86 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
Pmen_0416  CDS  NC_009439  439138  440532  1395  citrate transporter  YP_001185921  decreased coverage  0.00414278  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_0564  CDS  NC_009439  614523  615770  1248  restriction modification system DNA specificity subunit  YP_001186066  decreased coverage  0.00017151  decreased coverage  6.20122e-17  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_0565  CDS  NC_009439  615763  616416  654  hypothetical protein  YP_001186067  decreased coverage  5.78097e-05  decreased coverage  3.51919e-17  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_0566  CDS  NC_009439  616413  617495  1083  appr-1-p processing domain-containing protein  YP_001186068  hitchhiker  0.00315958  decreased coverage  1.26999e-15  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_0652  CDS  NC_009439  722078  724369  2292  hypothetical protein  YP_001186152  normal  decreased coverage  2.31874e-06  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_0927  CDS  NC_009439  1047379  1048572  1194  cell division protein FtsZ  YP_001186427  decreased coverage  8.29839e-07  normal  0.686673  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1097  CDS  NC_009439  1232773  1234113  1341  outer membrane porin  YP_001186596  decreased coverage  1.58939e-06  normal  0.0454814  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1103  CDS  NC_009439  1238953  1240152  1200  Bcr/CflA subfamily drug resistance transporter  YP_001186602  normal  0.278959  decreased coverage  0.00752766  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1149  CDS  NC_009439  1293883  1295322  1440  integral membrane sensor signal transduction histidine kinase  YP_001186648  decreased coverage  0.000106108  normal  0.933142  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1171  CDS  NC_009439  1318463  1319803  1341  outer membrane porin  YP_001186668  decreased coverage  0.00378662  normal  0.540471  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1220  CDS  NC_009439  1381137  1382066  930  ABC transporter related  YP_001186717  normal  decreased coverage  0.00788547  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1221  CDS  NC_009439  1382063  1382824  762  ABC-2 type transporter  YP_001186718  normal  0.389129  decreased coverage  0.00710452  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1223  CDS  NC_009439  1383390  1385786  2397  ATP-dependent protease La  YP_001186720  normal  decreased coverage  0.00879429  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1260  CDS  NC_009439  1421654  1422931  1278  outer membrane porin  YP_001186757  decreased coverage  7.49415e-05  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1327  CDS  NC_009439  1487697  1488350  654  HAD family hydrolase  YP_001186824  decreased coverage  0.00757114  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1466  CDS  NC_009439  1626930  1628561  1632  L-aspartate oxidase  YP_001186963  decreased coverage  0.00248368  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1487  CDS  NC_009439  1648005  1648604  600  DNA-N1-methyladenine dioxygenase  YP_001186984  decreased coverage  0.00541733  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1488  CDS  NC_009439  1648601  1648762  162  hypothetical protein  YP_001186985  decreased coverage  0.000724258  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1598  CDS  NC_009439  1763589  1764257  669  Na(+)-translocating NADH-quinone reductase subunit D  YP_001187094  decreased coverage  4.24446e-05  normal  0.0207177  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1599  CDS  NC_009439  1764257  1764865  609  Na(+)-translocating NADH-quinone reductase subunit E  YP_001187095  decreased coverage  3.63423e-05  normal  0.0311409  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1713  CDS  NC_009439  1884936  1886258  1323  ribosomal protein S12 methylthiotransferase  YP_001187209  decreased coverage  0.00416624  normal  0.0683771  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1720  CDS  NC_009439  1893245  1895026  1782  hypothetical protein  YP_001187216  decreased coverage  0.00248368  normal  0.287373  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1726  CDS  NC_009439  1901995  1903053  1059  DNA polymerase IV  YP_001187222  decreased coverage  0.000164893  normal  0.305741  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1845  CDS  NC_009439  2030722  2031426  705  3-demethylubiquinone-9 3-methyltransferase  YP_001187341  decreased coverage  0.00431464  normal  0.756459  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1871  CDS  NC_009439  2062780  2063547  768  hypothetical protein  YP_001187366  decreased coverage  0.00920838  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1904  CDS  NC_009439  2095047  2096102  1056  putative RNA 2'-O-ribose methyltransferase  YP_001187398  decreased coverage  0.000223695  normal  0.490603  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_1987  CDS  NC_009439  2190660  2192690  2031  DNA helicase/exodeoxyribonuclease V, alpha subunit  YP_001187480  decreased coverage  0.000228018  normal  0.266094  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2003  CDS  NC_009439  2213859  2215445  1587  ABC transporter related  YP_001187496  normal  0.118433  decreased coverage  0.00762466  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2004  CDS  NC_009439  2215954  2216355  402  hypothetical protein  YP_001187497  normal  0.0261102  decreased coverage  0.00480965  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2008  