# TF - Vapar_1337: Vapar_1337
>Vapar_1338(COG436 (PF00155)) Score=8.2 Pos=-99 [Variovorax paradoxus S110]
AACTGTACTGCA-------------AAGTGTGGCTGT
# TF - NrtR: Vapar_6281
>Vapar_6282(pncA) Score=6 Pos=-61 [Variovorax paradoxus S110]
ATGGTTGTACAGTGCAACCAA
>Vapar_6282(pncA) Score=6.2 Pos=-38 [Variovorax paradoxus S110]
AGAGTTGCACAGTACAACTAA
>Vapar_6281(nrtR) Score=6 Pos=-41 [Variovorax paradoxus S110]
AGAGTTGTTCTGTACAACCCA
# TF - NrdR: Vapar_3101
>Vapar_0956(nrdA) Score=5.7 Pos=-98 [Variovorax paradoxus S110]
ACCCTAGATATAGTGT
>Vapar_0956(nrdA) Score=5.4 Pos=-130 [Variovorax paradoxus S110]
ACGCTACATCTAGTGG
# TF - NorR: Vapar_6323
>Vapar_6323(norR) Score=4.5 Pos=-10 [Variovorax paradoxus S110]
TGTTGTATTTATGACCACA
>Vapar_6323(norR) Score=4.3 Pos=11 [Variovorax paradoxus S110]
CAGTGTCAGTTCGACCACA
>Vapar_6324(hmp) Score=3.8 Pos=-121 [Variovorax paradoxus S110]
TGTTGCGAATTTGACCACG
>Vapar_6324(hmp) Score=4.5 Pos=-147 [Variovorax paradoxus S110]
TGTGGTCATAAATACAACA
>Vapar_6324(hmp) Score=4.3 Pos=-168 [Variovorax paradoxus S110]
TGTGGTCGAACTGACACTG
# TF - HutC: Vapar_0157
>Vapar_0154(hisX) Score=5.1 Pos=-176 [Variovorax paradoxus S110]
CTTCCTGTATAGACAGCAAT
>Vapar_0154(hisX) Score=5.7 Pos=-110 [Variovorax paradoxus S110]
TATCCTGTATATACAAGTTG
>Vapar_0158(hutH) Score=5.6 Pos=-22 [Variovorax paradoxus S110]
CTACTTGTATAGACAGGTTC
# TF - IscR: Vapar_2141
>Vapar_2141(iscR) Score=5.9 Pos=-165 [Variovorax paradoxus S110]
ATACTTGAGCGAAATACTCAACAAC
>Vapar_2141(iscR) Score=5.4 Pos=-152 [Variovorax paradoxus S110]
ATACTCAACAACAACAAAAAAGAAC
# TF - NtrC: Vapar_1635
>Vapar_1632(glnA) Score=5.7 Pos=-139 [Variovorax paradoxus S110]
TGCACCAATTTGGTGAT
>Vapar_0217(CHP02001) Score=4.9 Pos=-207 [Variovorax paradoxus S110]
CTCACCATTGTGGTGCG
>Vapar_2849(nasD) Score=4.6 Pos=-189 [Variovorax paradoxus S110]
AGCACTGTTTTGGTGAG
>Vapar_3522(nrtA) Score=4.3 Pos=-313 [Variovorax paradoxus S110]
CGCACAACAAGCGTGCA
>Vapar_3526(narK) Score=4.6 Pos=-166 [Variovorax paradoxus S110]
AGCACCGCTTTGGTGAG
# TF - RbsR: Vapar_4639
>Vapar_4636(rbsB) Score=6.6 Pos=-95 [Variovorax paradoxus S110]
ATTAGCAAACGTTTGCGCAA
# TF - LexA: Vapar_2636
>Vapar_2636(lexA) Score=4.9 Pos=-36 [Variovorax paradoxus S110]
TACTGGATATTCAGCCAGTG
>Vapar_2636(lexA) Score=5.9 Pos=-55 [Variovorax paradoxus S110]
AACTGGTTAAAAATACAGGT
>Vapar_3206(imuA) Score=6.4 Pos=-32 [Variovorax paradoxus S110]
TACTGTATAAAAATACAGTT
>Vapar_2806(PF06733) Score=5 Pos=-26 [Variovorax paradoxus S110]
TACTGTTGTTTTATACAGCA
>Vapar_1693(PF04055) Score=5.9 Pos=-40 [Variovorax paradoxus S110]
TACTGTGTAAACATACAGTA
>Vapar_4538(imuA) Score=5.5 Pos=-32 [Variovorax paradoxus S110]
