Strain Fitness in Pseudomonas putida KT2440 around PP_0546

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_0545 and PP_0546 are separated by 254 nucleotidesPP_0546 and PP_0547 are separated by 66 nucleotides PP_0545: PP_0545 - aldehyde dehydrogenase, at 631,920 to 633,440 _0545 PP_0546: PP_0546 - sigma-54 dependent transcriptional regulator, at 633,695 to 635,710 _0546 PP_0547: PP_0547 - UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase, at 635,777 to 637,126 _0547 Position (kb) 633 634 635 636Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 632.717 kb on + strand, within PP_0545at 632.785 kb on + strand, within PP_0545at 632.796 kb on + strand, within PP_0545at 632.797 kb on - strand, within PP_0545at 632.844 kb on + strand, within PP_0545at 632.845 kb on - strand, within PP_0545at 632.996 kb on - strand, within PP_0545at 633.281 kb on + strand, within PP_0545at 633.281 kb on + strand, within PP_0545at 633.281 kb on + strand, within PP_0545at 633.282 kb on - strand, within PP_0545at 633.326 kb on + strandat 633.356 kb on + strandat 633.356 kb on + strandat 633.356 kb on + strandat 633.357 kb on - strandat 633.357 kb on - strandat 633.376 kb on + strandat 633.377 kb on - strandat 633.377 kb on - strandat 633.377 kb on - strandat 633.377 kb on - strandat 633.377 kb on - strandat 633.385 kb on + strandat 633.434 kb on - strandat 633.456 kb on + strandat 633.456 kb on + strandat 633.675 kb on - strandat 633.689 kb on - strandat 633.736 kb on + strandat 633.815 kb on + strandat 633.816 kb on - strandat 634.252 kb on - strand, within PP_0546at 634.319 kb on + strand, within PP_0546at 634.319 kb on + strand, within PP_0546at 634.320 kb on - strand, within PP_0546at 634.320 kb on - strand, within PP_0546at 634.470 kb on + strand, within PP_0546at 634.864 kb on + strand, within PP_0546at 634.865 kb on - strand, within PP_0546at 634.865 kb on - strand, within PP_0546at 635.000 kb on + strand, within PP_0546at 635.000 kb on - strand, within PP_0546at 635.104 kb on + strand, within PP_0546at 635.159 kb on + strand, within PP_0546at 635.159 kb on + strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.160 kb on - strand, within PP_0546at 635.162 kb on + strand, within PP_0546at 635.268 kb on + strand, within PP_0546at 635.269 kb on - strand, within PP_0546at 635.269 kb on - strand, within PP_0546at 635.269 kb on - strand, within PP_0546at 635.308 kb on + strand, within PP_0546at 635.383 kb on + strand, within PP_0546at 635.383 kb on + strand, within PP_0546at 635.662 kb on + strandat 635.663 kb on - strandat 635.663 kb on - strandat 635.696 kb on - strandat 635.782 kb on + strandat 635.782 kb on + strandat 635.782 kb on + strandat 635.879 kb on + strandat 636.014 kb on + strand, within PP_0547at 636.038 kb on + strand, within PP_0547at 636.038 kb on + strand, within PP_0547at 636.038 kb on + strand, within PP_0547at 636.657 kb on + strand, within PP_0547at 636.657 kb on + strand, within PP_0547at 636.657 kb on + strand, within PP_0547

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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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632,717 + PP_0545 0.52 -3.1
632,785 + PP_0545 0.57 -0.2
632,796 + PP_0545 0.58 +1.6
632,797 - PP_0545 0.58 +1.7
632,844 + PP_0545 0.61 -1.2
632,845 - PP_0545 0.61 +0.5
632,996 - PP_0545 0.71 +2.0
633,281 + PP_0545 0.89 -2.9
633,281 + PP_0545 0.89 -1.4
633,281 + PP_0545 0.89 +1.2
633,282 - PP_0545 0.90 +1.8
633,326 + -1.1
633,356 + -0.0
633,356 + -0.0
633,356 + +0.4
633,357 - +0.4
633,357 - -2.4
633,376 + -1.2
633,377 - +1.8
633,377 - -0.1
633,377 - -1.8
633,377 - -0.1
633,377 - -0.0
633,385 + +1.3
633,434 - +1.3
633,456 + -1.2
633,456 + +0.2
633,675 - +0.5
633,689 - -0.2
633,736 + +0.3
633,815 + -1.0
633,816 - -2.6
634,252 - PP_0546 0.28 +1.2
634,319 + PP_0546 0.31 +0.3
634,319 + PP_0546 0.31 -3.6
634,320 - PP_0546 0.31 +0.4
634,320 - PP_0546 0.31 -0.6
634,470 + PP_0546 0.38 +0.2
634,864 + PP_0546 0.58 +1.3
634,865 - PP_0546 0.58 +1.2
634,865 - PP_0546 0.58 -3.0
635,000 + PP_0546 0.65 -2.2
635,000 - PP_0546 0.65 -2.6
635,104 + PP_0546 0.70 -3.0
635,159 + PP_0546 0.73 -1.6
635,159 + PP_0546 0.73 -1.6
635,160 - PP_0546 0.73 -1.3
635,160 - PP_0546 0.73 +2.4
635,160 - PP_0546 0.73 -2.0
635,160 - PP_0546 0.73 -2.4
635,160 - PP_0546 0.73 -3.2
635,160 - PP_0546 0.73 +0.8
635,162 + PP_0546 0.73 +0.2
635,268 + PP_0546 0.78 -2.6
635,269 - PP_0546 0.78 -0.7
635,269 - PP_0546 0.78 -1.0
635,269 - PP_0546 0.78 -0.3
635,308 + PP_0546 0.80 +1.0
635,383 + PP_0546 0.84 +0.2
635,383 + PP_0546 0.84 -0.5
635,662 + -1.3
635,663 - +0.2
635,663 - -0.7
635,696 - +0.1
635,782 + -1.8
635,782 + +0.4
635,782 + -2.2
635,879 + +0.1
636,014 + PP_0547 0.18 +0.8
636,038 + PP_0547 0.19 +0.6
636,038 + PP_0547 0.19 +0.2
636,038 + PP_0547 0.19 +1.1
636,657 + PP_0547 0.65 -1.5
636,657 + PP_0547 0.65 -0.2
636,657 + PP_0547 0.65 -0.8

Or see this region's nucleotide sequence