Strain Fitness in Pseudomonas putida KT2440 around PP_0228

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=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_0227 and PP_0228 are separated by 308 nucleotidesPP_0228 and PP_0229 are separated by 269 nucleotides PP_0227: PP_0227 - periplasmic cystine-binding protein, at 280,245 to 281,039 _0227 PP_0228: PP_0228 - putative serine acetyltransferase, at 281,348 to 282,280 _0228 PP_0229: PP_0229 - choline/carnitine/betaine transporter, at 282,550 to 284,553 _0229 Position (kb) 281 282 283Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 280.516 kb on + strand, within PP_0227at 280.516 kb on + strand, within PP_0227at 280.516 kb on + strand, within PP_0227at 280.516 kb on + strand, within PP_0227at 280.516 kb on + strand, within PP_0227at 280.516 kb on + strand, within PP_0227at 280.517 kb on - strand, within PP_0227at 280.517 kb on - strand, within PP_0227at 280.517 kb on - strand, within PP_0227at 280.564 kb on + strand, within PP_0227at 280.564 kb on + strand, within PP_0227at 280.565 kb on - strand, within PP_0227at 280.565 kb on - strand, within PP_0227at 280.565 kb on - strand, within PP_0227at 280.581 kb on + strand, within PP_0227at 280.582 kb on - strand, within PP_0227at 280.678 kb on + strand, within PP_0227at 280.678 kb on + strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.679 kb on - strand, within PP_0227at 280.697 kb on - strand, within PP_0227at 280.697 kb on - strand, within PP_0227at 280.740 kb on + strand, within PP_0227at 280.740 kb on + strand, within PP_0227at 280.740 kb on + strand, within PP_0227at 280.740 kb on + strand, within PP_0227at 280.740 kb on + strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.741 kb on - strand, within PP_0227at 280.898 kb on - strand, within PP_0227at 280.898 kb on - strand, within PP_0227at 281.063 kb on + strandat 281.063 kb on + strandat 281.063 kb on + strandat 281.063 kb on + strandat 281.064 kb on - strandat 281.064 kb on - strandat 281.064 kb on - strandat 281.068 kb on - strandat 281.068 kb on - strandat 281.082 kb on + strandat 281.083 kb on - strandat 281.083 kb on - strandat 281.083 kb on - strandat 281.084 kb on + strandat 281.084 kb on + strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.085 kb on - strandat 281.126 kb on + strandat 281.204 kb on + strandat 281.215 kb on + strandat 281.215 kb on + strandat 281.329 kb on + strandat 281.329 kb on + strandat 281.447 kb on - strand, within PP_0228at 281.576 kb on + strand, within PP_0228at 281.576 kb on + strand, within PP_0228at 281.576 kb on + strand, within PP_0228at 281.576 kb on + strand, within PP_0228at 281.577 kb on - strand, within PP_0228at 281.587 kb on + strand, within PP_0228at 281.816 kb on + strand, within PP_0228at 281.864 kb on + strand, within PP_0228at 281.865 kb on - strand, within PP_0228at 281.981 kb on - strand, within PP_0228at 282.091 kb on + strand, within PP_0228at 282.092 kb on - strand, within PP_0228at 282.137 kb on + strand, within PP_0228at 282.137 kb on + strand, within PP_0228at 282.137 kb on + strand, within PP_0228at 282.138 kb on - strand, within PP_0228at 282.163 kb on + strand, within PP_0228at 282.163 kb on + strand, within PP_0228at 282.164 kb on - strand, within PP_0228at 282.164 kb on - strand, within PP_0228at 282.166 kb on + strand, within PP_0228at 282.167 kb on - strand, within PP_0228at 282.167 kb on - strand, within PP_0228at 282.238 kb on + strandat 282.238 kb on + strandat 282.238 kb on + strandat 282.238 kb on + strandat 282.238 kb on + strandat 282.239 kb on - strandat 282.239 kb on - strandat 282.342 kb on + strandat 282.342 kb on + strandat 282.342 kb on + strandat 282.342 kb on + strandat 282.343 kb on - strandat 282.343 kb on - strandat 282.350 kb on + strandat 282.350 kb on + strandat 282.351 kb on - strandat 282.351 kb on - strandat 282.611 kb on - strandat 282.647 kb on + strandat 282.647 kb on + strandat 282.647 kb on + strandat 282.648 kb on - strandat 282.724 kb on + strandat 282.724 kb on + strandat 282.725 kb on - strandat 282.727 kb on + strandat 282.727 kb on + strandat 282.727 kb on + strandat 282.727 kb on + strandat 282.727 kb on + strandat 282.727 kb on + strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 282.728 kb on - strandat 283.042 kb on + strand, within PP_0229at 283.064 kb on + strand, within PP_0229at 283.064 kb on + strand, within PP_0229at 283.222 kb on + strand, within PP_0229at 283.223 kb on - strand, within PP_0229at 283.223 kb on - strand, within PP_0229