TACTGTTCATCCATACAGTA
>Vapar_5195(recA) Score=4.3 Pos=-83 [Variovorax paradoxus S110]
TACTGTTCAAGCATCCAGCC
# TF - LiuR: Vapar_4735
>Vapar_4735(liuR) Score=6.6 Pos=-115 [Variovorax paradoxus S110]
ATTGACGTTTACGTAAAC
# TF - FadP: Vapar_0809
>Vapar_3374(etfB) Score=5.1 Pos=-131 [Variovorax paradoxus S110]
AAGCACGGTCGTTCTT
>Vapar_0809(fadP) Score=5.7 Pos=-36 [Variovorax paradoxus S110]
TAGAACGACCGTTCGT
>Vapar_0572 Score=5.5 Pos=-32 [Variovorax paradoxus S110]
TCGAACGATCGTTCGC
>Vapar_1274(acdQ) Score=5.2 Pos=-87 [Variovorax paradoxus S110]
CAGCACGACCGTGCTA
# TF - VanR: Vapar_1746
>Vapar_1746(vanR) Score=4.1 Pos=-103 [Variovorax paradoxus S110]
TGTGTACA
>Vapar_1746(vanR) Score=4.9 Pos=-38 [Variovorax paradoxus S110]
TGTATACA
# TF - PaaR: Vapar_1240
>Vapar_1238(paaF) Score=5.5 Pos=-48 [Variovorax paradoxus S110]
ATCTACCGGACGGTCGGTCAAT
>Vapar_1239(paaY2) Score=5.4 Pos=-101 [Variovorax paradoxus S110]
ATTGACCGACCGTCCGGTAGAT
>Vapar_1238(paaF) Score=4.6 Pos=-52 [Variovorax paradoxus S110]
TAAAATCTACCGGACGGTCGGT
# TF - YrdX: Vapar_0563
>Vapar_0562(PF02635) Score=6.8 Pos=-343 [Variovorax paradoxus S110]
GTTGATCG----ATTGATTG
>Vapar_0562(PF02635) Score=7.1 Pos=-242 [Variovorax paradoxus S110]
GTTGATCG----ATTGATCG
>Vapar_0562(PF02635) Score=7.2 Pos=-111 [Variovorax paradoxus S110]
ATTGATCG----ATTGATCG
>Vapar_0562(PF02635) Score=4.9 Pos=-74 [Variovorax paradoxus S110]
CTGGCACA----CCTGCAAA
# RNA - FMN
>Vapar_1854(ribH2) Score=91.1 Pos=-266 [Variovorax paradoxus S110]
CAAGCGTTCTCAGGGCGGGGCGAAACTCCCCACCGGCGGTAATGGCGGCTTCTTCGAAAGAGGGGCCGCACGAGCCCGCGAGCGCCCAAGGCCTGCAATGGGCTGCGGGGTCAGCAGATTTCGGTGCAATTCCGAAGCCGACGGTCACAGTCCGGATGAAAGAGAGCGCGA
# RNA - TPP
>Vapar_4728(thiC) Score=60 Pos=-196 [Variovorax paradoxus S110]
AGTCCCCGCTCCGGGGTGCACGCATGTGGCGTGCTGAGATGGCAAAGTGCCGACCCGCGAACTTGATCCGGGTCATACCGGCGTAAGAAGAGCTGCACTCCCCGAC
>Vapar_2400(cytX) Score=48.9 Pos=-185 [Variovorax paradoxus S110]
GCACCACCGCTAGGGGTGTCGAACCGGGATCCGTTCCGGGGCTGACTGAGAGAGTCCCTTTGAACCTGACTGAGGTAATCCTCGCGCAGGGAAGCTGGTCCGGCGGCCT
# TF - HrcA: Vapar_4335
>Vapar_1119(groS) Score=7 Pos=-110 [Variovorax paradoxus S110]
TTAGCACTCGCTGCTGACGAGTGCTAA
>Vapar_4379(rpoH) Score=6.9 Pos=-55 [Variovorax paradoxus S110]
TTAGCACTCCCTCCAATCGAGTGCTAA
# TF - GntR: Vapar_6141
>Vapar_6142(gntT) Score=5.8 Pos=-66 [Variovorax paradoxus S110]
GCGGGATAGCGCTATCCCTG
>Vapar_6142(gntT) Score=6.1 Pos=-141 [Variovorax paradoxus S110]
CTAGGATAGCGCTGTCCCAG
>Vapar_6141(gntR) Score=6.1 Pos=-70 [Variovorax paradoxus S110]
CTGGGACAGCGCTATCCTAG
>Vapar_6141(gntR) Score=5.7 Pos=-54 [Variovorax paradoxus S110]
CTAGGACAGCGCTGTCCAAT
