Strain Fitness in Pseudomonas putida KT2440 around PP_4523

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_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_4522 and PP_4523 are separated by 212 nucleotidesPP_4523 and PP_4524 are separated by 132 nucleotides PP_4522: PP_4522 - Transcriptional regulator, LysR family, at 5,136,708 to 5,137,601 _4522 PP_4523: PP_4523 - putative Agmatinase, at 5,137,814 to 5,138,776 _4523 PP_4524: PP_4524 - putative Sodium-solute symporter, at 5,138,909 to 5,140,288 _4524 Position (kb) 5137 5138 5139Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 5136.868 kb on + strand, within PP_4522at 5136.868 kb on + strand, within PP_4522at 5136.869 kb on - strand, within PP_4522at 5136.884 kb on - strand, within PP_4522at 5136.884 kb on - strand, within PP_4522at 5136.890 kb on + strand, within PP_4522at 5136.892 kb on + strand, within PP_4522at 5136.892 kb on + strand, within PP_4522at 5136.892 kb on + strand, within PP_4522at 5136.893 kb on - strand, within PP_4522at 5136.893 kb on - strand, within PP_4522at 5136.893 kb on - strand, within PP_4522at 5136.893 kb on - strand, within PP_4522at 5136.893 kb on - strand, within PP_4522at 5137.023 kb on + strand, within PP_4522at 5137.024 kb on - strand, within PP_4522at 5137.051 kb on + strand, within PP_4522at 5137.052 kb on - strand, within PP_4522at 5137.052 kb on - strand, within PP_4522at 5137.052 kb on - strand, within PP_4522at 5137.052 kb on - strand, within PP_4522at 5137.076 kb on - strand, within PP_4522at 5137.076 kb on - strand, within PP_4522at 5137.076 kb on - strand, within PP_4522at 5137.096 kb on + strand, within PP_4522at 5137.097 kb on - strand, within PP_4522at 5137.108 kb on + strand, within PP_4522at 5137.189 kb on + strand, within PP_4522at 5137.190 kb on - strand, within PP_4522at 5137.206 kb on + strand, within PP_4522at 5137.206 kb on + strand, within PP_4522at 5137.207 kb on - strand, within PP_4522at 5137.207 kb on - strand, within PP_4522at 5137.345 kb on + strand, within PP_4522at 5137.345 kb on + strand, within PP_4522at 5137.346 kb on - strand, within PP_4522at 5137.346 kb on - strand, within PP_4522at 5137.346 kb on - strand, within PP_4522at 5137.454 kb on + strand, within PP_4522at 5137.483 kb on + strand, within PP_4522at 5137.483 kb on + strand, within PP_4522at 5137.483 kb on + strand, within PP_4522at 5137.484 kb on - strand, within PP_4522at 5137.487 kb on + strand, within PP_4522at 5137.487 kb on + strand, within PP_4522at 5137.487 kb on + strand, within PP_4522at 5137.488 kb on - strand, within PP_4522at 5137.488 kb on - strand, within PP_4522at 5137.488 kb on - strand, within PP_4522at 5137.488 kb on - strand, within PP_4522at 5137.562 kb on - strandat 5137.623 kb on + strandat 5137.623 kb on + strandat 5137.624 kb on - strandat 5137.624 kb on - strandat 5137.624 kb on - strandat 5137.624 kb on - strandat 5137.624 kb on - strandat 5137.624 kb on - strandat 5137.638 kb on + strandat 5137.639 kb on - strandat 5137.639 kb on - strandat 5137.647 kb on + strandat 5137.677 kb on + strandat 5137.678 kb on - strandat 5137.678 kb on - strandat 5137.681 kb on + strandat 5137.682 kb on - strandat 5137.682 kb on - strandat 5137.960 kb on + strand, within PP_4523at 5137.975 kb on - strand, within PP_4523at 5137.975 kb on - strand, within PP_4523at 5137.975 kb on - strand, within PP_4523at 5138.036 kb on + strand, within PP_4523at 5138.037 kb on - strand, within PP_4523at 5138.150 kb on + strand, within PP_4523at 5138.151 kb on - strand, within