46 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
Tbd_0091  CDS  NC_007404  96510  98153  1644  chaperonin GroEL (Hsp60, Cpn10)  YP_313849  decreased coverage  1.16999e-05  normal  0.52877  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0122  CDS  NC_007404  130908  131840  933  D-alanine--D-alanine ligase  YP_313880  decreased coverage  0.000652321  normal  0.029871  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0327  CDS  NC_007404  350815  350937  123  hypothetical protein  YP_314085  normal  0.517221  decreased coverage  0.00969306  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0329  CDS  NC_007404  351482  351679  198  hypothetical protein  YP_314087  normal  0.209066  decreased coverage  0.00981736  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0331  CDS  NC_007404  352605  352853  249  hypothetical protein  YP_314089  normal  0.544254  decreased coverage  0.009055  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0344  CDS  NC_007404  362970  363155  186  cytochrome oxidase maturation protein cbb3-type  YP_314102  normal  decreased coverage  0.00994318  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0375  CDS  NC_007404  403342  404004  663  cell division ATP-binding protein FtsE  YP_314133  normal  0.249019  decreased coverage  0.00264654  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0376  CDS  NC_007404  404011  405141  1131  signal recognition particle-docking protein FtsY  YP_314134  normal  0.207178  decreased coverage  0.0031492  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0377  CDS  NC_007404  405178  406539  1362  insulinase family protein  YP_314135  normal  0.454609  decreased coverage  0.00376869  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0391  CDS  NC_007404  419487  420677  1191  elongation factor Tu  YP_314149  normal  0.578399  decreased coverage  0.00326089  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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Tbd_0448  CDS  NC_007404  468255  469343  1089  outer membrane protein (porin)  YP_314206  decreased coverage  2.07768e-05  normal  0.425074  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0562  CDS  NC_007404  590865  591290  426  nitric-oxide reductase subunit C  YP_314320  decreased coverage  2.44582e-09  normal  0.667506  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0643  CDS  NC_007404  681042  682463  1422  cytochrome c oxidase cbb3-type, subunit I  YP_314401  decreased coverage  4.39174e-07  normal  0.556458  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0764  CDS  NC_007404  807379  809043  1665  general secretion pathway protein D  YP_314522  decreased coverage  5.64128e-05  normal  0.152478  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0925  CDS  NC_007404  979890  983039  3150  adenine specific DNA methyltransferase  YP_314683  decreased coverage  0.00490448  normal  0.369503  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0935  CDS  NC_007404  993599  995539  1941  hypothetical protein  YP_314693  decreased coverage  0.002395  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0936  CDS  NC_007404  995552  997285  1734  adenine specific DNA methylase MOD  YP_314694  decreased coverage  0.000403504  normal  0.65434  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0956  CDS  NC_007404  1018524  1020245  1722  30S ribosomal protein S1  YP_314714  decreased coverage  1.4577e-07  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_0975  CDS  NC_007404  1040336  1040821  486  FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase) protein  YP_314733  decreased coverage  0.00636749  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1020  CDS  NC_007404  1087980  1088936  957  hypothetical protein  YP_314778  normal  0.497946  decreased coverage  0.00147567  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1021  CDS  NC_007404  1088936  1090003  1068  selenophosphate synthetase  YP_314779  normal  0.500937  decreased coverage  0.00150941  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1022  CDS  NC_007404  1090060  1091220  1161  hypothetical protein  YP_314780  normal  decreased coverage  0.00177871  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1023  CDS  NC_007404  1091225  1092208  984  GTP cyclohydrolase subunit MoaA  YP_314781  normal  decreased coverage  0.00165145  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1024  CDS  NC_007404  1092278  1092778  501  molybdopterin-guanine dinucleotide biosynthesis MobB  YP_314782  normal  decreased coverage  0.00136953  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1025  CDS  NC_007404  1092753  1093946  1194  molybdopterin molybdochelatase  YP_314783  normal  decreased coverage  0.0015909  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1026  CDS  NC_007404  1093943  1094194  252  molybdopterin synthase subunit MoaD  YP_314784  normal  decreased coverage  0.00122387  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1027  CDS  NC_007404  1094197  1094652  456  molybdopterin synthase subunit MoaE  YP_314785  normal  0.877253  decreased coverage  0.00128032  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1077  CDS  NC_007404  1136104  1137450  1347  transcriptional regulator  YP_314835  decreased coverage  3.0584e-08  normal  0.489664  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1162  CDS  NC_007404  1216621  1217379  759  serine O-acetyltransferase  YP_314920  decreased coverage  2.54376e-08  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1295  CDS  NC_007404  1366935  1368635  1701  type II secretion system protein  YP_315053  decreased coverage  0.00227246  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1374  CDS  NC_007404  1454356  1454940  585  membrane-bound hydrogenase component hupE  YP_315132  decreased coverage  0.00671086  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1381  CDS  NC_007404  1460875  1461105  231  hydrogenase expression/formation protein (HUPF/HYPC)  YP_315139  decreased coverage  0.00885593  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1382  CDS  NC_007404  1461050  1461466  417  hydrogenase expression/formation protein HypA  YP_315140  decreased coverage  0.00630275  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1441  CDS  NC_007404  1528768  1529157  390  type II secretion system protein G  YP_315199  decreased coverage  0.000189967  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1442  CDS  NC_007404  1529144  1529713  570  hypothetical protein  YP_315200  decreased coverage  0.000142032  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1489  CDS  NC_007404  1577025  1578020  996  Appr-1-p processing protein  YP_315247  decreased coverage  0.000625886  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1490  CDS  NC_007404  1578068  1578748  681  hypothetical protein  YP_315248  decreased coverage  0.000183047  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1580  CDS  NC_007404  1663770  1664414  645  hypothetical protein  YP_315338  decreased coverage  0.00205223  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1652  CDS  NC_007404  1735731  1736351  621  inorganic pyrophosphatase  YP_315410  decreased coverage  7.10747e-08  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1653  CDS  NC_007404  1736433  1737194  762  transmembrane transcriptional regulator (anti-sigma factor)  YP_315411  decreased coverage  1.92348e-07  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_1687  CDS  NC_007404  1776147  1778501  2355  putative type IV secretory pathway VirD4 components  YP_315445  decreased coverage  0.00283538  normal  0.176159  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_2171  CDS  NC_007404  2255712  2257742  2031  anaerobic ribonucleoside triphosphate reductase  YP_315929  decreased coverage  0.00664522  hitchhiker  0.00155539  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_2181  CDS  NC_007404  2264206  2264799  594  hypothetical protein  YP_315939  decreased coverage  4.87122e-10  unclonable  2.13421e-07  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_2196  CDS  NC_007404  2276489  2277379  891  hypothetical protein  YP_315954  decreased coverage  4.97244e-09  hitchhiker  4.69474e-06  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_2258  CDS  NC_007404  2332363  2333529  1167  putative glucose-fructose oxidoreductase protein  YP_316016  decreased coverage  0.00555466  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
-
 
Tbd_2804  CDS  NC_007404  2885130  2885519  390  hypothetical protein  YP_316562  decreased coverage  0.00178416  normal  Thiobacillus denitrificans ATCC 25259  Bacteria 
 
 
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