Strain Fitness in Pseudomonas putida KT2440 around PP_5120

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_5118 and PP_5119 are separated by 35 nucleotidesPP_5119 and PP_5120 are separated by 150 nucleotidesPP_5120 and PP_5121 are separated by 10 nucleotidesPP_5121 and PP_5122 are separated by 20 nucleotides PP_5118: PP_5118 - putative 3-mercaptopyruvate sulfurtransferase, at 5,839,726 to 5,840,580 _5118 PP_5119: PP_5119 - Transcriptional regulator, TetR family, at 5,840,616 to 5,841,281 _5119 PP_5120: PP_5120 - coniferyl aldehyde dehydrogenase, at 5,841,432 to 5,842,862 _5120 PP_5121: PP_5121 - conserved exported protein of unknown function, at 5,842,873 to 5,843,358 _5121 PP_5122: PP_5122 - Oxidoreductase, GMC family, at 5,843,379 to 5,844,977 _5122 Position (kb) 5841 5842 5843Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 5840.448 kb on + strand, within PP_5118at 5840.449 kb on - strand, within PP_5118at 5840.462 kb on + strand, within PP_5118at 5840.462 kb on + strand, within PP_5118at 5840.463 kb on - strand, within PP_5118at 5840.463 kb on - strand, within PP_5118at 5840.478 kb on - strand, within PP_5118at 5840.478 kb on - strand, within PP_5118at 5840.643 kb on + strandat 5840.644 kb on - strandat 5840.649 kb on + strandat 5840.670 kb on + strandat 5840.671 kb on - strandat 5840.671 kb on - strandat 5840.679 kb on - strandat 5840.726 kb on - strand, within PP_5119at 5840.793 kb on + strand, within PP_5119at 5840.888 kb on - strand, within PP_5119at 5840.995 kb on + strand, within PP_5119at 5841.100 kb on + strand, within PP_5119at 5841.101 kb on - strand, within PP_5119at 5841.101 kb on - strand, within PP_5119at 5841.148 kb on + strand, within PP_5119at 5841.148 kb on + strand, within PP_5119at 5841.149 kb on - strand, within PP_5119at 5841.149 kb on - strand, within PP_5119at 5841.149 kb on - strand, within PP_5119at 5841.151 kb on + strand, within PP_5119at 5841.152 kb on - strandat 5841.152 kb on - strand, within PP_5119at 5841.198 kb on - strand, within PP_5119at 5841.198 kb on - strand, within PP_5119at 5841.323 kb on - strandat 5841.330 kb on - strandat 5841.332 kb on + strandat 5841.332 kb on + strandat 5841.332 kb on + strandat 5841.332 kb on + strandat 5841.387 kb on + strandat 5841.387 kb on + strandat 5841.392 kb on + strandat 5841.395 kb on - strandat 5841.774 kb on + strand, within PP_5120at 5841.775 kb on - strand, within PP_5120at 5841.817 kb on - strand, within PP_5120at 5841.817 kb on - strand, within PP_5120at 5841.888 kb on - strand, within PP_5120at 5842.121 kb on + strand, within PP_5120at 5842.215 kb on + strand, within PP_5120at 5842.215 kb on + strand, within PP_5120at 5842.215 kb on + strand, within PP_5120at 5842.215 kb on + strand, within PP_5120at 5842.216 kb on - strand, within PP_5120at 5842.216 kb on - strand, within PP_5120at 5842.216 kb on - strand, within PP_5120at 5842.216 kb on - strand, within PP_5120at 5842.219 kb on + strand, within PP_5120at 5842.220 kb on - strand, within PP_5120at 5842.220 kb on - strand, within PP_5120at 5842.220 kb on - strand, within PP_5120at 5842.260 kb on + strand, within PP_5120at 5842.261 kb on - strand, within PP_5120at 5842.391 kb on - strand, within PP_5120at 5842.391 kb on - strand, within PP_5120at 5842.401 kb on + strand, within PP_5120at 5842.402 kb on - strand, within PP_5120at 5842.501 kb on + strand, within PP_5120at 5842.510 kb on + strand, within PP_5120at 5842.518 kb on + strand, within PP_5120at 5842.519 kb on - strandat 5842.519 kb on - strand, within PP_5120at 5842.579 kb on - strand, within PP_5120at 5842.655 kb on + strand, within PP_5120at 5842.722 kb on + strandat 5842.722 kb on + strandat 5842.723 kb on - strandat 5843.255 kb on + strand, within PP_5121at 5843.255 kb on + strand, within PP_5121at 5843.256 kb on - strand, within PP_5121at 5843.256 kb on - strand, within PP_5121at 5843.302 kb on + strand, within PP_5121at 5843.302 kb on + strand, within PP_5121at 5843.545 kb on + strand, within PP_5122at 5843.611 kb on - strand, within PP_5122at 5843.623 kb on - strand, within PP_5122at 5843.663 kb on + strand, within PP_5122at 5843.664 kb on - strand, within PP_5122at 5843.664 kb on - strand, within PP_5122

