Strain Fitness in Pseudomonas putida KT2440 around PP_0377

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_0376 and PP_0377 are separated by 1 nucleotidesPP_0377 and PP_0378 overlap by 4 nucleotidesPP_0378 and PP_0379 are separated by 163 nucleotides PP_0376: PP_0376 - Coenzyme PQQ synthesis protein E, at 456,620 to 457,750 _0376 PP_0377: PP_0377 - coenzyme PQQ synthesis protein D, at 457,752 to 458,027 _0377 PP_0378: PP_0378 - Pyrroloquinoline-quinone synthase, at 458,024 to 458,779 _0378 PP_0379: PP_0379 - Coenzyme PQQ synthesis protein B, at 458,943 to 459,854 _0379 Position (kb) 457 458 459Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 456.859 kb on - strandat 456.898 kb on + strand, within PP_0376at 456.898 kb on + strand, within PP_0376at 456.898 kb on + strand, within PP_0376at 456.898 kb on + strand, within PP_0376at 456.898 kb on + strand, within PP_0376at 456.898 kb on + strand, within PP_0376at 456.899 kb on - strand, within PP_0376at 456.899 kb on - strand, within PP_0376at 456.899 kb on - strand, within PP_0376at 456.899 kb on - strand, within PP_0376at 456.920 kb on + strand, within PP_0376at 456.920 kb on + strand, within PP_0376at 456.921 kb on - strand, within PP_0376at 456.974 kb on - strand, within PP_0376at 457.041 kb on + strand, within PP_0376at 457.041 kb on + strand, within PP_0376at 457.042 kb on - strand, within PP_0376at 457.045 kb on - strand, within PP_0376at 457.045 kb on - strand, within PP_0376at 457.117 kb on + strand, within PP_0376at 457.118 kb on - strand, within PP_0376at 457.118 kb on - strand, within PP_0376at 457.161 kb on - strand, within PP_0376at 457.185 kb on + strand, within PP_0376at 457.186 kb on - strand, within PP_0376at 457.186 kb on - strand, within PP_0376at 457.492 kb on - strand, within PP_0376at 457.492 kb on - strand, within PP_0376at 457.494 kb on + strand, within PP_0376at 457.495 kb on - strand, within PP_0376at 457.671 kb on + strandat 457.696 kb on - strandat 457.742 kb on - strandat 457.742 kb on - strandat 457.939 kb on + strand, within PP_0377at 457.973 kb on - strand, within PP_0377at 458.005 kb on - strandat 458.012 kb on + strandat 458.027 kb on + strandat 458.027 kb on + strandat 458.028 kb on - strandat 458.119 kb on + strand, within PP_0378at 458.120 kb on - strand, within PP_0378at 458.161 kb on + strand, within PP_0378at 458.161 kb on + strand, within PP_0378at 458.161 kb on + strand, within PP_0378at 458.162 kb on - strand, within PP_0378at 458.187 kb on + strand, within PP_0378at 458.188 kb on - strand, within PP_0378at 458.188 kb on - strand, within PP_0378at 458.256 kb on + strand, within PP_0378at 458.256 kb on + strand, within PP_0378at 458.257 kb on - strand, within PP_0378at 458.430 kb on - strand, within PP_0378at 458.430 kb on - strand, within PP_0378at 458.430 kb on - strand, within PP_0378at 458.622 kb on + strand, within PP_0378at 458.622 kb on + strand, within PP_0378at 458.623 kb on - strand, within PP_0378at 458.625 kb on + strand, within PP_0378at 458.625 kb on + strand, within PP_0378at 458.626 kb on - strand, within PP_0378at 458.694 kb on + strand, within PP_0378at 458.694 kb on + strand, within PP_0378at 458.695 kb on - strand, within PP_0378at 458.712 kb on + strandat 458.712 kb on + strandat 458.712 kb on + strandat 458.713 kb on - strandat 458.713 kb on - strandat 458.713 kb on - strandat 458.715 kb on + strandat 458.716 kb on - strandat 458.795 kb on - strandat 458.804 kb on - strandat 458.804 kb on - strandat 458.940 kb on + strandat 458.944 kb on + strandat 458.944 kb on + strandat 458.945 kb on - strand

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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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456,859 - +1.4
456,898 + PP_0376 0.25 +0.6
456,898 + PP_0376 0.25 +0.7
456,898 + PP_0376 0.25 +1.0
456,898 + PP_0376 0.25 +0.7
456,898 + PP_0376 0.25 +0.5
456,898 + PP_0376 0.25 +1.6
456,899 - PP_0376 0.25 +0.5
456,899 - PP_0376 0.25 +0.3
456,899 - PP_0376 0.25 +1.4
456,899 - PP_0376 0.25 +0.4
456,920 + PP_0376 0.27 +0.4
456,920 + PP_0376 0.27 -0.0
456,921 - PP_0376 0.27 -0.4
456,974 - PP_0376 0.31 +1.7
457,041 + PP_0376 0.37 -0.8
457,041 + PP_0376 0.37 -0.7
457,042 - PP_0376 0.37 -3.5
457,045 - PP_0376 0.38 -0.7
457,045 - PP_0376 0.38 +2.2
457,117 + PP_0376 0.44 +0.5
457,118 - PP_0376 0.44 +1.0
457,118 - PP_0376 0.44 -3.1
457,161 - PP_0376 0.48 +1.4
457,185 + PP_0376 0.50 +1.0
457,186 - PP_0376 0.50 +0.2
457,186 - PP_0376 0.50 +2.6
457,492 - PP_0376 0.77 -0.8
457,492 - PP_0376 0.77 -0.0
457,494 + PP_0376 0.77 -0.2
457,495 - PP_0376 0.77 +0.4
457,671 + -3.4
457,696 - +0.4
457,742 - -0.3
457,742 - -0.3
457,939 + PP_0377 0.68 -1.4
457,973 - PP_0377 0.80 -0.6
458,005 - +0.6
458,012 + +0.6
458,027 + +1.0
458,027 + +0.7
458,028 - -1.9
458,119 + PP_0378 0.13 +0.9
458,120 - PP_0378 0.13 -3.5
458,161 + PP_0378 0.18 +0.0
458,161 + PP_0378 0.18 +0.9
458,161 + PP_0378 0.18 -0.8
458,162 - PP_0378 0.18 +0.7
458,187 + PP_0378 0.22 -0.0
458,188 - PP_0378 0.22 -1.7
458,188 - PP_0378 0.22 -1.2
458,256 + PP_0378 0.31 -0.2
458,256 + PP_0378 0.31 -3.0
458,257 - PP_0378 0.31 +1.1
458,430 - PP_0378 0.54 +1.7
458,430 - PP_0378 0.54 +0.6
458,430 - PP_0378 0.54 +1.0
458,622 + PP_0378 0.79 +0.1
458,622 + PP_0378 0.79 +0.3
458,623 - PP_0378 0.79 +0.7
458,625 + PP_0378 0.79 +1.0
458,625 + PP_0378 0.79 +1.6
458,626 - PP_0378 0.80 -1.7
458,694 + PP_0378 0.89 -4.1
458,694 + PP_0378 0.89 -0.7
458,695 - PP_0378 0.89 -1.2
458,712 + -3.1
458,712 + +1.0
458,712 + +0.5
458,713 - -0.4
458,713 - +0.5
458,713 - +1.2
458,715 + -0.3
458,716 - +0.2
458,795 - +0.3
458,804 - +0.3
458,804 - -3.8
458,940 + -0.8
458,944 + +0.6
458,944 + -3.2
458,945 - -1.5

Or see this region's nucleotide sequence