PP_4523at 5138.263 kb on - strand, within PP_4523at 5138.402 kb on + strand, within PP_4523at 5138.402 kb on + strand, within PP_4523at 5138.402 kb on + strand, within PP_4523at 5138.532 kb on - strand, within PP_4523at 5138.532 kb on - strand, within PP_4523at 5138.532 kb on - strandat 5138.532 kb on - strand, within PP_4523at 5138.532 kb on - strand, within PP_4523at 5138.690 kb on + strandat 5138.777 kb on + strandat 5138.777 kb on + strandat 5138.886 kb on + strandat 5138.887 kb on - strandat 5138.887 kb on - strandat 5138.887 kb on - strandat 5138.931 kb on + strandat 5138.931 kb on + strandat 5138.931 kb on + strandat 5138.931 kb on + strandat 5138.932 kb on - strandat 5138.932 kb on - strandat 5138.932 kb on - strandat 5138.940 kb on - strandat 5138.940 kb on - strandat 5138.940 kb on - strandat 5138.955 kb on + strandat 5138.956 kb on - strandat 5139.002 kb on + strandat 5139.002 kb on + strandat 5139.002 kb on + strandat 5139.003 kb on - strandat 5139.003 kb on - strandat 5139.039 kb on - strandat 5139.039 kb on - strandat 5139.039 kb on - strandat 5139.039 kb on - strandat 5139.064 kb on - strand, within PP_4524at 5139.104 kb on + strand, within PP_4524at 5139.104 kb on + strand, within PP_4524at 5139.104 kb on + strand, within PP_4524at 5139.105 kb on - strand, within PP_4524at 5139.223 kb on - strand, within PP_4524at 5139.236 kb on + strand, within PP_4524at 5139.236 kb on + strand, within PP_4524at 5139.236 kb on + strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.237 kb on - strand, within PP_4524at 5139.281 kb on + strand, within PP_4524at 5139.281 kb on + strand, within PP_4524at 5139.281 kb on + strand, within PP_4524at 5139.387 kb on + strand, within PP_4524at 5139.388 kb on - strand, within PP_4524at 5139.395 kb on + strand, within PP_4524at 5139.497 kb on + strand, within PP_4524at 5139.498 kb on - strand, within PP_4524at 5139.559 kb on + strand, within PP_4524at 5139.559 kb on + strand, within PP_4524at 5139.587 kb on + strand, within PP_4524at 5139.588 kb on - strand, within PP_4524at 5139.588 kb on - strand, within PP_4524at 5139.588 kb on - strand, within PP_4524at 5139.588 kb on - strand, within PP_4524at 5139.588 kb on - strand, within PP_4524at 5139.599 kb on + strand, within PP_4524at 5139.599 kb on + strand, within PP_4524at 5139.599 kb on + strand, within PP_4524at 5139.698 kb on + strand, within PP_4524at 5139.698 kb on + strand, within PP_4524at 5139.698 kb on + strand, within PP_4524at 5139.698 kb on + strand, within PP_4524at 5139.699 kb on - strand, within PP_4524at 5139.699 kb on - strand, within PP_4524at 5139.710 kb on + strand, within PP_4524at 5139.710 kb on + strand, within PP_4524at 5139.710 kb on + strand, within PP_4524

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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=72_hrs
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5,136,868 + PP_4522 0.18 -0.1
5,136,868 + PP_4522 0.18 +1.1
5,136,869 - PP_4522 0.18 -0.7
5,136,884 - PP_4522 0.20 +0.1
5,136,884 - PP_4522 0.20 +0.2
5,136,890 + PP_4522 0.20 -3.2
5,136,892 + PP_4522 0.21 +0.6
5,136,892 + PP_4522 0.21 -2.7
5,136,892 + PP_4522 0.21 -0.8
5,136,893 - PP_4522 0.21 -0.1
5,136,893 - PP_4522 0.21 -0.8
5,136,893 - PP_4522 0.21 +1.0
5,136,893 - PP_4522 0.21 +1.2
5,136,893 - PP_4522 0.21 -0.0
5,137,023 + PP_4522 0.35 -0.8
5,137,024 - PP_4522 0.35 +1.9
5,137,051 + PP_4522 0.38 +1.0
5,137,052 - PP_4522 0.38 -1.1
5,137,052 - PP_4522 0.38 -0.3
5,137,052 - PP_4522 0.38 +0.6
5,137,052 - PP_4522 0.38 -3.2