CDS  NC_009439  2219256  2219924  669  polar amino acid ABC transporter, inner membrane subunit  YP_001187501  normal  0.0198583  decreased coverage  0.00681365  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2009  CDS  NC_009439  2219921  2220718  798  cystine transporter subunit  YP_001187502  normal  0.163072  decreased coverage  0.0074335  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2010  CDS  NC_009439  2220790  2221794  1005  D-cysteine desulfhydrase  YP_001187503  normal  0.152874  decreased coverage  0.00891545  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2029  CDS  NC_009439  2241842  2242741  900  hydroxymethylglutaryl-CoA lyase  YP_001187522  decreased coverage  0.0062803  normal  0.740342  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2054  CDS  NC_009439  2271376  2273223  1848  PpiC-type peptidyl-prolyl cis-trans isomerase  YP_001187547  decreased coverage  0.000102165  normal  0.112605  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2090  CDS  NC_009439  2316282  2317106  825  TM helix repeat-containing protein  YP_001187583  decreased coverage  0.00247017  normal  0.258692  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2102  CDS  NC_009439  2331826  2332515  690  hypothetical protein  YP_001187595  decreased coverage  0.00164411  normal  0.0561114  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2105  CDS  NC_009439  2334399  2335682  1284  ABC-type nitrate/sulfonate/bicarbonate transport systems periplasmic components-like protein  YP_001187598  normal  0.187135  decreased coverage  0.00370566  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2106  CDS  NC_009439  2336070  2336384  315  hypothetical protein  YP_001187599  normal  0.317583  decreased coverage  0.00244173  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2133  CDS  NC_009439  2354785  2355639  855  LysR family transcriptional regulator  YP_001187625  decreased coverage  0.00732746  normal  0.30911  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2155  CDS  NC_009439  2378876  2379916  1041  ribosomal RNA large subunit methyltransferase N  YP_001187647  decreased coverage  0.00348508  normal  0.317222  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2169  CDS  NC_009439  2396085  2397320  1236  sigma-54 dependent trancsriptional regulator  YP_001187661  decreased coverage  0.00208914  normal  0.0141278  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2170  CDS  NC_009439  2397391  2397858  468  hypothetical protein  YP_001187662  decreased coverage  0.000841913  hitchhiker  0.00518945  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2174  CDS  NC_009439  2399615  2401249  1635  methyl-accepting chemotaxis sensory transducer  YP_001187666  normal  decreased coverage  0.00506259  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2194  CDS  NC_009439  2424508  2427120  2613  DEAD/DEAH box helicase domain-containing protein  YP_001187686  normal  0.254587  decreased coverage  0.00486766  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2237  CDS  NC_009439  2468803  2469045  243  hypothetical protein  YP_001187728  decreased coverage  0.000195386  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2239  CDS  NC_009439  2470166  2470846  681  hypothetical protein  YP_001187730  decreased coverage  0.000870146  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2253  CDS  NC_009439  2482149  2484056  1908  hypothetical protein  YP_001187744  decreased coverage  0.000796594  normal  0.115839  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2294  CDS  NC_009439  2529406  2532708  3303  trehalose synthase  YP_001187784  decreased coverage  0.00139705  decreased coverage  8.83241e-07  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2316  CDS  NC_009439  2554174  2557689  3516  ImcF domain-containing protein  YP_001187806  decreased coverage  0.00185575  hitchhiker  0.000165437  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2334  CDS  NC_009439  2577010  2578122  1113  hypothetical protein  YP_001187824  decreased coverage  0.00524729  normal  0.0110062  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2335  CDS  NC_009439  2578122  2579159  1038  3-oxoacyl-(acyl carrier protein) synthase  YP_001187825  decreased coverage  0.00405525  normal  0.0104415  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2356  CDS  NC_009439  2601650  2602882  1233  sodium/hydrogen exchanger  YP_001187846  normal  0.314929  decreased coverage  0.000354655  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2357  CDS  NC_009439  2603149  2604126  978  short chain dehydrogenase  YP_001187847  normal  0.486705  decreased coverage  0.000279789  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2362  CDS  NC_009439  2607634  2608833  1200  acyl-CoA dehydrogenase type 2  YP_001187852  decreased coverage  0.00266653  hitchhiker  0.00112869  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2363  CDS  NC_009439  2608833  2610236  1404  coenzyme F420-dependent N5 N10-methylene tetrahydromethanopterin reductase-like protein  YP_001187853  decreased coverage  0.000880106  hitchhiker  0.00124341  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2399  CDS  NC_009439  2647440  2648552  1113  tRNA-specific 2-thiouridylase MnmA  YP_001187887  decreased coverage  0.00300816  normal  0.0915996  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2444  CDS  NC_009439  2708105  2709574  1470  methyl-accepting chemotaxis sensory transducer  YP_001187932  decreased coverage  0.00221824  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2523  CDS  NC_009439  