120 decreased-coverage genes were found for selected organism/s



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Locus tag

Gene type

Replicon accession

From

To

Strand

Gene Length

Product

Protein accession

Plasmid clonability

Plasmid unclonability p-value

Fosmid clonability

Fosmid unclonability p-value

Organism name

Kingdom

Coverage Plot

PanDaTox homologs

Experimental validation
Dfer_0049  CDS  NC_013037  57450  61799  4350  hypothetical protein  YP_003084486  decreased coverage  6.51101e-05  normal  0.0482632  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0122  CDS  NC_013037  137726  139582  1857  protein of unknown function DUF303 acetylesterase putative  YP_003084558  decreased coverage  2.07117e-05  normal  0.31182  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0193  CDS  NC_013037  220108  221082  975  glycoside hydrolase family 43  YP_003084629  decreased coverage  0.00680352  normal  0.581709  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0215  CDS  NC_013037  242178  242807  630  putative transcriptional regulator  YP_003084651  hitchhiker  1.33707e-07  decreased coverage  0.0059544  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0338  CDS  NC_013037  388790  390496  1707  PAS/PAC sensor signal transduction histidine kinase  YP_003084773  normal  0.127973  decreased coverage  0.00024777  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0339  CDS  NC_013037  390595  393858  3264  TonB-dependent receptor plug  YP_003084774  normal  0.135408  decreased coverage  0.000558504  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0356  CDS  NC_013037  412991  413707  717  Pirin domain protein  YP_003084790  decreased coverage  0.00920786  normal  0.313819  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0358  CDS  NC_013037  414072  414650  579  putative transcriptional regulator, Crp/Fnr family  YP_003084792  decreased coverage  0.00654303  normal  0.458224  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0383  CDS  NC_013037  437561  437923  363  hypothetical protein  YP_003084817  decreased coverage  7.47639e-12  normal  0.139066  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0384  CDS  NC_013037  438090  440192  2103  hypothetical protein  YP_003084818  decreased coverage  1.71472e-08  normal  0.22141  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0445  CDS  NC_013037  506857  508692  1836  sulfatase  YP_003084879  decreased coverage  0.00137642  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0446  CDS  NC_013037  508841  511027  2187  glutamine synthetase catalytic region  YP_003084880  decreased coverage  0.00602477  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0468  CDS  NC_013037  530751  531395  645  GTP cyclohydrolase I  YP_003084902  decreased coverage  0.00942975  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0558  CDS  NC_013037  625279  627732  2454  TonB-dependent receptor plug  YP_003084988  decreased coverage  7.27933e-09  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0580  CDS  NC_013037  658357  661473  3117  heavy metal efflux pump, CzcA family  YP_003085010  decreased coverage  0.00250892  hitchhiker  0.00955632  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0581  CDS  NC_013037  661635  662345  711  putative lipoprotein  YP_003085011  decreased coverage  9.22663e-05  hitchhiker  0.00932499  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0585  CDS  NC_013037  665151  665918  768  hypothetical protein  YP_003085014  normal  0.332625  decreased coverage  0.00157125  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0622    NC_013037  717975  718912  938      decreased coverage  0.00328513  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0663  CDS  NC_013037  772882  776262  3381  hypothetical protein  YP_003085090  decreased coverage  0.00858372  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0710  CDS  NC_013037  835190  836617  1428  outer membrane protein-like protein  YP_003085137  decreased coverage  1.05718e-07  normal  0.231109  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0720  CDS  NC_013037  854101  854475  375  hypothetical protein  YP_003085147  decreased coverage  0.00159384  normal  0.265412  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0795  CDS  NC_013037  938932  939972  1041  Xylan 1,4-beta-xylosidase  YP_003085220  decreased coverage  1.73963e-05  normal  0.0629112  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0796  CDS  NC_013037  939986  941065  1080  Endo-1,4-beta-xylanase  YP_003085221  decreased coverage  6.50557e-06  normal  0.101178  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0811  CDS  NC_013037  961327  964377  3051  TonB-dependent receptor  YP_003085236  decreased coverage  3.53149e-05  