Strain Fitness in Pseudomonas putida KT2440 around PP_0408

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; 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_0406 and PP_0407 are separated by 1 nucleotidesPP_0407 and PP_0408 are separated by 27 nucleotidesPP_0408 and PP_0409 are separated by 95 nucleotides PP_0406: PP_0406 - Nucleotidyltransferase family protein, at 493,567 to 494,238 _0406 PP_0407: PP_0407 - DnaJ-like protein DjlA, at 494,240 to 495,007 _0407 PP_0408: PP_0408 - conserved exported protein of unknown function, at 495,035 to 496,033 _0408 PP_0409: PP_0409 - Sensory box histidine kinase, at 496,129 to 498,516 _0409 Position (kb) 495 496 497Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 494.147 kb on + strand, within PP_0406at 494.148 kb on - strand, within PP_0406at 494.161 kb on + strand, within PP_0406at 494.161 kb on + strand, within PP_0406at 494.162 kb on - strand, within PP_0406at 494.162 kb on - strand, within PP_0406at 494.162 kb on - strand, within PP_0406at 494.473 kb on + strand, within PP_0407at 494.473 kb on + strand, within PP_0407at 494.626 kb on + strand, within PP_0407at 494.801 kb on + strand, within PP_0407at 494.802 kb on - strand, within PP_0407at 494.802 kb on - strand, within PP_0407at 494.868 kb on - strand, within PP_0407at 494.912 kb on - strand, within PP_0407at 494.912 kb on - strand, within PP_0407at 494.975 kb on + strandat 494.975 kb on + strandat 494.976 kb on - strandat 494.976 kb on - strandat 495.139 kb on + strand, within PP_0408at 495.139 kb on + strand, within PP_0408at 495.207 kb on + strand, within PP_0408at 495.208 kb on - strand, within PP_0408at 495.208 kb on - strand, within PP_0408at 495.208 kb on - strand, within PP_0408at 495.208 kb on - strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.210 kb on + strand, within PP_0408at 495.211 kb on - strand, within PP_0408at 495.211 kb on - strand, within PP_0408at 495.211 kb on - strand, within PP_0408at 495.211 kb on - strand, within PP_0408at 495.211 kb on - strand, within PP_0408at 495.214 kb on + strand, within PP_0408at 495.214 kb on + strand, within PP_0408at 495.308 kb on + strand, within PP_0408at 495.336 kb on + strand, within PP_0408at 495.337 kb on - strand, within PP_0408at 495.351 kb on + strand, within PP_0408at 495.361 kb on + strand, within PP_0408at 495.362 kb on - strand, within PP_0408at 495.378 kb on - strand, within PP_0408at 496.068 kb on + strandat 496.069 kb on - strandat 496.074 kb on + strandat 496.075 kb on - strandat 496.075 kb on - strandat 496.126 kb on + strandat 496.126 kb on + strandat 496.126 kb on + strandat 496.127 kb on - strandat 496.127 kb on - strandat 496.291 kb on + strandat 496.324 kb on + strandat 496.351 kb on - strandat 496.351 kb on - strandat 496.389 kb on + strand, within PP_0409at 496.389 kb on + strand, within PP_0409at 496.390 kb on - strand, within PP_0409at 496.390 kb on - strand, within PP_0409at 496.390 kb on - strand, within PP_0409at 496.490 kb on + strandat 496.637 kb on - strand, within PP_0409at 496.694 kb on + strand, within PP_0409at 496.694 kb on + strand, within PP_0409at 496.694 kb on + strand, within PP_0409at 496.694 kb on + strand, within PP_0409at 496.694 kb on + strand, within PP_0409at 496.695 kb on - strand, within PP_0409at 496.695 kb on - strand, within PP_0409at 496.695 kb on - strand, within PP_0409at 496.850 kb on + strand, within PP_0409at 496.924 kb on + strand, within PP_0409

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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=none; SoilTreatmentTime=144_hrs
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494,147 + PP_0406 0.86 -0.9
494,148 - PP_0406 0.86 +0.8
494,161 + PP_0406 0.88 -0.4
494,161 + PP_0406 0.88 +0.8
494,162 - PP_0406 0.89 -0.4
494,162 - PP_0406 0.89 +2.4
494,162 - PP_0406 0.89 +0.6
494,473 + PP_0407 0.30 -0.1
494,473 + PP_0407 0.30 +1.5
494,626 + PP_0407 0.50 +1.6
494,801 + PP_0407 0.73 -0.1
494,802 - PP_0407 0.73 -1.0
494,802 - PP_0407 0.73 -0.3
494,868 - PP_0407 0.82 -1.1
494,912 - PP_0407 0.88 +0.2
494,912 - PP_0407 0.88 +1.0
494,975 + -2.3
494,975 + +0.7
494,976 - +0.2
494,976 - +0.6
495,139 + PP_0408 0.10 +0.1
495,139 + PP_0408 0.10 -1.3
495,207 + PP_0408 0.17 -2.8
495,208 - PP_0408 0.17 -2.4
495,208 - PP_0408 0.17 -1.0
495,208 - PP_0408 0.17 -2.1
495,208 - PP_0408 0.17 -1.8
495,210 + PP_0408 0.18 +0.7
495,210 + PP_0408 0.18 -2.2
495,210 + PP_0408 0.18 -0.5
495,210 + PP_0408 0.18 -1.3
495,210 + PP_0408 0.18 -0.6
495,210 + PP_0408 0.18 +1.0
495,210 + PP_0408 0.18 -1.3
495,210 + PP_0408 0.18 +0.6
495,211 - PP_0408 0.18 -0.3
495,211 - PP_0408 0.18 +0.3
495,211 - PP_0408 0.18 -0.5
495,211 - PP_0408 0.18 +1.0
495,211 - PP_0408 0.18 -1.6
495,214 + PP_0408 0.18 -0.0
495,214 + PP_0408 0.18 -1.5
495,308 + PP_0408 0.27 -0.4
495,336 + PP_0408 0.30 +1.4
495,337 - PP_0408 0.30 -1.1
495,351 + PP_0408 0.32 -2.1
495,361 + PP_0408 0.33 +1.0
495,362 - PP_0408 0.33 -1.5
495,378 - PP_0408 0.34 +0.8
496,068 + +0.6
496,069 - -1.9
496,074 + +0.5
496,075 - +1.6
496,075 - +1.3
496,126 + +0.7
496,126 + +2.0
496,126 + +1.0
496,127 - -0.2
496,127 - +0.3
496,291 + -1.5
496,324 + -0.6
496,351 - -3.0
496,351 - +1.6
496,389 + PP_0409 0.11 +1.5
496,389 + PP_0409 0.11 +0.3
496,390 - PP_0409 0.11 -0.6
496,390 - PP_0409 0.11 +0.8
496,390 - PP_0409 0.11 +0.1
496,490 + -0.4
496,637 - PP_0409 0.21 +1.1
496,694 + PP_0409 0.24 +1.2
496,694 + PP_0409 0.24 -0.5
496,694 + PP_0409 0.24 +1.2
496,694 + PP_0409 0.24 -1.1
496,694 + PP_0409 0.24 +0.0
496,695 - PP_0409 0.24 -2.4
496,695 - PP_0409 0.24 +0.9
496,695 - PP_0409 0.24 -0.0
496,850 + PP_0409 0.30 +1.0
496,924 + PP_0409 0.33 -2.8

Or see this region's nucleotide sequence