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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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5,840,448 + PP_5118 0.84 -2.8
5,840,449 - PP_5118 0.85 +1.0
5,840,462 + PP_5118 0.86 +2.6
5,840,462 + PP_5118 0.86 -0.7
5,840,463 - PP_5118 0.86 +0.8
5,840,463 - PP_5118 0.86 +0.6
5,840,478 - PP_5118 0.88 +1.4
5,840,478 - PP_5118 0.88 -1.4
5,840,643 + -1.6
5,840,644 - -0.1
5,840,649 + -0.5
5,840,670 + +0.6
5,840,671 - +0.7
5,840,671 - -1.2
5,840,679 - -2.9
5,840,726 - PP_5119 0.17 +0.5
5,840,793 + PP_5119 0.27 -0.0
5,840,888 - PP_5119 0.41 -0.2
5,840,995 + PP_5119 0.57 +0.3
5,841,100 + PP_5119 0.73 +2.1
5,841,101 - PP_5119 0.73 -3.2
5,841,101 - PP_5119 0.73 +1.3
5,841,148 + PP_5119 0.80 -1.2
5,841,148 + PP_5119 0.80 -0.5
5,841,149 - PP_5119 0.80 -1.0
5,841,149 - PP_5119 0.80 +1.0
5,841,149 - PP_5119 0.80 +0.8
5,841,151 + PP_5119 0.80 +2.8
5,841,152 - +1.8
5,841,152 - PP_5119 0.80 +0.2
5,841,198 - PP_5119 0.87 -0.0
5,841,198 - PP_5119 0.87 -1.0
5,841,323 - -1.1
5,841,330 - +2.4
5,841,332 + +1.1
5,841,332 + +0.9
5,841,332 + +0.1
5,841,332 + +2.8
5,841,387 + +1.1
5,841,387 + -0.9
5,841,392 + -0.4
5,841,395 - -0.6
5,841,774 + PP_5120 0.24 -1.6
5,841,775 - PP_5120 0.24 -2.2
5,841,817 - PP_5120 0.27 +1.7
5,841,817 - PP_5120 0.27 -1.8
5,841,888 - PP_5120 0.32 -0.6
5,842,121 + PP_5120 0.48 -0.6
5,842,215 + PP_5120 0.55 +0.2
5,842,215 + PP_5120 0.55 -0.2
5,842,215 + PP_5120 0.55 -1.4
5,842,215 + PP_5120 0.55 +0.4
5,842,216 - PP_5120 0.55 -0.3
5,842,216 - PP_5120 0.55 -2.3
5,842,216 - PP_5120 0.55 -2.0
5,842,216 - PP_5120 0.55 -0.4
5,842,219 + PP_5120 0.55 -0.2
5,842,220 - PP_5120 0.55 -1.7
5,842,220 - PP_5120 0.55 +1.5
5,842,220 - PP_5120 0.55 +1.4
5,842,260 + PP_5120 0.58 -2.6
5,842,261 - PP_5120 0.58 +1.2
5,842,391 - PP_5120 0.67 -1.9
5,842,391 - PP_5120 0.67 -0.1
5,842,401 + PP_5120 0.68 +1.2
5,842,402 - PP_5120 0.68 -2.4
5,842,501 + PP_5120 0.75 -1.0
5,842,510 + PP_5120 0.75 -0.8
5,842,518 + PP_5120 0.76 -0.3
5,842,519 - +0.1
5,842,519 - PP_5120 0.76 -1.4
5,842,579 - PP_5120 0.80 -1.8
5,842,655 + PP_5120 0.85 +1.4
5,842,722 + +0.0
5,842,722 + +1.7
5,842,723 - +0.1
5,843,255 + PP_5121 0.79 -0.8
5,843,255 + PP_5121 0.79 -0.6
5,843,256 - PP_5121 0.79 +1.4
5,843,256 - PP_5121 0.79 -0.6
5,843,302 + PP_5121 0.88 +1.6
5,843,302 + PP_5121 0.88 +0.9
5,843,545 + PP_5122 0.10 +1.0
5,843,611 - PP_5122 0.15 +1.1
5,843,623 - PP_5122 0.15 +1.6
5,843,663 + PP_5122 0.18 +0.9
5,843,664 - PP_5122 0.18 -0.9
5,843,664 - PP_5122 0.18 +1.8

Or see this region's nucleotide sequence