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0887  CDS  NC_013037  1046686  1047963  1278  hypothetical protein  YP_003085306  decreased coverage  4.58377e-05  normal  0.320696  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0961  CDS  NC_013037  1114032  1115819  1788  protein of unknown function DUF87  YP_003085376  decreased coverage  0.000841984  hitchhiker  0.00444389  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0965  CDS  NC_013037  1121635  1122867  1233  hypothetical protein  YP_003085380  normal  0.198201  decreased coverage  0.000190957  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0967  CDS  NC_013037  1123987  1124421  435  helix-turn-helix domain protein  YP_003085381  normal  0.131013  decreased coverage  0.000141679  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0968  CDS  NC_013037  1124557  1125468  912  hypothetical protein  YP_003085382  hitchhiker  0.00821415  decreased coverage  0.00017885  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0969  CDS  NC_013037  1125675  1126421  747  hypothetical protein  YP_003085383  decreased coverage  0.000295525  hitchhiker  0.000492086  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_0980  CDS  NC_013037  1139605  1141038  1434  RND efflux system, outer membrane lipoprotein, NodT family  YP_003085394  decreased coverage  1.29951e-05  normal  0.889161  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1004  CDS  NC_013037  1175215  1175988  774  two component transcriptional regulator, LytTR family  YP_003085418  decreased coverage  0.00878343  normal  0.279198  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1005  CDS  NC_013037  1176194  1177366  1173  signal transduction histidine kinase, LytS  YP_003085419  decreased coverage  0.000807756  normal  0.310499  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1021  CDS  NC_013037  1199825  1202062  2238  putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB  YP_003085435  decreased coverage  0.00530094  normal  0.902731  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1074  CDS  NC_013037  1272018  1272875  858  hypothetical protein  YP_003085488  decreased coverage  7.09706e-08  normal  0.646556  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1108  CDS  NC_013037  1321963  1325190  3228  putative transcriptional regulator, Crp/Fnr family  YP_003085522  decreased coverage  0.000733786  normal  0.267995  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1123  CDS  NC_013037  1338853  1339182  330  XRE family plasmid maintenance system antidote protein  YP_003085537  decreased coverage  1.09926e-11  normal  0.590059  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1124  CDS  NC_013037  1339186  1339464  279  plasmid maintenance system killer  YP_003085538  decreased coverage  9.91255e-12  normal  0.581141  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1125  CDS  NC_013037  1339592  1340143  552  RNA polymerase, sigma-24 subunit, ECF subfamily  YP_003085539  decreased coverage  2.33125e-11  normal  0.587181  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1134  CDS  NC_013037  1348794  1349609  816  MCP methyltransferase, CheR-type  YP_003085548  decreased coverage  0.0014664  normal  0.105937  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1150  CDS  NC_013037  1368882  1370690  1809  putative inner membrane protein translocase component YidC  YP_003085564  normal  0.333218  decreased coverage  0.00602156  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1201  CDS  NC_013037  1421488  1422243  756  hypothetical protein  YP_003085615  decreased coverage  3.38673e-09  normal  0.731503  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1211  CDS  NC_013037  1438737  1439429  693  Silent information regulator protein Sir2  YP_003085625  decreased coverage  0.000184843  hitchhiker  0.000443834  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1212  CDS  NC_013037  1439430  1440311  882  Methenyltetrahydrofolate cyclohydrolase  YP_003085626  decreased coverage  0.000340013  decreased coverage  4.58774e-05  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1213  CDS  NC_013037  1440531  1441715  1185  transcriptional regulator, XRE family  YP_003085627  hitchhiker  0.00829806  decreased coverage  4.99416e-05  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1221  CDS  NC_013037  1449128  1451071  1944  threonyl-tRNA synthetase  YP_003085635  decreased coverage  0.001104  hitchhiker  0.00620187  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1222  CDS  NC_013037  1451209  1451739  531  translation initiation factor IF-3  YP_003085636  decreased coverage  0.000572155  hitchhiker  0.00763284  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1281  CDS  NC_013037  1511375  1511494  