (species): 0.64	High coverage (top 10%)
2	201,060	phage	1	Fusobacterium (genus): 0.86	Encoding a remote homolog of drrA that carries out export of the antibiotics
3	217,059	prophage	2	Unclassified Bacteria: 0.50
3	201,353	phage	5	Leptotrichia (genus): 0.83	Encoding remote homologs of two multidrug-resistant proteins and drrA that carries out export of the antibiotics
4	246,016	phage	1	Campylobacter (genus): 0.96
4	200,581	prophage	1	Leptotrichia (genus): 0.84

^aPredicted by Contig Annotation Tool (CAT)²⁹: the support values for prediction of the taxonomy of the contig are indicated in parentheses.