Strain Fitness in Pseudomonas putida KT2440 around PP_4288

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; 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_4286 and PP_4287 overlap by 1 nucleotidesPP_4287 and PP_4288 are separated by 49 nucleotidesPP_4288 and PP_4289 are separated by 44 nucleotides PP_4286: PP_4286 - allantoinase, at 4,877,352 to 4,878,278 _4286 PP_4287: PP_4287 - 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline decarboxylase, at 4,878,278 to 4,878,793 _4287 PP_4288: PP_4288 - ureidoglycolate lyase, at 4,878,843 to 4,879,346 _4288 PP_4289: PP_4289 - conserved membrane protein of unknown function, at 4,879,391 to 4,880,731 _4289 Position (kb) 4878 4879 4880Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 4877.902 kb on - strand, within PP_4286at 4877.916 kb on + strand, within PP_4286at 4877.916 kb on + strand, within PP_4286at 4877.917 kb on - strand, within PP_4286at 4877.917 kb on - strand, within PP_4286at 4877.982 kb on + strand, within PP_4286at 4877.982 kb on + strand, within PP_4286at 4877.982 kb on + strand, within PP_4286at 4877.982 kb on + strand, within PP_4286at 4878.019 kb on + strand, within PP_4286at 4878.019 kb on + strand, within PP_4286at 4878.183 kb on + strand, within PP_4286at 4878.184 kb on - strand, within PP_4286at 4878.184 kb on - strand, within PP_4286at 4878.258 kb on + strandat 4878.259 kb on - strandat 4878.350 kb on + strand, within PP_4287at 4878.350 kb on + strand, within PP_4287at 4878.351 kb on - strand, within PP_4287at 4878.383 kb on + strand, within PP_4287at 4878.626 kb on + strand, within PP_4287at 4878.626 kb on + strand, within PP_4287at 4878.627 kb on - strand, within PP_4287at 4878.627 kb on - strand, within PP_4287at 4878.628 kb on + strand, within PP_4287at 4878.628 kb on + strand, within PP_4287at 4878.628 kb on + strand, within PP_4287at 4878.628 kb on + strand, within PP_4287at 4878.628 kb on + strand, within PP_4287at 4878.791 kb on + strandat 4878.792 kb on - strandat 4878.792 kb on - strandat 4878.792 kb on - strandat 4878.827 kb on + strandat 4878.828 kb on - strandat 4878.828 kb on - strandat 4878.828 kb on - strandat 4878.828 kb on - strandat 4878.836 kb on + strandat 4878.836 kb on + strandat 4878.837 kb on - strandat 4878.837 kb on - strandat 4878.854 kb on + strandat 4878.855 kb on - strandat 4878.855 kb on - strandat 4879.150 kb on + strand, within PP_4288at 4879.178 kb on + strand, within PP_4288at 4879.179 kb on - strand, within PP_4288at 4879.196 kb on + strand, within PP_4288at 4879.196 kb on + strand, within PP_4288at 4879.200 kb on + strand, within PP_4288at 4879.302 kb on + strandat 4879.302 kb on + strandat 4879.302 kb on + strandat 4879.302 kb on + strandat 4879.302 kb on + strandat 4879.303 kb on - strandat 4879.303 kb on - strandat 4879.303 kb on - strandat 4879.303 kb on - strandat 4879.303 kb on - strandat 4879.303 kb on - strandat 4879.345 kb on - strandat 4879.383 kb on + strandat 4879.383 kb on + strandat 4879.383 kb on + strandat 4879.383 kb on + strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.384 kb on - strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.387 kb on + strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.388 kb on - strandat 4879.478 kb on + strandat 4879.479 kb on - strandat 4879.564 kb on + strand, within PP_4289at 4879.564 kb on + strand, within PP_4289at 4879.564 kb on + strand, within PP_4289at 4879.564 kb on + strand, within PP_4289at 4879.565 kb on - strand, within PP_4289at 4879.565 kb on - strand, within PP_4289at 4879.568 kb on + strand, within PP_4289at 4879.569 kb on - strand, within PP_4289at 4879.583 kb on + strand, within PP_4289at 4879.640 kb on + strand, within PP_4289at 4879.640 kb on + strand, within PP_4289at 4879.640 kb on + strand, within PP_4289at 4879.640 kb on + strand, within PP_4289at 4879.640 kb on + strand, within PP_4289at 4879.641 kb on - strand, within PP_4289at 4879.641 kb on - strand, within PP_4289at 4879.641 kb on - strand, within PP_4289at 4879.686 kb on - strand, within PP_4289at 4879.703 kb on + strand, within PP_4289at 4879.787 kb on + strand, within PP_4289at 4879.787 kb on + strand, within PP_4289at 4879.788 kb on - strand, within PP_4289at 4879.788 kb on - strand, within PP_4289at 4880.066 kb on + strand, within PP_4289at 4880.067 kb on - strand, within PP_4289at 4880.067 kb on - strand, within PP_4289at 4880.120 kb on + strand, within PP_4289at 4880.121 kb on - strand, within PP_4289at 4880.132 kb on + strand, within PP_4289at 4880.133 kb on - strand, within PP_4289at 4880.133 kb on - strand, within PP_4289at 4880.187 kb on - strand, within PP_4289at 4880.217 kb on - strand, within PP_4289at 4880.217 kb on - strand, within PP_4289at 4880.217 kb on - strand, within PP_4289at 4880.270 kb on - strand, within PP_4289at 4880.293 kb on - strand, within PP_4289at 4880.324 kb on + strand, within PP_4289

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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
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4,877,902 - PP_4286 0.59 -1.3
4,877,916 + PP_4286 0.61 +0.2
4,877,916 + PP_4286 0.61 +0.4
4,877,917 - PP_4286 0.61 -0.8
4,877,917 - PP_4286 0.61 +0.9
4,877,982 + PP_4286 0.68 -2.1
4,877,982 + PP_4286 0.68 +0.7
4,877,982 + PP_4286 0.68 -0.8
4,877,982 + PP_4286 0.68 +0.3
4,878,019 + PP_4286 0.72 +2.1
4,878,019 + PP_4286 0.72 +0.5
4,878,183 + PP_4286 0.90 -1.0
4,878,184 - PP_4286 0.90 -0.3
4,878,184 - PP_4286 0.90 -0.3
4,878,258 + -0.5
4,878,259 - -0.2
4,878,350 + PP_4287 0.14 -0.9
4,878,350 + PP_4287 0.14 -2.4
4,878,351 - PP_4287 0.14 +0.7
4,878,383 + PP_4287 0.20 +1.0
