Top cofit genes for b2745 from Escherichia coli BW25113

truD: tRNA pseudouridine synthase D (NCBI)
SEED: tRNA pseudouridine 13 synthase (EC 4.2.1.-)
KEGG: tRNA pseudouridine synthase D

Rank	Hit	Name	Description	Conserved?	Cofitness
1	b3283	yrdD	predicted DNA topoisomerase (NCBI)	0.53	0.30
2	b2744	surE	acid phosphatase (NCBI)	0.94	0.28
3	b2955	yggW	coproporphyrinogen III oxidase (NCBI)	0.56	0.27
4	b4170	mutL	DNA mismatch repair protein (NCBI)	0.55	0.26
5	b3181	greA	transcription elongation factor: cleaves 3' nucleotide of paused mRNA (VIMSS)	0.50	0.25
6	b3806	cyaA	adenylate cyclase (NCBI)	0.39	0.25
7	b4371	rsmC	16S ribosomal RNA m2G1207 methyltransferase (NCBI)	0.61	0.25
8	b3780	rhlB	ATP-dependent RNA helicase (NCBI)	0.67	0.24
9	b0007	yaaJ	predicted transporter (NCBI)	0.20	0.24
10	b2113	mrp	putative ATPase (VIMSS)	0.39	0.24
11	b3999	yjaG	hypothetical protein (NCBI)	0.48	0.24
12	b3260	dusB	tRNA-dihydrouridine synthase B (NCBI)	no	0.24
13	b3180	yhbY	predicted RNA-binding protein (NCBI)	0.48	0.23
14	b3493	pitA	phosphate transporter, low-affinity (NCBI)	0.40	0.23
15	b3894	fdoG	formate dehydrogenase-O, large subunit (NCBI)	no	0.23
16	b2569	lepA	GTP-binding protein LepA (NCBI)	0.51	0.23
17	b3132	kbaZ	tagatose 6-phosphate aldolase 1, kbaZ subunit (NCBI)	no	0.22
18	b2909	ygfB	orf, hypothetical protein (VIMSS)	no	0.22
19	b1865	nudB	dATP pyrophosphohydrolase (NCBI)	no	0.22
20	b2216	rcsD	phosphotransfer intermediate protein in two-component regulatory system with RcsBC (NCBI)	no	0.22

Or look for negative cofitness