Strain Fitness in Pseudomonas putida KT2440 around PP_0584

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_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_0582 and PP_0583 are separated by 89 nucleotidesPP_0583 and PP_0584 are separated by 68 nucleotidesPP_0584 and PP_0585 are separated by 167 nucleotidesPP_0585 and PP_0586 overlap by 4 nucleotides PP_0582: PP_0582 - Thiolase family protein, at 679,114 to 680,391 _0582 PP_0583: PP_0583 - Transcriptional regulator, AraC family, at 680,481 to 681,260 _0583 PP_0584: PP_0584 - Methyl-accepting chemotaxis transducer, at 681,329 to 683,272 _0584 PP_0585: PP_0585 - putative metal-sensitive transcriptional regulator, MerR family, at 683,440 to 683,850 _0585 PP_0586: PP_0586 - cadmium translocating P-type ATPase, at 683,847 to 686,246 _0586 Position (kb) 681 682 683 684Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3 4at 680.394 kb on + strandat 680.395 kb on - strandat 680.447 kb on + strandat 680.447 kb on + strandat 680.448 kb on - strandat 680.467 kb on + strandat 680.541 kb on + strandat 680.614 kb on - strand, within PP_0583at 680.629 kb on + strand, within PP_0583at 680.630 kb on - strand, within PP_0583at 680.640 kb on + strand, within PP_0583at 680.641 kb on - strand, within PP_0583at 680.641 kb on - strand, within PP_0583at 680.641 kb on - strand, within PP_0583at 680.641 kb on - strand, within PP_0583at 680.641 kb on - strand, within PP_0583at 680.658 kb on + strand, within PP_0583at 680.659 kb on - strand, within PP_0583at 681.186 kb on + strandat 681.186 kb on + strandat 681.187 kb on - strandat 681.205 kb on - strandat 681.205 kb on - strandat 681.226 kb on + strandat 681.227 kb on - strandat 681.227 kb on - strandat 681.227 kb on - strandat 681.356 kb on - strandat 681.697 kb on + strand, within PP_0584at 681.697 kb on + strand, within PP_0584at 681.924 kb on - strand, within PP_0584at 682.474 kb on - strand, within PP_0584at 682.488 kb on + strand, within PP_0584at 682.488 kb on + strand, within PP_0584at 682.488 kb on + strand, within PP_0584at 682.488 kb on + strand, within PP_0584at 682.488 kb on + strand, within PP_0584at 682.489 kb on - strand, within PP_0584at 682.489 kb on - strand, within PP_0584at 682.489 kb on - strand, within PP_0584at 682.489 kb on - strand, within PP_0584at 682.489 kb on - strand, within PP_0584at 682.788 kb on + strand, within PP_0584at 682.788 kb on + strand, within PP_0584at 682.791 kb on + strand, within PP_0584at 682.792 kb on - strand, within PP_0584at 682.863 kb on + strand, within PP_0584at 682.864 kb on - strand, within PP_0584at 682.929 kb on + strand, within PP_0584at 682.929 kb on + strand, within PP_0584at 682.935 kb on + strand, within PP_0584at 682.936 kb on - strand, within PP_0584at 683.005 kb on - strand, within PP_0584at 683.005 kb on - strand, within PP_0584at 683.025 kb on + strand, within PP_0584at 683.025 kb on + strand, within PP_0584at 683.025 kb on + strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.026 kb on - strand, within PP_0584at 683.076 kb on + strand, within PP_0584at 683.076 kb on + strand, within PP_0584at 683.076 kb on + strand, within PP_0584at 683.076 kb on + strandat 683.313 kb on + strandat 683.313 kb on + strandat 683.313 kb on + strandat 683.314 kb on - strandat 683.314 kb on - strandat 683.343 kb on - strandat 683.343 kb on - strandat 683.362 kb on - strandat 683.365 kb on + strandat 683.413 kb on + strandat 683.413 kb on + strandat 683.455 kb on - strandat 683.735 kb on + strand, within PP_0585at 683.736 kb on - strand, within PP_0585at 683.792 kb on + strand, within PP_0585at 683.998 kb on + strandat 683.998 kb on + strandat 683.999 kb on - strandat 683.999 kb on - strandat 683.999 kb on - strandat 684.038 kb on - strandat 684.186 kb on - strand, within PP_0586

