76 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
SbBS512_0007  CDS  NC_010657  4817  5716  900  resolvase  YP_001878775  decreased coverage  4.44731e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_A0078  CDS  NC_010660  48513  50114  1602  transposase family  YP_001883126  decreased coverage  7.38697e-26  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_A0290  CDS  NC_010660  197172  197546  375  transposase family  YP_001883292  decreased coverage  5.19364e-43  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0026  CDS  NC_010658  23868  24161  294  IS1 OrfB  YP_001878846  decreased coverage  1.22781e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0134  CDS  NC_010658  144799  146163  1365  poly(A) polymerase I  YP_001878946  decreased coverage  1.09672e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0170  CDS  NC_010658  184805  187237  2433  outer membrane protein assembly factor YaeT  YP_001878979  decreased coverage  5.13305e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0449  CDS  NC_010658  438227  438721  495  peptidyl-prolyl cis-trans isomerase B (rotamase B)  YP_001879222  decreased coverage  1.4312e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0450  CDS  NC_010658  438724  439446  723  UDP-2,3-diacylglucosamine hydrolase  YP_001879223  decreased coverage  4.27615e-10  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0615  CDS  NC_010658  586165  586632  468  rRNA large subunit methyltransferase  YP_001879353  decreased coverage  1.21913e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0700  tRNA  NC_010658  892838  892915  78  tRNA-Asn    decreased coverage  1.46512e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0701  tRNA  NC_010658  903575  903652  78  tRNA-Asn    decreased coverage  1.00783e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0722  CDS  NC_010658  680546  683206  2661  phosphotransfer intermediate protein in two-component regulatory system with RcsBC  YP_001879437  decreased coverage  0.00389161  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0914  CDS  NC_010658  853118  853900  783  transcriptional regulatory protein YedW  YP_001879602  decreased coverage  1.3212e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0952  CDS  NC_010658  881101  882423  1323  hypothetical protein  YP_001879633  decreased coverage  3.81632e-05  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0968  CDS  NC_010658  891851  892783  933  hypothetical protein  YP_001879647  decreased coverage  1.62984e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0979  CDS  NC_010658  902152  903414  1263  site-specific recombinase, phage integrase family protein  YP_001879655  decreased coverage  4.44866e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0981    NC_010658  903845  904951  1107      decreased coverage  2.2763e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0982    NC_010658  904976  905167  192      decreased coverage  1.90659e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0983  CDS  NC_010658  905223  905372  150  hypothetical protein  YP_001879656  decreased coverage  1.98075e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E0993  CDS  NC_010658  921162  921959  798  Mlc titration factor MtfA  YP_001879663  decreased coverage  6.14673e-10  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1078  CDS  NC_010658  980981  981796  816  mannosyl-3-phosphoglycerate phosphatase  YP_001879734  decreased coverage  1.30246e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1250  CDS  NC_010658  1148166  1148873  708  hypothetical protein  YP_001879889  decreased coverage  8.78472e-06  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1329  CDS  NC_010658  1212713  1213423  711  septum formation inhibitor  YP_001879956  decreased coverage  4.08843e-05  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1392    NC_010658  1269405  1273127  3723      decreased coverage  0.00324684  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1427  CDS  NC_010658  1305078  1307549  2472  exonuclease family protein  YP_001880037  decreased coverage  1.07129e-06  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1428  CDS  NC_010658  1307830  1308018  189  hypothetical protein  YP_001880038  decreased coverage  1.94036e-08  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1506  CDS  NC_010658  1376782  1377546  765  phosphatidylglycerophosphatase B  YP_001880110  decreased coverage  1.48348e-08  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1507  CDS  NC_010658  1377695  1378003  309  hypothetical protein  YP_001880111  decreased coverage  1.88419e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1508  CDS  NC_010658  1378010  1379179  1170  tetratricopeptide repeat protein  YP_001880112  decreased coverage  3.76435e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1687  CDS  NC_010658  1535804  1536106  303  IS911, transposase orfA  YP_001880267  decreased coverage  0.000176402  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1688    NC_010658  1534690  1537141  2452      decreased coverage  0.00110161  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1700  CDS  NC_010658  1547094  1547780  687  transcriptional regulator, GntR family  YP_001880278  decreased coverage  8.55657e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1795  CDS  NC_010658  1638977  1640278  1302  sensor protein RstB  YP_001880363  decreased coverage  0.0023579  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1797  CDS  NC_010658  1640354  1641283  930  DNA replication terminus site-binding protein  YP_001880364  decreased coverage  0.00623944  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1877  CDS  NC_010658  1718672  1720084  1413  pyruvate kinase  YP_001880437  decreased coverage  1.80077e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1878  CDS  NC_010658  1720395  1720631  237  major outer membrane lipoprotein  YP_001880438  decreased coverage  5.16329e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E1960  CDS  NC_010658  1791828  1792262  435  translation initiation factor IF-3  YP_001880508  decreased coverage  2.34201e-08  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2099  CDS  NC_010658  1907656  1908354  699  putative solute/DNA competence effector  YP_001880630  decreased coverage  5.16503e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2154  CDS  NC_010658  1959344  1960153  810  