| Organism | Ratio1 | Gene1 | Name1 | Description1 | Ratio2 | Gene2 | Name2 | Description2 | Cofit | Rank |
| Vibrio cholerae E7946 ATCC 55056 | 1.0 | CSW01_10660 | | sigma-54-dependent Fis family transcriptional regulator | 1.0 | CSW01_11180 | | flagellar hook-associated protein FlgK | 0.96 | 7 |
| Alteromonas macleodii MIT1002 | 0.61 | MIT1002_01083 | | Transcriptional regulatory protein ZraR | 0.10 | MIT1002_01050 | | Flagellar hook-associated protein 1 | low | > 70 |
| Shewanella sp. ANA-3 | 0.58 | Shewana3_1340 | | two component, sigma54 specific, Fis family transcriptional regulator (RefSeq) | 0.24 | Shewana3_1330 | | flagellar hook-associated protein FlgK (RefSeq) | 0.57 | 20 |
| Shewanella amazonensis SB2B | 0.58 | Sama_2299 | | response regulator receiver protein (RefSeq) | 0.24 | Sama_2309 | | flagellar hook-associated protein (RefSeq) | low | > 62 |
| Shewanella loihica PV-4 | 0.58 | Shew_1364 | | two component, sigma54 specific, Fis family transcriptional regulator (RefSeq) | 0.24 | Shew_1354 | | flagellar hook-associated protein FlgK (RefSeq) | 0.94 | 20 |
| Marinobacter adhaerens HP15 | 0.51 | HP15_2328 | | two component, sigma54 specific, transcriptional regulator, Fis family | 0.17 | HP15_1476 | | flagellar hook-associated protein FlgK | 0.93 | 12 |
| Pseudomonas segetis P6 | 0.51 | MPMX49_03148 | | Regulatory protein AtoC | 0.18 | MPMX49_03158 | | hypothetical protein | 0.93 | 19 |
| Pseudomonas sp. S08-1 | 0.51 | OH686_02845 | | Flagellar two-component response regulator FleR | 0.18 | OH686_02930 | | flagellar hook-associated protein FlgK | 0.98 | 5 |
| Pseudomonas sp. RS175 | 0.50 | PFR28_00830 | | Regulatory protein AtoC | 0.16 | PFR28_00809 | | hypothetical protein | 0.57 | 29 |
| Pseudomonas stutzeri RCH2 | 0.50 | Psest_1767 | | Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains | 0.21 | Psest_2959 | | flagellar hook-associated protein FlgK | low | > 67 |
| Pseudomonas sp. DMC3 | 0.50 | GFF2447 | | Regulatory protein AtoC | 0.17 | GFF2421 | | hypothetical protein | low | > 89 |
| Pseudomonas fluorescens FW300-N2E3 | 0.50 | AO353_18670 | | Fis family transcriptional regulator | 0.16 | AO353_18620 | | flagellar biosynthesis protein FlgK | 0.80 | 1 |
| Pseudomonas fluorescens SBW25 | 0.49 | PFLU_RS21785 | | sigma-54-dependent Fis family transcriptional regulator | 0.15 | PFLU_RS21835 | | flagellar hook-associated protein FlgK | 0.79 | 23 |
| Pseudomonas fluorescens SBW25-INTG | 0.49 | PFLU_RS21785 | | sigma-54-dependent Fis family transcriptional regulator | 0.15 | PFLU_RS21835 | | flagellar hook-associated protein FlgK | 0.75 | 27 |
| Pseudomonas lactucae CFBP13502 | 0.49 | GEMAOFIL_04161 | | Regulatory protein AtoC | 0.15 | GEMAOFIL_04171 | | hypothetical protein | 0.82 | 19 |
| Pseudomonas orientalis W4I3 | 0.49 | QF045_RS21945 | | sigma-54 dependent transcriptional regulator | 0.16 | QF045_RS21995 | | flagellar hook-associated protein FlgK | 0.50 | 74 |
| Pseudomonas sp. BP01 | 0.49 | JOY50_RS00695 | | sigma-54 dependent transcriptional regulator | 0.14 | JOY50_RS00745 | flgK | flagellar hook-associated protein FlgK | low | > 84 |
| Pseudomonas fluorescens GW456-L13 | 0.49 | PfGW456L13_4355 | | Flagellar regulatory protein FleQ | 0.15 | PfGW456L13_4382 | | Flagellar hook-associated protein FlgK | low | > 87 |
| Pseudomonas aeruginosa MRSN321 | 0.49 | DY961_RS06955 | fleR;inference=COORDINATES | sigma-54-dependent response regulator transcription factor FleR | 0.17 | DY961_RS07020 | flgK;go_component=bacterial-type | flagellar hook-associated protein FlgK | 0.95 | 4 |
| Pseudomonas aeruginosa PUPa3 | 0.49 | DQ20_RS45880 | fleR;inference=COORDINATES | sigma-54-dependent response regulator transcription factor FleR | 0.16 | DQ20_RS45765 | flgK;go_component=bacterial-type | flagellar hook-associated protein FlgK | 0.93 | 9 |
| Pseudomonas aeruginosa PA14 | 0.49 | IKLFDK_05055 | | sigma-54-dependent response regulator transcription factor FleR | 0.17 | IKLFDK_04990 | | flagellar hook-associated protein 1 FlgK | 0.91 | 6 |
| Pseudomonas simiae WCS417 | 0.49 | PS417_19815 | | Fis family transcriptional regulator | 0.15 | PS417_19865 | | flagellar hook protein FlgK | — | — |
| Pseudomonas putida KT2440 | 0.48 | PP_4371 | | two component system AtoC DNA-binding transcriptional activator | 0.13 | PP_4381 | | Flagellar hook-associated protein FlgK | 0.66 | 10 |
| Pseudomonas sp. SVBP6 | 0.48 | COO64_RS21290 | | sigma-54 dependent transcriptional regulator | 0.15 | COO64_RS21350 | flgK | flagellar hook-associated protein FlgK | 0.47 | 63 |
| Pseudomonas fluorescens FW300-N2C3 | 0.48 | AO356_03845 | | Fis family transcriptional regulator | 0.15 | AO356_03905 | | flagellar biosynthesis protein FlgK | 0.69 | 27 |
| Pseudomonas syringae pv. syringae B728a ΔmexB | 0.48 | Psyr_3459 | | Helix-turn-helix, Fis-type | 0.14 | Psyr_3471 | | Flagellar basal body rod protein:Protein of unknown function DUF1078 | low | > 86 |
| Pseudomonas syringae pv. syringae B728a | 0.48 | Psyr_3459 | | Helix-turn-helix, Fis-type | 0.14 | Psyr_3471 | | Flagellar basal body rod protein:Protein of unknown function DUF1078 | low | > 86 |
Not shown: 23 genomes with orthologs for CSW01_10660 only; 25 genomes with orthologs for CSW01_11180 only