5,137,076 - PP_4522 0.41 +1.9
5,137,076 - PP_4522 0.41 -2.9
5,137,076 - PP_4522 0.41 +0.1
5,137,096 + PP_4522 0.43 -0.5
5,137,097 - PP_4522 0.44 +1.0
5,137,108 + PP_4522 0.45 +0.7
5,137,189 + PP_4522 0.54 -0.3
5,137,190 - PP_4522 0.54 -0.4
5,137,206 + PP_4522 0.56 -0.5
5,137,206 + PP_4522 0.56 -3.9
5,137,207 - PP_4522 0.56 -0.6
5,137,207 - PP_4522 0.56 -1.0
5,137,345 + PP_4522 0.71 -0.9
5,137,345 + PP_4522 0.71 +0.2
5,137,346 - PP_4522 0.71 +0.6
5,137,346 - PP_4522 0.71 +0.5
5,137,346 - PP_4522 0.71 +0.3
5,137,454 + PP_4522 0.83 +1.0
5,137,483 + PP_4522 0.87 +1.5
5,137,483 + PP_4522 0.87 +0.2
5,137,483 + PP_4522 0.87 -1.3
5,137,484 - PP_4522 0.87 +0.2
5,137,487 + PP_4522 0.87 +0.2
5,137,487 + PP_4522 0.87 +0.9
5,137,487 + PP_4522 0.87 -0.0
5,137,488 - PP_4522 0.87 +1.1
5,137,488 - PP_4522 0.87 -2.0
5,137,488 - PP_4522 0.87 -1.0
5,137,488 - PP_4522 0.87 +0.4
5,137,562 - -1.0
5,137,623 + -1.8
5,137,623 + -1.6
5,137,624 - +0.9
5,137,624 - +0.1
5,137,624 - -0.1
5,137,624 - -1.4
5,137,624 - +0.3
5,137,624 - -0.4
5,137,638 + -0.2
5,137,639 - +1.1
5,137,639 - -0.4
5,137,647 + +1.6
5,137,677 + +1.5
5,137,678 - -2.4
5,137,678 - -1.6
5,137,681 + -2.5
5,137,682 - +1.7
5,137,682 - +0.2
5,137,960 + PP_4523 0.15 -0.9
5,137,975 - PP_4523 0.17 -2.6
5,137,975 - PP_4523 0.17 +0.3
5,137,975 - PP_4523 0.17 +1.1
5,138,036 + PP_4523 0.23 -2.6
5,138,037 - PP_4523 0.23 -1.6
5,138,150 + PP_4523 0.35 +0.0
5,138,151 - PP_4523 0.35 -4.6
5,138,263 - PP_4523 0.47 +1.0
5,138,402 + PP_4523 0.61 -0.6
5,138,402 + PP_4523 0.61 -3.9
5,138,402 + PP_4523 0.61 +0.8
5,138,532 - PP_4523 0.75 -1.7
5,138,532 - PP_4523 0.75 -1.3
5,138,532 - +1.2
5,138,532 - PP_4523 0.75 +0.3
5,138,532 - PP_4523 0.75 +0.3
5,138,690 + -2.7
5,138,777 + -0.0
5,138,777 + +0.4
5,138,886 + +0.2
5,138,887 - -0.5
5,138,887 - +0.8
5,138,887 - +0.6
5,138,931 + +0.2
5,138,931 + +0.8
5,138,931 + +0.8
5,138,931 + +0.5
5,138,932 - -3.1
5,138,932 - +0.1
5,138,932 - +0.9
5,138,940 - +0.4
5,138,940 - -1.3
5,138,940 - -0.3
5,138,955 + -3.6
5,138,956 - -3.9
5,139,002 + +0.4
5,139,002 + -4.3
5,139,002 + +0.0
5,139,003 - -0.1
5,139,003 - -1.8
5,139,039 - +0.2
5,139,039 - -0.5
5,139,039 - -0.5
5,139,039 - +0.2
5,139,064 - PP_4524 0.11 +0.6
5,139,104 + PP_4524 0.14 +1.5
5,139,104 + PP_4524 0.14 -0.0
5,139,104 + PP_4524 0.14 -0.1
5,139,105 - PP_4524 0.14 +0.6
5,139,223 - PP_4524 0.23 +0.4
5,139,236 + PP_4524 0.24 +0.7
5,139,236 + PP_4524 0.24 +0.5
5,139,236 + PP_4524 0.24 -2.5
5,139,237 - PP_4524 0.24 +0.3
5,139,237 - PP_4524 0.24 -0.5
5,139,237 - PP_4524 0.24 -3.7
5,139,237 - PP_4524 0.24 -1.2
5,139,237 - PP_4524 0.24 -0.3
5,139,237 - PP_4524 0.24 +1.1
5,139,237 - PP_4524 0.24 -0.2
5,139,281 + PP_4524 0.27 -1.8
5,139,281 + PP_4524 0.27 +0.4
5,139,281 + PP_4524 0.27 -1.5
5,139,387 + PP_4524 0.35 -2.8
5,139,388 - PP_4524 0.35 +0.1
5,139,395 + PP_4524 0.35 -1.2
5,139,497 + PP_4524 0.43 +1.2
5,139,498 - PP_4524 0.43 +0.9
5,139,559 + PP_4524 0.47 +1.0
5,139,559 + PP_4524 0.47 +0.2
5,139,587 + PP_4524 0.49 +1.8
5,139,588 - PP_4524 0.49 +1.6
5,139,588 - PP_4524 0.49 +0.3
5,139,588 - PP_4524 0.49 +1.1
5,139,588 - PP_4524 0.49 +0.7
5,139,588 - PP_4524 0.49 +0.9
5,139,599 + PP_4524 0.50 -3.1
5,139,599 + PP_4524 0.50 +0.7
5,139,599 + PP_4524 0.50 +1.4
5,139,698 + PP_4524 0.57 -1.5
5,139,698 + PP_4524 0.57 +0.4
5,139,698 + PP_4524 0.57 -0.6
5,139,698 + PP_4524 0.57 -0.0
5,139,699 - PP_4524 0.57 +0.9
5,139,699 - PP_4524 0.57 +0.8
5,139,710 + PP_4524 0.58 +0.5
5,139,710 + PP_4524 0.58 -1.1
5,139,710 + PP_4524 0.58 -0.4

Or see this region's nucleotide sequence