KilA-N domain family  YP_001880673  decreased coverage  3.6696e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2196  CDS  NC_010658  1994741  1995916  1176  DNA methylase  YP_001880706  decreased coverage  8.72225e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2370  CDS  NC_010658  2162799  2163377  579  hypothetical protein  YP_001880857  decreased coverage  4.38094e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2388  CDS  NC_010658  2180302  2181702  1401  asparaginyl-tRNA synthetase  YP_001880869  decreased coverage  0.00156361  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2418  CDS  NC_010658  2214576  2215259  684  cytidylate kinase  YP_001880895  decreased coverage  4.59306e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2439  CDS  NC_010658  2240654  2241148  495  leucine-responsive transcriptional regulator  YP_001880913  decreased coverage  8.89772e-11  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2527  CDS  NC_010658  2327651  2328916  1266  hypothetical protein  YP_001880991  decreased coverage  0.00600019  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2640  CDS  NC_010658  2440092  2441054  963  O-succinylbenzoate synthase  YP_001881087  decreased coverage  0.00569926  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2676  CDS  NC_010658  2479786  2480337  552  phosphodiesterase  YP_001881121  decreased coverage  6.04392e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2906  CDS  NC_010658  2710764  2711252  489  DNA-binding transcriptional regulator IscR  YP_001881322  decreased coverage  0.00148392  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2907  CDS  NC_010658  2711522  2712262  741  RNA methyltransferase, TrmH family, group 1  YP_001881323  decreased coverage  0.000722285  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2908  CDS  NC_010658  2712381  2713184  804  inositol monophosphatase  YP_001881324  decreased coverage  0.000930444  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2973  CDS  NC_010658  2778072  2780645  2574  protein disaggregation chaperone  YP_001881380  decreased coverage  8.39096e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E2986  CDS  NC_010658  2788177  2789337  1161  bifunctional chorismate mutase/prephenate dehydratase  YP_001881388  decreased coverage  1.54451e-05  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3282  CDS  NC_010658  3056862  3057905  1044  rod shape-determining protein MreB  YP_001881641  decreased coverage  5.1141e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3331  CDS  NC_010658  3102348  3102677  330  Z-ring-associated protein  YP_001881680  decreased coverage  6.46117e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3472  CDS  NC_010658  3227362  3228123  762  zinc transporter ZupT  YP_001881806  decreased coverage  2.6596e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3473  CDS  NC_010658  3228189  3228566  378  IS1 transposase orfB  YP_001881807  decreased coverage  7.08938e-14  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3642  CDS  NC_010658  3388631  3389512  882  ribosomal protein L11 methyltransferase  YP_001881951  decreased coverage  8.42217e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3665  CDS  NC_010658  3408573  3409343  771  hypothetical protein  YP_001881963  decreased coverage  3.98302e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3693  CDS  NC_010658  3428902  3429441  540  50S ribosomal protein L5  YP_001881992  decreased coverage  5.2658e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3716  CDS  NC_010658  3444962  3445336  375  30S ribosomal protein S12  YP_001882015  decreased coverage  5.01374e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E3767  CDS  NC_010658  3492802  3493323  522  shikimate kinase I  YP_001882065  decreased coverage  1.06668e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4046  CDS  NC_010658  3778774  3779706  933  ADP-L-glycero-D-mannoheptose-6-epimerase  YP_001882318  decreased coverage  3.08467e-06  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4047  CDS  NC_010658  3779716  3780762  1047  ADP-heptose:LPS heptosyltransferase II  YP_001882319  decreased coverage  9.10947e-08  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4048  CDS  NC_010658  3780766  3781746  981  ADP-heptose:LPS heptosyl transferase I  YP_001882320  decreased coverage  9.04915e-05  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4063  CDS  NC_010658  3794713  3795381  669  DNA repair protein RadC  YP_001882335  decreased coverage  7.37579e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4164  CDS  NC_010658  3887591  3888283  693  transcriptional regulator, GntR family  YP_001882410  decreased coverage  2.55806e-11  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4183  CDS  NC_010658  3908253  3909068  816  F0F1 ATP synthase subunit A  YP_001882425  decreased coverage  1.8126e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4223  CDS  NC_010658  3946927  3948330  1404  chromosomal replication initiation protein  YP_001882464  decreased coverage  6.6194e-08  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4320  CDS  NC_010658  4039199  4039744  546  protoporphyrinogen oxidase  YP_001882550  decreased coverage  3.64139e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4453  CDS  NC_010658  4165827  4166615  789  glutamate racemase  YP_001882660  decreased coverage  1.14143e-09  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4499  CDS  NC_010658  4208486  4208608  123  hypothetical protein  YP_001882693  decreased coverage  1.88864e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4697  CDS  NC_010658  4388477  4389616  1140  iron-sulfur cluster binding protein  YP_001882857  decreased coverage  3.09577e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4748    NC_010658  4431818  4432438  621      decreased coverage  7.66096e-13  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4819    NC_010658  4491066  4492165  1100      decreased coverage  6.73794e-12  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4953  tRNA  NC_010658  4388025  4388100  76  tRNA-Gly    decreased coverage  1.53884e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
SbBS512_E4954  tRNA  NC_010658  4388136  4388213  78  tRNA-Gly    decreased coverage  1.53884e-15  n/a    Shigella boydii CDC 3083-94  Bacteria 
 
 
-
 
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