Strain Fitness in Pseudomonas putida KT2440 around PP_0821

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_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_0820 and PP_5460 are separated by 86 nucleotidesPP_5460 and PP_0821 overlap by 4 nucleotidesPP_0821 and PP_0822 are separated by 125 nucleotides PP_0820: PP_0820 - GCN5-related N-acetyltransferase, at 958,546 to 959,109 _0820 PP_5460: PP_5460 - conserved membrane protein of unknown function, at 959,196 to 959,735 _5460 PP_0821: PP_0821 - conserved exported protein of unknown function, at 959,732 to 960,142 _0821 PP_0822: PP_0822 - tRNA 2-selenouridine synthase, at 960,268 to 961,380 _0822 Position (kb) 959 960 961Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 958.741 kb on + strand, within PP_0820at 958.742 kb on - strand, within PP_0820at 958.774 kb on + strand, within PP_0820at 958.774 kb on + strand, within PP_0820at 958.775 kb on - strand, within PP_0820at 958.888 kb on + strand, within PP_0820at 958.888 kb on + strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 958.889 kb on - strand, within PP_0820at 959.077 kb on + strandat 959.077 kb on + strandat 959.078 kb on - strandat 959.078 kb on - strandat 959.102 kb on + strandat 959.102 kb on + strandat 959.103 kb on - strandat 959.115 kb on + strandat 959.165 kb on + strandat 959.165 kb on + strandat 959.165 kb on + strandat 959.165 kb on + strandat 959.165 kb on + strandat 959.165 kb on + strandat 959.166 kb on - strandat 959.166 kb on - strandat 959.216 kb on + strandat 959.216 kb on + strandat 959.232 kb on + strandat 959.232 kb on + strandat 959.232 kb on + strandat 959.232 kb on + strandat 959.282 kb on + strand, within PP_5460at 959.283 kb on - strand, within PP_5460at 959.338 kb on - strand, within PP_5460at 959.430 kb on + strand, within PP_5460at 959.431 kb on - strand, within PP_5460at 959.481 kb on + strand, within PP_5460at 959.482 kb on - strand, within PP_5460at 959.482 kb on - strand, within PP_5460at 959.520 kb on + strand, within PP_5460at 959.521 kb on - strandat 959.655 kb on + strand, within PP_5460at 959.655 kb on + strand, within PP_5460at 959.655 kb on + strand, within PP_5460at 959.656 kb on - strand, within PP_5460at 959.752 kb on + strandat 959.769 kb on - strandat 959.769 kb on - strandat 959.769 kb on - strandat 959.822 kb on + strand, within PP_0821at 960.006 kb on - strand, within PP_0821at 960.034 kb on - strand, within PP_0821at 960.034 kb on - strand, within PP_0821at 960.034 kb on - strand, within PP_0821at 960.034 kb on - strand, within PP_0821at 960.127 kb on + strandat 960.261 kb on - strandat 960.269 kb on + strandat 960.270 kb on - strandat 960.270 kb on - strandat 960.305 kb on + strandat 960.306 kb on - strandat 960.306 kb on - strandat 960.314 kb on - strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.374 kb on + strandat 960.375 kb on - strandat 960.375 kb on - strandat 960.375 kb on - strandat 960.375 kb on - strandat 960.386 kb on + strand, within PP_0822at 960.387 kb on - strand, within PP_0822at 960.389 kb on + strand, within PP_0822at 960.390 kb on - strand, within PP_0822at 960.430 kb on + strand, within PP_0822at 960.430 kb on + strand, within PP_0822at 960.515 kb on + strand, within PP_0822at 960.516 kb on - strand, within PP_0822at 960.519 kb on + strand, within PP_0822at 960.519 kb on + strand, within PP_0822at 960.519 kb on + strand, within PP_0822at 960.519 kb on + strand, within PP_0822at 960.519 kb on + strand, within PP_0822at 960.520 kb on - strand, within PP_0822at 960.614 kb on + strand, within PP_0822at 960.692 kb on + strand, within PP_0822at 960.692 kb on + strand, within PP_0822at 960.693 kb on - strand, within PP_0822at 960.978 kb on + strand, within PP_0822at 960.996 kb on + strand, within PP_0822at 960.996 kb on + strand, within PP_0822at 960.996 kb on + strand, within PP_0822at 960.996 kb on + strand, within PP_0822at 960.997 kb on - strand, within PP_0822at 961.010 kb on + strand, within PP_0822at 961.039 kb on - strandat 961.039 kb on - strand, within PP_0822