4,878,626 + PP_4287 0.67 -0.2
4,878,626 + PP_4287 0.67 +0.3
4,878,627 - PP_4287 0.68 -0.8
4,878,627 - PP_4287 0.68 +0.5
4,878,628 + PP_4287 0.68 +1.0
4,878,628 + PP_4287 0.68 +1.8
4,878,628 + PP_4287 0.68 +1.4
4,878,628 + PP_4287 0.68 -0.2
4,878,628 + PP_4287 0.68 -2.5
4,878,791 + -0.4
4,878,792 - +0.2
4,878,792 - +1.1
4,878,792 - +1.3
4,878,827 + +2.2
4,878,828 - +0.6
4,878,828 - -0.0
4,878,828 - -0.1
4,878,828 - +0.6
4,878,836 + -3.2
4,878,836 + +0.3
4,878,837 - -1.4
4,878,837 - +0.9
4,878,854 + +0.5
4,878,855 - +1.3
4,878,855 - +0.9
4,879,150 + PP_4288 0.61 +2.0
4,879,178 + PP_4288 0.66 +1.0
4,879,179 - PP_4288 0.67 +0.4
4,879,196 + PP_4288 0.70 -0.1
4,879,196 + PP_4288 0.70 +0.6
4,879,200 + PP_4288 0.71 -2.4
4,879,302 + +0.4
4,879,302 + -0.1
4,879,302 + -0.3
4,879,302 + +0.6
4,879,302 + -1.1
4,879,303 - +0.8
4,879,303 - -0.7
4,879,303 - -0.6
4,879,303 - -0.1
4,879,303 - -1.1
4,879,303 - -3.3
4,879,345 - -0.4
4,879,383 + +1.4
4,879,383 + +0.6
4,879,383 + -2.8
4,879,383 + -1.1
4,879,384 - +1.3
4,879,384 - -0.6
4,879,384 - -1.5
4,879,384 - +0.7
4,879,384 - -0.1
4,879,384 - +1.9
4,879,384 - -1.3
4,879,384 - +1.0
4,879,384 - -0.5
4,879,384 - -0.3
4,879,387 + -1.0
4,879,387 + -0.3
4,879,387 + +0.5
4,879,387 + -0.9
4,879,387 + -2.4
4,879,387 + -1.0
4,879,387 + -1.0
4,879,387 + -0.1
4,879,387 + +0.1
4,879,387 + -0.7
4,879,387 + -1.8
4,879,387 + -0.1
4,879,387 + -1.4
4,879,388 - -0.1
4,879,388 - -0.2
4,879,388 - +3.4
4,879,388 - -0.1
4,879,388 - +0.1
4,879,388 - -0.0
4,879,388 - +1.0
4,879,388 - +0.9
4,879,388 - +0.6
4,879,388 - +0.3
4,879,388 - +0.8
4,879,388 - +0.8
4,879,388 - -0.5
4,879,478 + -0.2
4,879,479 - +1.2
4,879,564 + PP_4289 0.13 -1.7
4,879,564 + PP_4289 0.13 +1.6
4,879,564 + PP_4289 0.13 -1.6
4,879,564 + PP_4289 0.13 +0.7
4,879,565 - PP_4289 0.13 +0.3
4,879,565 - PP_4289 0.13 +0.7
4,879,568 + PP_4289 0.13 +0.0
4,879,569 - PP_4289 0.13 +0.2
4,879,583 + PP_4289 0.14 +1.0
4,879,640 + PP_4289 0.19 +0.0
4,879,640 + PP_4289 0.19 -0.2
4,879,640 + PP_4289 0.19 +0.2
4,879,640 + PP_4289 0.19 +0.3
4,879,640 + PP_4289 0.19 -0.2
4,879,641 - PP_4289 0.19 -1.8
4,879,641 - PP_4289 0.19 -0.7
4,879,641 - PP_4289 0.19 +1.4
4,879,686 - PP_4289 0.22 +0.5
4,879,703 + PP_4289 0.23 -1.6
4,879,787 + PP_4289 0.30 -0.1
4,879,787 + PP_4289 0.30 -2.4
4,879,788 - PP_4289 0.30 +0.1
4,879,788 - PP_4289 0.30 -0.1
4,880,066 + PP_4289 0.50 -0.5
4,880,067 - PP_4289 0.50 +0.8
4,880,067 - PP_4289 0.50 -0.7
4,880,120 + PP_4289 0.54 -0.6
4,880,121 - PP_4289 0.54 -1.1
4,880,132 + PP_4289 0.55 -0.7
4,880,133 - PP_4289 0.55 -0.5
4,880,133 - PP_4289 0.55 -1.4
4,880,187 - PP_4289 0.59 -0.4
4,880,217 - PP_4289 0.62 +0.2
4,880,217 - PP_4289 0.62 +0.7
4,880,217 - PP_4289 0.62 +0.1
4,880,270 - PP_4289 0.66 -1.6
4,880,293 - PP_4289 0.67 +0.2
4,880,324 + PP_4289 0.70 +0.5

Or see this region's nucleotide sequence