120  hypothetical protein  YP_003085694  decreased coverage  0.00639713  normal  0.30814  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1368  CDS  NC_013037  1604899  1605468  570  transcriptional regulator, XRE family  YP_003085781  decreased coverage  0.000513137  normal  0.127219  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1369    NC_013037  1605458  1606635  1178      decreased coverage  0.00155714  normal  0.22845  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1380  CDS  NC_013037  1622745  1626323  3579  TonB-dependent receptor plug  YP_003085792  decreased coverage  0.000706938  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1463  CDS  NC_013037  1739854  1743210  3357  multi-sensor signal transduction histidine kinase  YP_003085874  decreased coverage  0.000390432  normal  0.0407868  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1560  CDS  NC_013037  1864660  1865586  927  hypothetical protein  YP_003085969  decreased coverage  0.000420757  normal  0.775354  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1561  CDS  NC_013037  1865578  1866495  918  DSBA oxidoreductase  YP_003085970  decreased coverage  7.56973e-05  normal  0.805709  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1572  CDS  NC_013037  1882452  1884077  1626  RagB/SusD domain protein  YP_003085981  decreased coverage  0.00617416  normal  0.812354  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1580  CDS  NC_013037  1895887  1897692  1806  hypothetical protein  YP_003085988  decreased coverage  0.000412506  normal  0.738361  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1581  CDS  NC_013037  1897837  1899573  1737  Tetratricopeptide domain protein  YP_003085989  decreased coverage  0.00337533  normal  0.487012  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1582  CDS  NC_013037  1899625  1900842  1218  peptidase M14 carboxypeptidase A  YP_003085990  decreased coverage  0.00197244  normal  0.432396  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1640  CDS  NC_013037  1988734  1992051  3318  TonB-dependent receptor plug  YP_003086047  decreased coverage  3.17861e-06  normal  0.245128  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1826    NC_013037  2249195  2249667  473      decreased coverage  2.26624e-11  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_1827    NC_013037  2249710  2251046  1337      decreased coverage  9.13775e-10  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2339  CDS  NC_013037  2892450  2893133  684  hypothetical protein  YP_003086723  decreased coverage  6.18869e-08  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2410  CDS  NC_013037  2974375  2975691  1317  amidohydrolase  YP_003086793  decreased coverage  0.0002152  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2452  CDS  NC_013037  3019675  3021249  1575  hypothetical protein  YP_003086835  decreased coverage  0.00015704  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2478  CDS  NC_013037  3052291  3052548  258  hypothetical protein  YP_003086861  decreased coverage  0.0068353  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2527  CDS  NC_013037  3112238  3116539  4302  FG-GAP repeat protein  YP_003086910  decreased coverage  0.000205902  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2583  CDS  NC_013037  3186912  3188420  1509  OmpA/MotB domain protein  YP_003086965  decreased coverage  8.63952e-07  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2610  CDS  NC_013037  3223301  3225574  2274  hypothetical protein  YP_003086992  decreased coverage  0.00722891  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2842  CDS  NC_013037  3506963  3508486  1524  altronate oxidoreductase  YP_003087222  decreased coverage  0.00101076  normal  0.0729645  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2874  CDS  NC_013037  3540789  3542384  1596  Na+/H+ antiporter  YP_003087254  decreased coverage  1.39579e-06  normal  0.0106447  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2876  CDS  NC_013037  3544099  3545391  1293  peptidase M24  YP_003087256  normal  0.0874223  decreased coverage  0.00406602  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2877  CDS  NC_013037  3545448  3545747  300  hypothetical protein  YP_003087257  normal  0.415501  decreased coverage  0.00275622  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2878  CDS  NC_013037  3545747  3545848  102  hypothetical protein  YP_003087258  normal  0.561327  decreased coverage  0.00253263  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_2918  CDS  NC_013037  3583938  3585005  1068  hypothetical protein  YP_003087298  decreased coverage  3.60393e-11  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3016  CDS  NC_013037  3689174  3690214  1041  UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase  YP_003087396  decreased coverage  2.35003e-08  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3072  CDS  NC_013037  3752314  3753933  1620  SSS sodium solute transporter superfamily  YP_003087452  decreased coverage  0.00704051  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3233  CDS  NC_013037  3961292  3964015  2724  TonB-dependent siderophore receptor  YP_003087610  decreased coverage  1.92727e-06  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3263  CDS  NC_013037  3996059  3997201  1143  hypothetical protein  YP_003087640  normal  decreased coverage  0.00526727  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3420  CDS  NC_013037  4180171  4181562  1392  peptidase S41  YP_003087795  decreased coverage  1.74493e-11  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3452  CDS  NC_013037  4230119  4230817  699  50S ribosomal protein L1  YP_003087827  decreased coverage  0.00102084  normal  0.0363138  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3456  CDS  NC_013037  4232360  4233547  1188  elongation factor Tu  YP_003087831  decreased coverage  0.0019954  normal  0.040837  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3461  CDS  NC_013037  4237793  4240315  2523  hypothetical protein  YP_003087836  normal  decreased coverage  0.00828066  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3472  CDS  NC_013037  4248592  4249959  1368  hypothetical protein  YP_003087847  decreased coverage  0.0090694  normal  0.166385  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3495  CDS  NC_013037  4275219  4276037  819  ribosomal protein S2  YP_003087870  decreased coverage  6.42119e-08  normal  0.503548  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3621  CDS  NC_013037  4417830  4418522  693  hypothetical protein  YP_003087991  decreased coverage  0.00670204  normal  0.745497  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3666  CDS  NC_013037  4466006  4466575  570  RNA polymerase, sigma-24 subunit, ECF subfamily  YP_003088036  decreased coverage  1.59733e-07  normal  0.134182  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3747  CDS  NC_013037  4563433  4565835  2403  hypothetical protein  YP_003088116  decreased coverage  1.12576e-06  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3805  CDS  NC_013037  4633960  4635747  1788  Tetratricopeptide domain protein  YP_003088174  decreased coverage  0.00975228  normal  0.247571  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3817  CDS  NC_013037  4656285  4657643  1359  aspartate kinase  YP_003088186  decreased coverage  0.00114248  normal  0.367639  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3908  CDS  NC_013037  4754221  4755138  918  PfkB domain protein  YP_003088277  decreased coverage  0.00598203  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_3967  CDS  NC_013037  4814334  4817186  2853  hypothetical protein  YP_003088336  decreased coverage  1.7261e-07  normal  0.368217  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4012  CDS  NC_013037  4863374  4864183  810  hypothetical protein  YP_003088381  decreased coverage  0.00869755  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4162  CDS  NC_013037  5021807  5023138  1332  outer membrane efflux protein  YP_003088530  decreased coverage  5.33026e-06  normal  0.288124  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4173  CDS  NC_013037  5034667  5036832  2166  cytochrome c biogenesis protein transmembrane region  YP_003088541  decreased coverage  0.000359793  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4223  CDS  NC_013037  5107095  5110133  3039  TonB-dependent receptor plug  YP_003088591  decreased coverage  2.01846e-07  normal  0.958019  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4234  CDS  NC_013037  5126682  5129063  2382  putative aminopeptidase  YP_003088601  decreased coverage  7.00491e-09  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4352  CDS  NC_013037  5274427  5274690  264  30S ribosomal protein S17  YP_003088719  decreased coverage  1.86006e-11  normal  0.0710567  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4353  CDS  NC_013037  5274693  5275061  369  ribosomal protein L14  YP_003088720  decreased coverage  3.35969e-11  normal  0.0420195  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4391  CDS  NC_013037  5304802  5306403  1602  hypothetical protein  YP_003088758  decreased coverage  0.0001385  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
Dfer_4392  CDS  NC_013037  5306436  5307158  723  lipoprotein signal peptidase  YP_003088759  decreased coverage  4.33749e-05  normal  Dyadobacter fermentans DSM 18053  Bacteria 
 
 
-
 
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