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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=288_hrs
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958,741 + PP_0820 0.35 -0.3
958,742 - PP_0820 0.35 -1.8
958,774 + PP_0820 0.40 +1.6
958,774 + PP_0820 0.40 +1.2
958,775 - PP_0820 0.41 +0.9
958,888 + PP_0820 0.61 -3.6
958,888 + PP_0820 0.61 +1.2
958,889 - PP_0820 0.61 -0.4
958,889 - PP_0820 0.61 -0.4
958,889 - PP_0820 0.61 +1.2
958,889 - PP_0820 0.61 +1.6
958,889 - PP_0820 0.61 +1.6
958,889 - PP_0820 0.61 +0.6
959,077 + +0.3
959,077 + -0.1
959,078 - -0.9
959,078 - +1.0
959,102 + +1.5
959,102 + -0.1
959,103 - +1.3
959,115 + +0.2
959,165 + +0.2
959,165 + +1.1
959,165 + +0.9
959,165 + +1.0
959,165 + +0.5
959,165 + -2.1
959,166 - -0.6
959,166 - +1.3
959,216 + -3.5
959,216 + -1.7
959,232 + +0.7
959,232 + -0.5
959,232 + -1.3
959,232 + +0.7
959,282 + PP_5460 0.16 -0.7
959,283 - PP_5460 0.16 -0.5
959,338 - PP_5460 0.26 +0.5
959,430 + PP_5460 0.43 -4.1
959,431 - PP_5460 0.44 +0.9
959,481 + PP_5460 0.53 +2.3
959,482 - PP_5460 0.53 +1.7
959,482 - PP_5460 0.53 -1.1
959,520 + PP_5460 0.60 +1.8
959,521 - +1.1
959,655 + PP_5460 0.85 -2.0
959,655 + PP_5460 0.85 -0.7
959,655 + PP_5460 0.85 -0.6
959,656 - PP_5460 0.85 +0.4
959,752 + -0.0
959,769 - -0.3
959,769 - +0.3
959,769 - -1.1
959,822 + PP_0821 0.22 +0.1
960,006 - PP_0821 0.67 +3.4
960,034 - PP_0821 0.73 +0.8
960,034 - PP_0821 0.73 -3.6
960,034 - PP_0821 0.73 -4.5
960,034 - PP_0821 0.73 +1.1
960,127 + +0.8
960,261 - +0.5
960,269 + -0.6
960,270 - -4.1
960,270 - -2.7
960,305 + -1.0
960,306 - +0.5
960,306 - +0.5
960,314 - +0.7
960,374 + -2.7
960,374 + +1.1
960,374 + -0.8
960,374 + -2.4
960,374 + +0.1
960,374 + +2.6
960,374 + +0.9
960,374 + +1.0
960,374 + -0.2
960,374 + -4.3
960,374 + -3.6
960,375 - +0.4
960,375 - -1.5
960,375 - -1.2
960,375 - +0.6
960,386 + PP_0822 0.11 +0.7
960,387 - PP_0822 0.11 -4.0
960,389 + PP_0822 0.11 +2.3
960,390 - PP_0822 0.11 +1.6
960,430 + PP_0822 0.15 +0.3
960,430 + PP_0822 0.15 +0.8
960,515 + PP_0822 0.22 +0.4
960,516 - PP_0822 0.22 +1.8
960,519 + PP_0822 0.23 -0.1
960,519 + PP_0822 0.23 +0.3
960,519 + PP_0822 0.23 -1.5
960,519 + PP_0822 0.23 -0.9
960,519 + PP_0822 0.23 +0.5
960,520 - PP_0822 0.23 -0.6
960,614 + PP_0822 0.31 -0.1
960,692 + PP_0822 0.38 +0.1
960,692 + PP_0822 0.38 -2.6
960,693 - PP_0822 0.38 +0.6
960,978 + PP_0822 0.64 -0.9
960,996 + PP_0822 0.65 -2.9
960,996 + PP_0822 0.65 +0.9
960,996 + PP_0822 0.65 -0.8
960,996 + PP_0822 0.65 -2.2
960,997 - PP_0822 0.65 +1.2
961,010 + PP_0822 0.67 -4.1
961,039 - -0.4
961,039 - PP_0822 0.69 +0.9

Or see this region's nucleotide sequence