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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=none; SoilTreatmentTime=144_hrs
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680,394 + +1.5
680,395 - +0.9
680,447 + +0.6
680,447 + +1.1
680,448 - -1.8
680,467 + -1.4
680,541 + -0.9
680,614 - PP_0583 0.17 -2.8
680,629 + PP_0583 0.19 +0.4
680,630 - PP_0583 0.19 -0.3
680,640 + PP_0583 0.20 -1.7
680,641 - PP_0583 0.21 -2.0
680,641 - PP_0583 0.21 +0.8
680,641 - PP_0583 0.21 -1.3
680,641 - PP_0583 0.21 +0.1
680,641 - PP_0583 0.21 +0.2
680,658 + PP_0583 0.23 -1.5
680,659 - PP_0583 0.23 -2.7
681,186 + -2.8
681,186 + +1.9
681,187 - +1.0
681,205 - +1.5
681,205 - +0.1
681,226 + -2.1
681,227 - -0.0
681,227 - +0.3
681,227 - +0.6
681,356 - +2.2
681,697 + PP_0584 0.19 +1.0
681,697 + PP_0584 0.19 +2.5
681,924 - PP_0584 0.31 +0.2
682,474 - PP_0584 0.59 +2.3
682,488 + PP_0584 0.60 -0.4
682,488 + PP_0584 0.60 +1.5
682,488 + PP_0584 0.60 -0.4
682,488 + PP_0584 0.60 -3.1
682,488 + PP_0584 0.60 -0.6
682,489 - PP_0584 0.60 +1.3
682,489 - PP_0584 0.60 -0.5
682,489 - PP_0584 0.60 +1.8
682,489 - PP_0584 0.60 +1.5
682,489 - PP_0584 0.60 +0.0
682,788 + PP_0584 0.75 -0.9
682,788 + PP_0584 0.75 +0.8
682,791 + PP_0584 0.75 -2.2
682,792 - PP_0584 0.75 +4.6
682,863 + PP_0584 0.79 -0.5
682,864 - PP_0584 0.79 -2.3
682,929 + PP_0584 0.82 +0.1
682,929 + PP_0584 0.82 -3.2
682,935 + PP_0584 0.83 +0.5
682,936 - PP_0584 0.83 -1.2
683,005 - PP_0584 0.86 +1.1
683,005 - PP_0584 0.86 -0.2
683,025 + PP_0584 0.87 -0.0
683,025 + PP_0584 0.87 +0.3
683,025 + PP_0584 0.87 -1.1
683,026 - PP_0584 0.87 +1.8
683,026 - PP_0584 0.87 +1.5
683,026 - PP_0584 0.87 +0.7
683,026 - PP_0584 0.87 -0.7
683,026 - PP_0584 0.87 +1.9
683,026 - PP_0584 0.87 +0.6
683,076 + PP_0584 0.90 -0.5
683,076 + PP_0584 0.90 +0.9
683,076 + PP_0584 0.90 -0.4
683,076 + +0.7
683,313 + -3.0
683,313 + -1.1
683,313 + -0.2
683,314 - -0.0
683,314 - -2.4
683,343 - -1.6
683,343 - +0.8
683,362 - -0.9
683,365 + +2.0
683,413 + +0.3
683,413 + -1.4
683,455 - +0.9
683,735 + PP_0585 0.72 -1.2
683,736 - PP_0585 0.72 -3.2
683,792 + PP_0585 0.86 -0.4
683,998 + -3.2
683,998 + -1.0
683,999 - -4.0
683,999 - -1.4
683,999 - -4.9
684,038 - -2.6
684,186 - PP_0586 0.14 -1.0

Or see this region's nucleotide sequence