>Vapar_6141(gntR) Score=5.8 Pos=-145 [Variovorax paradoxus S110]
CAGGGATAGCGCTATCCCGC
>Vapar_6142(gntT) Score=5.7 Pos=-157 [Variovorax paradoxus S110]
ATTGGACAGCGCTGTCCTAG
# TF - SoxR: Vapar_4431
>Vapar_4430 Score=6.2 Pos=-35 [Variovorax paradoxus S110]
ACCTCAAGTTAGGTTGAGGC
>Vapar_4431(soxR) Score=6.3 Pos=-32 [Variovorax paradoxus S110]
ACCTCAACTAAAGTCGAGGT
# TF - CadR-PbrR: Vapar_3563
>Vapar_3562(cadA) Score=4.8 Pos=-26 [Variovorax paradoxus S110]
ACTCTACACCTGCTTCAGGGT
# RNA - SAH_riboswitch
>Vapar_0171(metH) Score=35.5 Pos=-133 [Variovorax paradoxus S110]
TTCCAAGGAGCGTTGCAGCGGCGGCCCGCATCAAGAGGCCCGCCGTCAGGCTTGGAAGGCG
>Vapar_4683(ahcY) Score=45.1 Pos=-136 [Variovorax paradoxus S110]
CGGTTCCGAGGAGCGTTGCAGCGCCGCCAGGCGTGAGGCTCGGACCACATCGCAACCACGCTCACCCGCT
# TF - CueR: Vapar_2999, Vapar_0029
>Vapar_0031(copA) Score=4.8 Pos=-34 [Variovorax paradoxus S110]
ACCTTGCCATGATGTGAGACT
>Vapar_2999(cueR2) Score=4.6 Pos=-60 [Variovorax paradoxus S110]
ACTCTCCCATGGTGTGAAGGC
>Vapar_0030(copZ) Score=4.9 Pos=-70 [Variovorax paradoxus S110]
ACATTGACATCATGAGAAGGT
# TF - Daci_3836: Vapar_0276
>Vapar_0265(uahA) Score=5 Pos=-25 [Variovorax paradoxus S110]
ACTTGTACACAAGT
# TF - MetR: Vapar_3249
>Vapar_3249(metR) Score=4.6 Pos=-13 [Variovorax paradoxus S110]
TTGAAATTCATTCAT
>Vapar_3249(metR) Score=3.4 Pos=-44 [Variovorax paradoxus S110]
ATGATTCAAACGAAA
>Vapar_3248(metE) Score=4.6 Pos=-103 [Variovorax paradoxus S110]
ATGAATGAATTTCAA
>Vapar_3248(metE) Score=3.4 Pos=-72 [Variovorax paradoxus S110]
TTTCGTTTGAATCAT
# TF - PdxW: Vapar_3858
>Vapar_3857(PF00583) Score=13.3 Pos=-117 [Variovorax paradoxus S110]
CGTGGCACCAT-(13)-CGTGGCGCTTC-(2)-GTGGCGCCACG
# TF - FdsR: Vapar_3016
>Vapar_3016(fdsR) Score=5.8 Pos=-24 [Variovorax paradoxus S110]
ATATGCTTTGGAAAGCCGAA
>Vapar_3017(fdsG) Score=5.8 Pos=-119 [Variovorax paradoxus S110]
TTCGGCTTTCCAAAGCATAT
# TF - ModE3: Vapar_1577
>Vapar_1588(tupA) Score=6.1 Pos=-74 [Variovorax paradoxus S110]
CTATGCAAAATCCTGCATAG
# TF - ModE2: Vapar_4071
>Vapar_4070(modB) Score=5.5 Pos=-14 [Variovorax paradoxus S110]
TGCGTTGTATCTTCATGAATACGACGAA
# TF - Vapar_5644: Vapar_5644
>Vapar_5643(PF01370) Score=13.3 Pos=-91 [Variovorax paradoxus S110]
TCATGGCCCATT-(12)-TCTTGGCTCTTT-(2)-AATGGTGCATCG
# TF - Daci_0595: Vapar_0748
>Vapar_0747(PF01810) Score=16.4 Pos=-93 [Variovorax paradoxus S110]
CTTCTGTGTCG-(10)-CAATACAGTTT-(15)-CAACTGTATCG-(0)-GAACTGTAATG
# TF - YdcR: Vapar_4651
>Vapar_4652(Mpe_A0753) Score=8.6 Pos=-68 [Variovorax paradoxus S110]
ATCTGCTCCGGTGAT---------AACTGCATCTGTTTT
# TF - Daci_3053: Vapar_2905
>Vapar_2906(sgaA) Score=4.9 Pos=-36 [Variovorax paradoxus S110]