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs
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280,516 + PP_0227 0.34 +0.7
280,516 + PP_0227 0.34 -1.5
280,516 + PP_0227 0.34 -0.5
280,516 + PP_0227 0.34 -1.4
280,516 + PP_0227 0.34 +0.1
280,516 + PP_0227 0.34 +0.9
280,517 - PP_0227 0.34 -0.5
280,517 - PP_0227 0.34 +0.0
280,517 - PP_0227 0.34 -1.0
280,564 + PP_0227 0.40 +0.6
280,564 + PP_0227 0.40 -1.0
280,565 - PP_0227 0.40 -1.0
280,565 - PP_0227 0.40 -0.8
280,565 - PP_0227 0.40 -1.8
280,581 + PP_0227 0.42 +0.2
280,582 - PP_0227 0.42 -1.5
280,678 + PP_0227 0.54 -1.3
280,678 + PP_0227 0.54 -0.2
280,679 - PP_0227 0.55 -0.5
280,679 - PP_0227 0.55 +0.7
280,679 - PP_0227 0.55 +2.2
280,679 - PP_0227 0.55 +0.4
280,679 - PP_0227 0.55 -1.0
280,679 - PP_0227 0.55 +0.0
280,679 - PP_0227 0.55 -3.0
280,697 - PP_0227 0.57 -2.0
280,697 - PP_0227 0.57 +1.5
280,740 + PP_0227 0.62 -0.6
280,740 + PP_0227 0.62 +0.8
280,740 + PP_0227 0.62 -0.1
280,740 + PP_0227 0.62 +2.2
280,740 + PP_0227 0.62 +0.3
280,741 - PP_0227 0.62 -2.5
280,741 - PP_0227 0.62 -3.2
280,741 - PP_0227 0.62 +0.9
280,741 - PP_0227 0.62 +0.4
280,741 - PP_0227 0.62 -0.8
280,741 - PP_0227 0.62 -3.1
280,741 - PP_0227 0.62 +0.3
280,898 - PP_0227 0.82 -1.9
280,898 - PP_0227 0.82 +1.5
281,063 + -1.4
281,063 + +0.1
281,063 + +0.7
281,063 + +0.6
281,064 - -0.1
281,064 - +2.2
281,064 - -0.4
281,068 - +0.4
281,068 - -2.7
281,082 + +0.9
281,083 - +0.3
281,083 - +0.3
281,083 - -1.9
281,084 + -0.9
281,084 + +0.1
281,085 - -1.2
281,085 - -0.9
281,085 - +1.9
281,085 - +0.7
281,085 - +2.5
281,085 - +0.5
281,085 - -1.8
281,126 + -0.4
281,204 + -2.2
281,215 + +0.8
281,215 + -3.0
281,329 + +0.7
281,329 + -1.5
281,447 - PP_0228 0.11 +0.5
281,576 + PP_0228 0.24 +0.2
281,576 + PP_0228 0.24 +0.6
281,576 + PP_0228 0.24 +1.7
281,576 + PP_0228 0.24 +2.6
281,577 - PP_0228 0.25 +0.9
281,587 + PP_0228 0.26 -0.5
281,816 + PP_0228 0.50 +0.6
281,864 + PP_0228 0.55 +2.2
281,865 - PP_0228 0.55 -3.2
281,981 - PP_0228 0.68 +0.1
282,091 + PP_0228 0.80 -1.9
282,092 - PP_0228 0.80 +1.3
282,137 + PP_0228 0.85 -1.8
282,137 + PP_0228 0.85 -3.2
282,137 + PP_0228 0.85 +1.7
282,138 - PP_0228 0.85 -3.4
282,163 + PP_0228 0.87 +0.9
282,163 + PP_0228 0.87 +1.7
282,164 - PP_0228 0.87 -0.1
282,164 - PP_0228 0.87 +1.1
282,166 + PP_0228 0.88 +1.6
282,167 - PP_0228 0.88 +1.1
282,167 - PP_0228 0.88 +0.9
282,238 + -3.3
282,238 + +0.7
282,238 + +1.3
282,238 + -2.4
282,238 + -1.0
282,239 - -0.1
282,239 - +0.9
282,342 + -0.5
282,342 + +1.4
282,342 + +2.0
282,342 + -0.3
282,343 - -3.2
282,343 - +0.3
282,350 + -2.1
282,350 + +1.1
282,351 - +2.3
282,351 - -0.6
282,611 - +1.6
282,647 + -3.8
282,647 + -0.8
282,647 + -1.4
282,648 - -2.7
282,724 + +0.3
282,724 + +0.8
282,725 - +0.3
282,727 + +1.8
282,727 + +0.4
282,727 + +2.1
282,727 + +1.3
282,727 + -0.0
282,727 + +0.1
282,728 - +0.8
282,728 - -2.9
282,728 - -2.8
282,728 - +3.3
282,728 - +0.2
282,728 - -2.3
282,728 - -2.1
282,728 - -1.3
282,728 - -2.1
282,728 - +0.9
283,042 + PP_0229 0.25 -3.1
283,064 + PP_0229 0.26 -2.7
283,064 + PP_0229 0.26 -1.3
283,222 + PP_0229 0.34 -0.3
283,223 - PP_0229 0.34 -0.2
283,223 - PP_0229 0.34 +0.3

Or see this region's nucleotide sequence