2785321  2785773  453  hypothetical protein  YP_001188011  decreased coverage  0.00335625  normal  0.339513  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2541  CDS  NC_009439  2805332  2806495  1164  fatty acid desaturase  YP_001188029  decreased coverage  0.00838464  hitchhiker  0.00025026  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2555  CDS  NC_009439  2818126  2818377  252  hypothetical protein  YP_001188043  decreased coverage  7.47809e-13  unclonable  1.02776e-18  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2556  CDS  NC_009439  2818529  2819485  957  ErfK/YbiS/YcfS/YnhG family protein  YP_001188044  decreased coverage  4.97106e-11  hitchhiker  9.91148e-17  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2570  CDS  NC_009439  2832542  2834626  2085  TonB-dependent receptor  YP_001188058  decreased coverage  0.00469469  hitchhiker  2.81684e-07  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2604  CDS  NC_009439  2866818  2868260  1443  cbb3-type cytochrome c oxidase subunit I  YP_001188092  decreased coverage  0.000152837  normal  0.741537  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2606  CDS  NC_009439  2868875  2869069  195  Cbb3-type cytochrome oxidase component  YP_001188094  decreased coverage  3.08016e-06  normal  0.790893  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2618  CDS  NC_009439  2880122  2880958  837  metal-dependent hydrolase-like protein  YP_001188106  decreased coverage  0.00276728  normal  0.902339  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2723  CDS  NC_009439  2987715  2989142  1428  isopropylmalate isomerase large subunit  YP_001188210  decreased coverage  0.00243563  normal  0.0720472  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2833  CDS  NC_009439  3109790  3111253  1464  flagellar hook-associated 2 domain-containing protein  YP_001188320  normal  0.140245  decreased coverage  0.00782764  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2835  CDS  NC_009439  3111798  3113276  1479  flagellin domain-containing protein  YP_001188322  normal  decreased coverage  0.00759619  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2859  CDS  NC_009439  3140586  3141809  1224  serine/threonine transporter SstT  YP_001188346  decreased coverage  0.00461767  normal  0.0591164  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2983  CDS  NC_009439  3307979  3308575  597  periplasmic nitrate reductase subunit NapC  YP_001188470  decreased coverage  0.000569664  normal  0.0718991  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_2984  CDS  NC_009439  3308727  3309185  459  alkyl hydroperoxide reductase/ Thiol specific antioxidant/ Mal allergen  YP_001188471  decreased coverage  0.00388895  normal  0.0679013  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3012  CDS  NC_009439  3336230  3336451  222  hypothetical protein  YP_001188499  normal  0.320414  decreased coverage  4.30073e-15  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3013  CDS  NC_009439  3336533  3337471  939  hypothetical protein  YP_001188500  normal  0.424944  decreased coverage  9.31513e-15  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3129  CDS  NC_009439  3458457  3461201  2745  transcriptional regulator MalT  YP_001188614  normal  0.0535917  decreased coverage  0.00386402  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3130  CDS  NC_009439  3461347  3462237  891  maltose transporter permease  YP_001188615  normal  0.0528646  decreased coverage  0.00285167  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3131  CDS  NC_009439  3462248  3463810  1563  maltose transporter membrane protein  YP_001188616  normal  0.0994344  decreased coverage  0.00445018  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3367  CDS  NC_009439  3715741  3717030  1290  hypothetical protein  YP_001188851  decreased coverage  0.00118926  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3527  CDS  NC_009439  3885833  3887371  1539  leucyl aminopeptidase  YP_001189007  decreased coverage  0.00117428  normal  0.357164  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3529  CDS  NC_009439  3887963  3888406  444  hypothetical protein  YP_001189009  decreased coverage  0.00257659  normal  0.365119  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3894  CDS  NC_009439  4279233  4279766  534  50S ribosomal protein L6  YP_001189373  decreased coverage  1.49542e-09  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3895  CDS  NC_009439  4279779  4280171  393  30S ribosomal protein S8  YP_001189374  decreased coverage  5.90966e-11  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3928  CDS  NC_009439  4315247  4316674  1428  peptidase M23B  YP_001189407  decreased coverage  1.03245e-05  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3979  CDS  NC_009439  4359469  4359861  393  hypothetical protein  YP_001189458  decreased coverage  4.68528e-07  normal  0.158193  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_3980  CDS  NC_009439  4359858  4360076  219  TraR/DksA family transcriptional regulator  YP_001189459  decreased coverage  4.20347e-08  normal  0.150452  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_4133  CDS  NC_009439  4533651  4533950  300  hypothetical protein  YP_001189612  decreased coverage  2.25258e-11  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
Pmen_4174  CDS  NC_009439  4576864  4577532  669  cell division ATP-binding protein FtsE  YP_001189653  decreased coverage  0.00105133  normal  Pseudomonas mendocina ymp  Bacteria 
 
 
-
 
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