Strain Fitness in Pseudomonas putida KT2440 around PP_4500

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

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntPP_4498 and PP_4499 overlap by 37 nucleotidesPP_4499 and PP_4500 overlap by 23 nucleotidesPP_4500 and PP_4501 are separated by 67 nucleotidesPP_4501 and PP_4502 overlap by 32 nucleotides PP_4498: PP_4498 - Segregation and condensation protein A, at 5,113,431 to 5,114,318 _4498 PP_4499: PP_4499 - putative maturation enzyme, at 5,114,282 to 5,114,947 _4499 PP_4500: PP_4500 - TrpH family protein, at 5,114,925 to 5,115,785 _4500 PP_4501: PP_4501 - Probable intracellular septation protein A, at 5,115,853 to 5,116,446 _4501 PP_4502: PP_4502 - putative enzyme, at 5,116,415 to 5,116,747 _4502 Position (kb) 5114 5115 5116Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 5113.991 kb on - strand, within PP_4498at 5114.013 kb on + strand, within PP_4498at 5114.014 kb on - strand, within PP_4498at 5114.014 kb on - strand, within PP_4498at 5114.035 kb on + strand, within PP_4498at 5114.035 kb on + strand, within PP_4498at 5114.036 kb on - strand, within PP_4498at 5114.036 kb on - strand, within PP_4498at 5114.036 kb on - strand, within PP_4498at 5114.044 kb on + strandat 5114.044 kb on + strand, within PP_4498at 5114.044 kb on + strand, within PP_4498at 5114.045 kb on - strand, within PP_4498at 5114.045 kb on - strand, within PP_4498at 5114.045 kb on - strand, within PP_4498at 5114.045 kb on - strand, within PP_4498at 5114.087 kb on + strand, within PP_4498at 5114.087 kb on + strand, within PP_4498at 5114.087 kb on + strand, within PP_4498at 5114.087 kb on + strand, within PP_4498at 5114.107 kb on + strand, within PP_4498at 5114.173 kb on + strand, within PP_4498at 5114.173 kb on + strand, within PP_4498at 5114.173 kb on + strand, within PP_4498at 5114.174 kb on - strand, within PP_4498at 5114.174 kb on - strand, within PP_4498at 5114.209 kb on + strand, within PP_4498at 5114.561 kb on - strand, within PP_4499at 5114.679 kb on + strand, within PP_4499at 5114.680 kb on - strand, within PP_4499at 5114.780 kb on + strand, within PP_4499at 5114.780 kb on + strand, within PP_4499at 5114.862 kb on - strand, within PP_4499at 5114.913 kb on + strandat 5114.913 kb on + strandat 5114.914 kb on - strandat 5115.149 kb on + strand, within PP_4500at 5115.150 kb on - strand, within PP_4500at 5115.150 kb on - strand, within PP_4500at 5115.150 kb on - strand, within PP_4500at 5115.151 kb on + strand, within PP_4500at 5115.151 kb on + strand, within PP_4500at 5115.193 kb on + strand, within PP_4500at 5115.193 kb on + strand, within PP_4500at 5115.194 kb on - strand, within PP_4500at 5115.785 kb on + strandat 5115.785 kb on + strandat 5115.818 kb on + strandat 5115.818 kb on + strandat 5115.818 kb on + strandat 5115.818 kb on + strandat 5115.819 kb on - strandat 5115.821 kb on + strandat 5116.425 kb on + strandat 5116.425 kb on + strandat 5116.426 kb on - strandat 5116.426 kb on - strandat 5116.454 kb on + strand, within PP_4502at 5116.621 kb on + strand, within PP_4502at 5116.685 kb on + strand, within PP_4502at 5116.685 kb on + strandat 5116.686 kb on - strand, within PP_4502at 5116.686 kb on - strand, within PP_4502at 5116.686 kb on - strand, within PP_4502at 5116.703 kb on + strand, within PP_4502at 5116.737 kb on + strandat 5116.738 kb on - strandat 5116.738 kb on - strandat 5116.774 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs
remove
5,113,991 - PP_4498 0.63 +0.5
5,114,013 + PP_4498 0.66 +0.3
5,114,014 - PP_4498 0.66 +0.0
5,114,014 - PP_4498 0.66 -0.8
5,114,035 + PP_4498 0.68 +0.6
5,114,035 + PP_4498 0.68 -3.9
5,114,036 - PP_4498 0.68 +1.0
5,114,036 - PP_4498 0.68 -0.1
5,114,036 - PP_4498 0.68 -0.1
5,114,044 + -0.4
5,114,044 + PP_4498 0.69 +0.1
5,114,044 + PP_4498 0.69 +0.6
5,114,045 - PP_4498 0.69 -1.1
5,114,045 - PP_4498 0.69 -1.3
5,114,045 - PP_4498 0.69 +0.5
5,114,045 - PP_4498 0.69 +1.2
5,114,087 + PP_4498 0.74 -0.1
5,114,087 + PP_4498 0.74 -1.9
5,114,087 + PP_4498 0.74 +0.9
5,114,087 + PP_4498 0.74 +0.4
5,114,107 + PP_4498 0.76 -0.3
5,114,173 + PP_4498 0.84 +0.8
5,114,173 + PP_4498 0.84 -1.9
5,114,173 + PP_4498 0.84 +1.3
5,114,174 - PP_4498 0.84 -2.4
5,114,174 - PP_4498 0.84 +1.2
5,114,209 + PP_4498 0.88 -1.6
5,114,561 - PP_4499 0.42 -2.9
5,114,679 + PP_4499 0.60 -0.6
5,114,680 - PP_4499 0.60 -0.0
5,114,780 + PP_4499 0.75 +0.4
5,114,780 + PP_4499 0.75 +0.4
5,114,862 - PP_4499 0.87 -1.8
5,114,913 + +0.8
5,114,913 + +1.7
5,114,914 - -0.7
5,115,149 + PP_4500 0.26 +0.2
5,115,150 - PP_4500 0.26 +0.9
5,115,150 - PP_4500 0.26 +1.0
5,115,150 - PP_4500 0.26 +0.4
5,115,151 + PP_4500 0.26 +1.6
5,115,151 + PP_4500 0.26 +0.1
5,115,193 + PP_4500 0.31 +0.7
5,115,193 + PP_4500 0.31 +0.5
5,115,194 - PP_4500 0.31 +0.8
5,115,785 + +0.2
5,115,785 + -0.9
5,115,818 + +0.5
5,115,818 + +0.7
5,115,818 + +0.7
5,115,818 + -1.4
5,115,819 - +3.8
5,115,821 + -2.0
5,116,425 + +0.3
5,116,425 + -2.7
5,116,426 - -0.4
5,116,426 - +0.1
5,116,454 + PP_4502 0.12 +0.6
5,116,621 + PP_4502 0.62 +1.5
5,116,685 + PP_4502 0.81 -0.1
5,116,685 + -2.1
5,116,686 - PP_4502 0.81 -0.1
5,116,686 - PP_4502 0.81 +1.3
5,116,686 - PP_4502 0.81 +1.2
5,116,703 + PP_4502 0.86 -0.9
5,116,737 + +1.1
5,116,738 - -1.8
5,116,738 - +1.0
5,116,774 - -0.4

Or see this region's nucleotide sequence