GTTTTGAATGCAAAAC
>Vapar_2905(Daci_3053) Score=4.9 Pos=-101 [Variovorax paradoxus S110]
GTTTTGCATTCAAAAC
>Vapar_2905(Daci_3053) Score=5.8 Pos=-35 [Variovorax paradoxus S110]
TTTTTGCATTCAAAAT
>Vapar_2906(sgaA) Score=5.8 Pos=-102 [Variovorax paradoxus S110]
ATTTTGAATGCAAAAA
# TF - GabR2: Vapar_4694
>Vapar_4695(gabT) Score=14.8 Pos=-120 [Variovorax paradoxus S110]
GTATGTACAGGA-(6)-ACCAGTACAGTC-(17)-CGGTGTACATGG
# TF - Aave_3430: Vapar_0983
>Vapar_0983(Aave_3430) Score=14.2 Pos=-120 [Variovorax paradoxus S110]
ACAGGCACACACCC-(11)-ACCGGAACAGCGGT-(9)-GCATCTGTTATGGT-(11)-GCAACTGCATCTGT
>Vapar_0984 Score=21.4 Pos=-140 [Variovorax paradoxus S110]
ACAGATGCAGTTGC-(11)-ACCATAACAGATGC-(9)-ACCGCTGTTCCGGT-(11)-GGGTGTGTGCCTGT
# TF - UxuR2: Vapar_5316, Vapar_0787
>Vapar_0787(uxuR2) Score=5 Pos=-52 [Variovorax paradoxus S110]
GAATTGGCCTTACCACTTG
>Vapar_0788(Bpro_3961) Score=5 Pos=-104 [Variovorax paradoxus S110]
CAAGTGGTAAGGCCAATTC
>Vapar_2876(uxuR3) Score=5.2 Pos=-27 [Variovorax paradoxus S110]
AATGTGGTCTAACCAATTT
>Vapar_5316(uxuR2-2) Score=5.1 Pos=-165 [Variovorax paradoxus S110]
CTTTTGGCCTTACCAATTT
>Vapar_5316(uxuR2-2) Score=4.7 Pos=-151 [Variovorax paradoxus S110]
AATTTGGCGAGGCCACTTT
>Vapar_5316(uxuR2-2) Score=4.7 Pos=-36 [Variovorax paradoxus S110]
AAACTGGCATGACCAGATC
>Vapar_5317 Score=4.7 Pos=-157 [Variovorax paradoxus S110]
GATCTGGTCATGCCAGTTT
>Vapar_5317 Score=4.7 Pos=-42 [Variovorax paradoxus S110]
AAAGTGGCCTCGCCAAATT
>Vapar_5317 Score=5.1 Pos=-28 [Variovorax paradoxus S110]
AAATTGGTAAGGCCAAAAG
# TF - UxuR3: Vapar_2876
>Vapar_2876(uxuR3) Score=4.8 Pos=-46 [Variovorax paradoxus S110]
TAATTGGTATGCCACGCA
>Vapar_2876(uxuR3) Score=5 Pos=-69 [Variovorax paradoxus S110]
CTAGTGGTAAACCACTAT
# TF - TauR: Vapar_3848
>Vapar_3846(tauA) Score=6.8 Pos=-90 [Variovorax paradoxus S110]
CTGGCTCCAT-------------CTGGTACTTC
>Vapar_3849(tauX) Score=7.1 Pos=-85 [Variovorax paradoxus S110]
CTGGCTCGGT-------------CTGGCCCTAT
# TF - SdhR: Vapar_1431
>Vapar_1431(sdhR) Score=6.8 Pos=-4 [Variovorax paradoxus S110]
TCTTATGTCTTATATAAGATATGCTC
>Vapar_1432(mdh) Score=6.8 Pos=-151 [Variovorax paradoxus S110]
GAGCATATCTTATATAAGACATAAGA
>Vapar_1869(aceA) Score=7.1 Pos=-97 [Variovorax paradoxus S110]
AAATATGTCTTCTATAAGACATAAGA
# TF - GguR: Vapar_1727
>Vapar_1727(gguR) Score=5.1 Pos=-39 [Variovorax paradoxus S110]
CTGTTGTCGTACAACTA
>Vapar_1728(tctC1) Score=4.6 Pos=-44 [Variovorax paradoxus S110]
TAGTTGTACGATGACTG
>Vapar_1728(tctC1) Score=4.2 Pos=-37 [Variovorax paradoxus S110]
ACGATGACTGACAACAC
>Vapar_1726(udh) Score=5.1 Pos=-39 [Variovorax paradoxus S110]
TAGTTGTACGACAACAG