Strain Fitness in Pseudomonas putida KT2440 around PP_0530

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_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_0528 and PP_0529 overlap by 4 nucleotidesPP_0529 and PP_0530 are separated by 165 nucleotidesPP_0530 and PP_0531 are separated by 371 nucleotides PP_0528: PP_0528 - farnesyl diphosphate synthase, at 614,359 to 615,246 _0528 PP_0529: PP_0529 - Exodeoxyribonuclease 7 small subunit, at 615,243 to 615,485 _0529 PP_0530: PP_0530 - 3,4-dihydroxy-2-butanone 4-phosphate synthase, at 615,651 to 616,301 _0530 PP_0531: PP_0531 - hypothetical protein, at 616,673 to 617,653 _0531 Position (kb) 615 616 617Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 615.730 kb on + strand, within PP_0530at 615.742 kb on + strand, within PP_0530at 615.742 kb on + strand, within PP_0530at 615.742 kb on + strand, within PP_0530at 615.742 kb on + strand, within PP_0530at 615.743 kb on - strand, within PP_0530at 615.744 kb on + strand, within PP_0530at 615.744 kb on + strand, within PP_0530at 615.744 kb on + strand, within PP_0530at 615.854 kb on + strand, within PP_0530at 615.924 kb on - strand, within PP_0530at 615.924 kb on - strand, within PP_0530at 616.001 kb on + strand, within PP_0530at 616.002 kb on - strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.163 kb on + strand, within PP_0530at 616.164 kb on - strand, within PP_0530at 616.164 kb on - strand, within PP_0530at 616.227 kb on + strand, within PP_0530at 616.228 kb on - strand, within PP_0530at 616.228 kb on - strand, within PP_0530at 616.405 kb on - strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.501 kb on + strandat 616.502 kb on - strandat 616.502 kb on - strandat 616.502 kb on - strandat 616.530 kb on + strandat 616.530 kb on + strandat 616.531 kb on - strandat 616.531 kb on - strandat 616.531 kb on - strandat 616.568 kb on - strandat 616.571 kb on - strandat 616.571 kb on - strandat 616.571 kb on - strandat 616.594 kb on + strandat 616.594 kb on + strandat 616.594 kb on + strandat 616.595 kb on - strandat 616.603 kb on - strandat 616.628 kb on + strandat 616.629 kb on - strandat 616.685 kb on + strandat 616.760 kb on + strandat 616.761 kb on - strandat 616.761 kb on - strandat 616.826 kb on + strand, within PP_0531at 616.826 kb on + strand, within PP_0531at 616.827 kb on - strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.871 kb on + strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.872 kb on - strand, within PP_0531at 616.884 kb on - strand, within PP_0531at 616.953 kb on - strand, within PP_0531at 616.953 kb on - strand, within PP_0531at 617.003 kb on + strand, within PP_0531at 617.003 kb on + strand, within PP_0531at 617.004 kb on - strand, within PP_0531at 617.004 kb on - strand, within PP_0531at 617.004 kb on - strand, within PP_0531at 617.004 kb on - strand, within PP_0531at 617.004 kb on - strand, within PP_0531at 617.021 kb on + strand, within PP_0531at 617.022 kb on - strand, within PP_0531at 617.273 kb on - strand, within PP_0531at 617.273 kb on - strand, within PP_0531at 617.280 kb on + strand, within PP_0531

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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=0_hrs
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615,730 + PP_0530 0.12 -0.3
615,742 + PP_0530 0.14 -3.0
615,742 + PP_0530 0.14 -2.6
615,742 + PP_0530 0.14 +0.4
615,742 + PP_0530 0.14 -1.2
615,743 - PP_0530 0.14 +0.2
615,744 + PP_0530 0.14 -0.3
615,744 + PP_0530 0.14 +0.1
615,744 + PP_0530 0.14 -0.3
615,854 + PP_0530 0.31 -0.2
615,924 - PP_0530 0.42 -1.6
615,924 - PP_0530 0.42 +0.0
616,001 + PP_0530 0.54 +0.1
616,002 - PP_0530 0.54 -2.0
616,163 + PP_0530 0.79 +0.4
616,163 + PP_0530 0.79 -2.9
616,163 + PP_0530 0.79 +0.2
616,163 + PP_0530 0.79 -2.4
616,163 + PP_0530 0.79 +2.0
616,163 + PP_0530 0.79 +0.4
616,163 + PP_0530 0.79 +1.8
616,163 + PP_0530 0.79 -1.3
616,164 - PP_0530 0.79 +0.4
616,164 - PP_0530 0.79 +0.5
616,227 + PP_0530 0.88 -4.2
616,228 - PP_0530 0.89 -0.9
616,228 - PP_0530 0.89 -0.5
616,405 - -3.4
616,501 + -0.1
616,501 + -3.2
616,501 + -1.5
616,501 + -3.6
616,501 + +1.6
616,501 + -3.7
616,501 + -2.4
616,502 - -2.9
616,502 - +0.7
616,502 - +0.3
616,530 + +0.9
616,530 + -1.6
616,531 - -0.1
616,531 - -4.3
616,531 - +0.1
616,568 - +0.9
616,571 - -1.7
616,571 - -0.6
616,571 - -4.6
616,594 + -0.1
616,594 + +1.0
616,594 + -0.3
616,595 - -1.9
616,603 - +0.4
616,628 + -2.9
616,629 - +1.5
616,685 + +0.6
616,760 + +0.6
616,761 - +1.0
616,761 - -4.1
616,826 + PP_0531 0.16 +1.7
616,826 + PP_0531 0.16 +0.6
616,827 - PP_0531 0.16 +1.0
616,871 + PP_0531 0.20 +0.2
616,871 + PP_0531 0.20 +1.1
616,871 + PP_0531 0.20 -0.7
616,871 + PP_0531 0.20 -0.2
616,871 + PP_0531 0.20 -1.4
616,871 + PP_0531 0.20 +0.7
616,872 - PP_0531 0.20 +1.8
616,872 - PP_0531 0.20 +2.6
616,872 - PP_0531 0.20 -0.8
616,872 - PP_0531 0.20 -2.4
616,872 - PP_0531 0.20 -0.6
616,872 - PP_0531 0.20 +0.6
616,872 - PP_0531 0.20 +0.9
616,884 - PP_0531 0.22 -4.0
616,953 - PP_0531 0.29 -3.7
616,953 - PP_0531 0.29 +1.0
617,003 + PP_0531 0.34 -3.3
617,003 + PP_0531 0.34 +0.6
617,004 - PP_0531 0.34 -0.6
617,004 - PP_0531 0.34 +0.3
617,004 - PP_0531 0.34 -2.5
617,004 - PP_0531 0.34 -3.9
617,004 - PP_0531 0.34 -3.8
617,021 + PP_0531 0.35 +1.9
617,022 - PP_0531 0.36 +1.1
617,273 - PP_0531 0.61 -1.2
617,273 - PP_0531 0.61 -1.4
617,280 + PP_0531 0.62 -1.4

Or see this region's nucleotide sequence