Strain Fitness in Pseudomonas putida KT2440 around PP_5241

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntPP_5239 and PP_5240 are separated by 68 nucleotidesPP_5240 and PP_5241 overlap by 4 nucleotidesPP_5241 and PP_5242 are separated by 239 nucleotides PP_5239: PP_5239 - putative ATP-dependent chelatase, at 5,976,200 to 5,977,690 _5239 PP_5240: PP_5240 - Response regulator, at 5,977,759 to 5,978,127 _5240 PP_5241: PP_5241 - DNA-binding response regulator, LuxR family, at 5,978,124 to 5,979,116 _5241 PP_5242: PP_5242 - Sensor histidine kinase/GAF domain protein, at 5,979,356 to 5,984,404 _5242 Position (kb) 5978 5979 5980Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 5977.375 kb on + strand, within PP_5239at 5977.375 kb on + strand, within PP_5239at 5977.375 kb on + strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.376 kb on - strand, within PP_5239at 5977.498 kb on - strand, within PP_5239at 5977.498 kb on - strand, within PP_5239at 5977.688 kb on + strandat 5977.689 kb on - strandat 5977.689 kb on - strandat 5977.689 kb on - strandat 5977.755 kb on + strandat 5977.755 kb on + strandat 5977.755 kb on + strandat 5977.755 kb on + strandat 5977.755 kb on + strandat 5977.755 kb on + strandat 5977.756 kb on - strandat 5977.756 kb on - strandat 5977.756 kb on - strandat 5977.890 kb on + strand, within PP_5240at 5977.890 kb on + strand, within PP_5240at 5977.891 kb on - strand, within PP_5240at 5977.891 kb on - strand, within PP_5240at 5977.891 kb on - strand, within PP_5240at 5977.936 kb on + strand, within PP_5240at 5978.339 kb on - strand, within PP_5241at 5978.559 kb on + strand, within PP_5241at 5978.559 kb on + strand, within PP_5241at 5979.188 kb on + strandat 5979.188 kb on + strandat 5979.200 kb on + strandat 5979.200 kb on + strandat 5979.201 kb on - strandat 5979.219 kb on + strandat 5979.219 kb on + strandat 5979.219 kb on + strandat 5979.219 kb on + strandat 5979.220 kb on - strandat 5979.220 kb on - strandat 5979.220 kb on - strandat 5979.317 kb on + strandat 5979.319 kb on + strandat 5979.355 kb on + strandat 5979.355 kb on + strandat 5979.356 kb on - strandat 5979.356 kb on - strandat 5979.356 kb on - strandat 5979.393 kb on - strandat 5979.467 kb on + strandat 5979.468 kb on - strandat 5979.642 kb on - strandat 5979.770 kb on - strandat 5979.791 kb on + strandat 5979.791 kb on + strandat 5979.791 kb on + strandat 5979.792 kb on - strandat 5979.887 kb on + strand, within PP_5242at 5979.919 kb on + strand, within PP_5242at 5979.947 kb on + strand, within PP_5242at 5979.947 kb on + strand, within PP_5242at 5979.947 kb on + strand, within PP_5242at 5979.947 kb on + strand, within PP_5242at 5979.947 kb on + strand, within PP_5242at 5979.948 kb on - strand, within PP_5242at 5979.948 kb on - strand, within PP_5242at 5979.948 kb on - strand, within PP_5242at 5979.948 kb on - strand, within PP_5242at 5979.968 kb on + strand, within PP_5242at 5979.969 kb on - strand, within PP_5242at 5979.975 kb on + strand, within PP_5242at 5979.975 kb on + strand, within PP_5242at 5979.975 kb on + strand, within PP_5242at 5979.976 kb on - strand, within PP_5242at 5979.981 kb on + strand, within PP_5242

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs
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5,977,375 + PP_5239 0.79 -0.5
5,977,375 + PP_5239 0.79 +0.4
5,977,375 + PP_5239 0.79 -2.8
5,977,376 - PP_5239 0.79 +0.1
5,977,376 - PP_5239 0.79 +0.9
5,977,376 - PP_5239 0.79 +0.2
5,977,376 - PP_5239 0.79 +1.0
5,977,376 - PP_5239 0.79 -0.2
5,977,376 - PP_5239 0.79 +0.4
5,977,498 - PP_5239 0.87 +0.5
5,977,498 - PP_5239 0.87 +0.7
5,977,688 + +0.1
5,977,689 - -0.1
5,977,689 - -0.7
5,977,689 - -0.2
5,977,755 + +0.9
5,977,755 + +0.6
5,977,755 + -1.5
5,977,755 + -0.0
5,977,755 + -0.0
5,977,755 + +0.6
5,977,756 - +0.5
5,977,756 - +0.0
5,977,756 - +0.3
5,977,890 + PP_5240 0.36 +0.2
5,977,890 + PP_5240 0.36 +0.8
5,977,891 - PP_5240 0.36 -0.2
5,977,891 - PP_5240 0.36 +0.1
5,977,891 - PP_5240 0.36 +1.8
5,977,936 + PP_5240 0.48 -0.1
5,978,339 - PP_5241 0.22 -0.6
5,978,559 + PP_5241 0.44 -0.2
5,978,559 + PP_5241 0.44 +1.3
5,979,188 + +0.0
5,979,188 + -1.0
5,979,200 + +1.2
5,979,200 + -0.2
5,979,201 - +0.1
5,979,219 + +2.1
5,979,219 + -0.2
5,979,219 + -0.8
5,979,219 + -0.0
5,979,220 - -1.2
5,979,220 - -0.5
5,979,220 - -0.2
5,979,317 + -0.2
5,979,319 + +0.7
5,979,355 + -0.3
5,979,355 + -0.3
5,979,356 - -0.7
5,979,356 - -1.4
5,979,356 - +0.5
5,979,393 - -0.6
5,979,467 + -0.6
5,979,468 - +0.4
5,979,642 - -1.5
5,979,770 - +1.1
5,979,791 + +0.1
5,979,791 + +0.6
5,979,791 + +0.3
5,979,792 - -0.2
5,979,887 + PP_5242 0.11 -0.9
5,979,919 + PP_5242 0.11 +0.4
5,979,947 + PP_5242 0.12 +0.7
5,979,947 + PP_5242 0.12 +0.2
5,979,947 + PP_5242 0.12 -0.8
5,979,947 + PP_5242 0.12 +1.6
5,979,947 + PP_5242 0.12 +1.0
5,979,948 - PP_5242 0.12 -0.3
5,979,948 - PP_5242 0.12 +0.3
5,979,948 - PP_5242 0.12 +0.3
5,979,948 - PP_5242 0.12 -1.4
5,979,968 + PP_5242 0.12 -0.8
5,979,969 - PP_5242 0.12 -0.8
5,979,975 + PP_5242 0.12 +0.7
5,979,975 + PP_5242 0.12 -0.5
5,979,975 + PP_5242 0.12 +1.1
5,979,976 - PP_5242 0.12 -1.5
5,979,981 + PP_5242 0.12 -0.3

Or see this region's nucleotide sequence