Strain Fitness in Pseudomonas putida KT2440 around PP_0279

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_5437 and PP_0278 are separated by 134 nucleotidesPP_0278 and PP_0279 are separated by 392 nucleotidesPP_0279 and PP_0280 are separated by 128 nucleotidesPP_0280 and PP_0281 overlap by 1 nucleotides PP_5437: PP_5437 - protein of unknown function, at 335,599 to 335,781 _5437 PP_0278: PP_0278 - conserved protein of unknown function, at 335,916 to 336,152 _0278 PP_0279: PP_0279 - conserved protein of unknown function, at 336,545 to 337,750 _0279 PP_0280: PP_0280 - Amino acid ABC transporter, permease protein, at 337,879 to 338,568 _0280 PP_0281: PP_0281 - Amino acid ABC transporter, permease protein, at 338,568 to 339,260 _0281 Position (kb) 336 337 338Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 335.548 kb on - strandat 335.548 kb on - strandat 335.548 kb on - strandat 335.577 kb on - strandat 335.600 kb on + strandat 335.601 kb on - strandat 335.608 kb on + strandat 335.663 kb on + strand, within PP_5437at 335.664 kb on - strand, within PP_5437at 335.668 kb on + strand, within PP_5437at 335.668 kb on + strand, within PP_5437at 335.668 kb on + strand, within PP_5437at 335.669 kb on - strand, within PP_5437at 335.669 kb on - strand, within PP_5437at 335.686 kb on - strand, within PP_5437at 335.686 kb on - strand, within PP_5437at 335.765 kb on + strandat 335.765 kb on + strandat 335.765 kb on + strandat 335.765 kb on + strandat 335.765 kb on + strandat 335.766 kb on - strandat 335.766 kb on - strandat 335.790 kb on + strandat 335.790 kb on + strandat 335.790 kb on + strandat 335.791 kb on - strandat 335.825 kb on - strandat 335.850 kb on - strandat 335.998 kb on + strand, within PP_0278at 336.004 kb on + strand, within PP_0278at 336.005 kb on - strand, within PP_0278at 336.005 kb on - strand, within PP_0278at 336.033 kb on + strand, within PP_0278at 336.105 kb on - strand, within PP_0278at 336.125 kb on + strand, within PP_0278at 336.178 kb on + strandat 336.188 kb on + strandat 336.188 kb on + strandat 336.188 kb on + strandat 336.403 kb on + strandat 336.500 kb on + strandat 336.501 kb on - strandat 336.524 kb on + strandat 336.624 kb on + strandat 336.624 kb on + strandat 336.625 kb on - strandat 336.813 kb on + strand, within PP_0279at 336.813 kb on + strand, within PP_0279at 336.813 kb on + strand, within PP_0279at 336.813 kb on + strand, within PP_0279at 336.814 kb on - strand, within PP_0279at 336.814 kb on - strand, within PP_0279at 336.867 kb on + strand, within PP_0279at 336.868 kb on - strand, within PP_0279at 337.047 kb on + strand, within PP_0279at 337.071 kb on + strand, within PP_0279at 337.072 kb on - strand, within PP_0279at 337.072 kb on - strand, within PP_0279at 337.133 kb on + strand, within PP_0279at 337.133 kb on + strand, within PP_0279at 337.134 kb on - strand, within PP_0279at 337.134 kb on - strand, within PP_0279at 337.175 kb on - strand, within PP_0279at 337.290 kb on + strand, within PP_0279at 337.290 kb on + strand, within PP_0279at 337.291 kb on - strand, within PP_0279at 337.291 kb on - strand, within PP_0279at 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.721 kb on + strandat 337.722 kb on - strandat 337.722 kb on - strandat 337.722 kb on - strandat 337.722 kb on - strandat 337.808 kb on + strandat 337.809 kb on - strandat 337.809 kb on - strandat 337.810 kb on + strandat 337.811 kb on - strandat 337.811 kb on - strandat 337.834 kb on + strandat 337.835 kb on - strandat 337.961 kb on + strand, within PP_0280at 337.961 kb on + strand, within PP_0280at 337.962 kb on - strand, within PP_0280at 337.962 kb on - strand, within PP_0280at 338.000 kb on + strand, within PP_0280at 338.001 kb on - strand, within PP_0280at 338.020 kb on - strand, within PP_0280at 338.056 kb on - strand, within PP_0280at 338.144 kb on + strand, within PP_0280at 338.144 kb on + strand, within PP_0280at 338.202 kb on + strand, within PP_0280at 338.202 kb on + strand, within PP_0280at 338.243 kb on + strand, within PP_0280at 338.243 kb on + strand, within PP_0280at 338.244 kb on - strand, within PP_0280at 338.244 kb on - strand, within PP_0280at 338.300 kb on + strand, within PP_0280at 338.351 kb on + strand, within PP_0280at 338.402 kb on + strand, within PP_0280at 338.402 kb on + strand, within PP_0280at 338.426 kb on + strand, within PP_0280at 338.569 kb on + strandat 338.570 kb on - strandat 338.570 kb on - strandat 338.570 kb on - strandat 338.619 kb on - strandat 338.650 kb on + strand, within PP_0281at 338.651 kb on - strand, within PP_0281at 338.651 kb on - strand, within PP_0281at 338.651 kb on - strand, within PP_0281at 338.651 kb on - strand, within PP_0281at 338.671 kb on + strand, within PP_0281at 338.671 kb on + strand, within PP_0281at 338.672 kb on - strand, within PP_0281at 338.672 kb on - strand, within PP_0281at 338.672 kb on - strand, within PP_0281

