Top cofit genes for b4089 from Escherichia coli BW25113

rpiR: transcriptional repressor of rpiB expression (VIMSS)
SEED: Transcriptional regulator of D-allose utilization, RpiR family

Rank	Hit	Name	Description	Conserved?	Cofitness
1	b3806	cyaA	adenylate cyclase (NCBI)	no	0.44
2	b3926	glpK	glycerol kinase (NCBI)	0.72	0.40
3	b0125	hpt	hypoxanthine phosphoribosyltransferase (VIMSS)	no	0.39
4	b2240	glpT	sn-glycerol-3-phosphate transporter (NCBI)	0.43	0.38
5	b4239	treC	trehalose-6-P hydrolase (NCBI)	no	0.36
6	b4102	phnF	predicted DNA-binding transcriptional regulator of phosphonate uptake and biodegradation (NCBI)	no	0.36
7	b4101	phnG	carbon-phosphorus lyase complex subunit (NCBI)	no	0.32
8	b0726	sucA	alpha-ketoglutarate decarboxylase (NCBI)	no	0.32
9	b4106	phnC	phosphonate/organophosphate ester transporter subunit (NCBI)	no	0.31
10	b3493	pitA	phosphate transporter, low-affinity (NCBI)	0.76	0.31
11	b4104	phnE	phosphonate/organophosphate ester transporter subunit (NCBI)	no	0.31
12	b3728	pstS	phosphate transporter subunit (NCBI)	0.69	0.31
13	b0427	yajR	putative transport protein (VIMSS)	0.72	0.30
14	b4177	purA	adenylosuccinate synthetase (NCBI)	no	0.30
15	b3190	yrbA	orf, hypothetical protein (VIMSS)	0.59	0.30
16	b2280	nuoJ	NADH dehydrogenase subunit J (NCBI)	0.59	0.30
17	b0720	gltA	citrate synthase (NCBI)	no	0.29
18	b2283	nuoG	NADH:ubiquinone oxidoreductase, chain G (RefSeq)	0.65	0.29
19	b3426	glpD	sn-glycerol-3-phosphate dehydrogenase, aerobic, FAD/NAD(P)-binding (NCBI)	no	0.29
20	b3398	yrfF	predicted inner membrane protein (NCBI)	no	0.29

Or look for negative cofitness