Top cofit genes for b2442 from Escherichia coli BW25113

intZ: CPZ-55 prophage; predicted integrase (RefSeq)
SEED: putative prophage integrase

Rank	Hit	Name	Description	Conserved?	Cofitness
1	b4310	yjhT	orf, hypothetical protein (VIMSS)	no	0.20
2	b1334	fnr	DNA-binding transcriptional dual regulator, global regulator of anaerobic growth (NCBI)	no	0.19
3	b0713	ybgL	hypothetical protein (NCBI)	no	0.18
4	b0903	pflB	pyruvate formate lyase I (NCBI)	no	0.18
5	b1024	ycdS	predicted outer membrane protein (NCBI)	no	0.18
6	b4267	idnD	L-idonate 5-dehydrogenase, NAD-binding (NCBI)	no	0.18
7	b3147	yraM	hypothetical protein (NCBI)	no	0.18
8	b0902	pflA	pyruvate formate lyase activating enzyme 1 (NCBI)	no	0.17
9	b3396	mrcA	peptidoglycan synthetase; penicillin-binding protein 1A (VIMSS)	no	0.17
10	b2877	ygfJ	hypothetical protein (NCBI)	no	0.17
11	b2819	recD	exonuclease V (RecBCD complex), alpha chain (NCBI)	no	0.17
12	b3479	nikD	nickel transporter subunit (NCBI)	no	0.17
13	b4575	yjgX	no description	no	0.16
14	b2085	b2085	orf, hypothetical protein (VIMSS)	no	0.16
15	b0565	ompT	DLP12 prophage; outer membrane protease VII (outer membrane protein 3b) (NCBI)	no	0.16
16	b3441	yhhY	predicted acetyltransferase (NCBI)	no	0.16
17	b0611	rna	ribonuclease I (NCBI)	no	0.16
18	b0381	ddlA	D-alanylalanine synthetase (NCBI)	no	0.16
19	b1520	b1520	orf, hypothetical protein (VIMSS)	no	0.16
20	b3446	yrhB	hypothetical protein (NCBI)	no	0.16

Or look for negative cofitness