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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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335,548 - +0.3
335,548 - -4.3
335,548 - -4.0
335,577 - -4.5
335,600 + -1.4
335,601 - +2.2
335,608 + -1.0
335,663 + PP_5437 0.35 -3.7
335,664 - PP_5437 0.36 -1.0
335,668 + PP_5437 0.38 +0.5
335,668 + PP_5437 0.38 +1.4
335,668 + PP_5437 0.38 +0.5
335,669 - PP_5437 0.38 +0.5
335,669 - PP_5437 0.38 +0.7
335,686 - PP_5437 0.48 +0.5
335,686 - PP_5437 0.48 +0.6
335,765 + -4.0
335,765 + +0.3
335,765 + -0.2
335,765 + +0.3
335,765 + +0.0
335,766 - +0.3
335,766 - +0.1
335,790 + -3.3
335,790 + +0.2
335,790 + +0.6
335,791 - +1.1
335,825 - +1.5
335,850 - -0.1
335,998 + PP_0278 0.35 -1.5
336,004 + PP_0278 0.37 -3.4
336,005 - PP_0278 0.38 +0.3
336,005 - PP_0278 0.38 -2.9
336,033 + PP_0278 0.49 -3.8
336,105 - PP_0278 0.80 -1.9
336,125 + PP_0278 0.88 +0.9
336,178 + -0.8
336,188 + -1.0
336,188 + -1.6
336,188 + +0.9
336,403 + +1.6
336,500 + +0.7
336,501 - +0.0
336,524 + +0.7
336,624 + +1.1
336,624 + +0.9
336,625 - -3.1
336,813 + PP_0279 0.22 -3.4
336,813 + PP_0279 0.22 -0.4
336,813 + PP_0279 0.22 +1.4
336,813 + PP_0279 0.22 +0.8
336,814 - PP_0279 0.22 -2.0
336,814 - PP_0279 0.22 -3.2
336,867 + PP_0279 0.27 -1.2
336,868 - PP_0279 0.27 -1.6
337,047 + PP_0279 0.42 +0.3
337,071 + PP_0279 0.44 +0.3
337,072 - PP_0279 0.44 +0.5
337,072 - PP_0279 0.44 -0.6
337,133 + PP_0279 0.49 -1.1
337,133 + PP_0279 0.49 +0.3
337,134 - PP_0279 0.49 +0.5
337,134 - PP_0279 0.49 -3.0
337,175 - PP_0279 0.52 -0.8
337,290 + PP_0279 0.62 -4.6
337,290 + PP_0279 0.62 -1.5
337,291 - PP_0279 0.62 -0.2
337,291 - PP_0279 0.62 -1.6
337,721 + +0.5
337,721 + -4.6
337,721 + +0.5
337,721 + -0.1
337,721 + +0.2
337,721 + -2.7
337,721 + +0.3
337,721 + +0.3
337,722 - +1.5
337,722 - +0.7
337,722 - +1.1
337,722 - +1.5
337,808 + -1.7
337,809 - -0.8
337,809 - -3.1
337,810 + +0.6
337,811 - -2.2
337,811 - -0.5
337,834 + +1.3
337,835 - -1.3
337,961 + PP_0280 0.12 -2.8
337,961 + PP_0280 0.12 -1.2
337,962 - PP_0280 0.12 -0.4
337,962 - PP_0280 0.12 -3.0
338,000 + PP_0280 0.18 -0.2
338,001 - PP_0280 0.18 -2.4
338,020 - PP_0280 0.20 -1.8
338,056 - PP_0280 0.26 -2.7
338,144 + PP_0280 0.38 +1.4
338,144 + PP_0280 0.38 -1.0
338,202 + PP_0280 0.47 -1.8
338,202 + PP_0280 0.47 -4.5
338,243 + PP_0280 0.53 +0.3
338,243 + PP_0280 0.53 -0.9
338,244 - PP_0280 0.53 +0.9
338,244 - PP_0280 0.53 -3.1
338,300 + PP_0280 0.61 +0.3
338,351 + PP_0280 0.68 +0.6
338,402 + PP_0280 0.76 -3.9
338,402 + PP_0280 0.76 +0.1
338,426 + PP_0280 0.79 -0.1
338,569 + -0.7
338,570 - -3.6
338,570 - -2.2
338,570 - -3.1
338,619 - -3.4
338,650 + PP_0281 0.12 +0.0
338,651 - PP_0281 0.12 -1.1
338,651 - PP_0281 0.12 +0.7
338,651 - PP_0281 0.12 -2.8
338,651 - PP_0281 0.12 -1.1
338,671 + PP_0281 0.15 +1.1
338,671 + PP_0281 0.15 -3.4
338,672 - PP_0281 0.15 +0.5
338,672 - PP_0281 0.15 -1.3
338,672 - PP_0281 0.15 +2.6

Or see this region's nucleotide sequence