Table 1.

Properties of gap sequences present within PacBio assembly.

Organism	Region name	Start	Stop	Length (bp)	PacBio read coverage	%GC	Corresponding annotation
Clostridium thermocellum AD2	AD2_Overlap1	3,502	5,535	2033	36x	39.4	Membrane protein insertase
	AD2_Overlap2	180,557	182,612	2055	116x	35.1	Transposase DDE domain
	AD2_Gap1	558,824	559,892	1068	82x	39	Transposase mutator type
Bacteroides cellulosolvens DSM 2933	BC_Overlap1	6,343,204	6,349,991	6788	36x	32.5	Transposase Tn3 family protein
	BC_Gap1	6,389,652	6,390,057	405	4x	35.5	RNA-binding protein

Average sequence coverage and GC contents of the final genome assembly are provided in the Table S2.