Strain Fitness in Pseudomonas putida KT2440 around PP_0486

Experiment: Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days

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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_0484 and PP_0485 are separated by 9 nucleotidesPP_0485 and PP_0486 are separated by 90 nucleotidesPP_0486 and PP_0487 are separated by 146 nucleotidesPP_0487 and PP_0488 are separated by 21 nucleotides PP_0484: PP_0484 - transporter of an unknown substrate, at 569,625 to 571,019 _0484 PP_0485: PP_0485 - Single-stranded DNA-binding protein, at 571,029 to 571,574 _0485 PP_0486: PP_0486 - Transcriptional regulator, GntR family, at 571,665 to 573,089 _0486 PP_0487: PP_0487 - conserved membrane protein of unknown function, at 573,236 to 574,033 _0487 PP_0488: PP_0488 - putative NADP-dependent dehydrogenase HI_1430, at 574,055 to 574,816 _0488 Position (kb) 571 572 573 574Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 570.773 kb on + strand, within PP_0484at 570.813 kb on + strand, within PP_0484at 570.813 kb on + strand, within PP_0484at 570.813 kb on + strand, within PP_0484at 570.936 kb on + strandat 570.936 kb on + strandat 570.938 kb on + strandat 571.669 kb on + strandat 571.890 kb on - strand, within PP_0486at 571.890 kb on - strand, within PP_0486at 571.890 kb on - strand, within PP_0486at 571.921 kb on + strand, within PP_0486at 571.922 kb on - strand, within PP_0486at 571.979 kb on + strand, within PP_0486at 572.068 kb on - strand, within PP_0486at 572.068 kb on - strand, within PP_0486at 572.080 kb on - strand, within PP_0486at 572.107 kb on + strand, within PP_0486at 572.161 kb on + strand, within PP_0486at 572.161 kb on + strand, within PP_0486at 572.161 kb on + strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.162 kb on - strand, within PP_0486at 572.163 kb on + strand, within PP_0486at 572.163 kb on + strand, within PP_0486at 572.163 kb on + strand, within PP_0486at 572.164 kb on - strand, within PP_0486at 572.164 kb on - strand, within PP_0486at 572.182 kb on + strand, within PP_0486at 572.182 kb on + strand, within PP_0486at 572.200 kb on + strand, within PP_0486at 572.200 kb on + strand, within PP_0486at 572.227 kb on + strand, within PP_0486at 572.227 kb on + strand, within PP_0486at 572.231 kb on + strand, within PP_0486at 572.231 kb on + strand, within PP_0486at 572.231 kb on + strand, within PP_0486at 572.232 kb on - strand, within PP_0486at 572.232 kb on - strand, within PP_0486at 572.232 kb on - strand, within PP_0486at 572.232 kb on - strand, within PP_0486at 572.454 kb on + strand, within PP_0486at 572.455 kb on - strand, within PP_0486at 572.455 kb on - strand, within PP_0486at 572.455 kb on - strand, within PP_0486at 572.556 kb on + strand, within PP_0486at 572.556 kb on + strand, within PP_0486at 572.556 kb on + strand, within PP_0486at 572.557 kb on - strand, within PP_0486at 572.559 kb on + strand, within PP_0486at 572.559 kb on + strand, within PP_0486at 572.560 kb on - strand, within PP_0486at 572.560 kb on - strand, within PP_0486at 572.595 kb on + strand, within PP_0486at 572.647 kb on + strand, within PP_0486at 572.648 kb on - strand, within PP_0486at 572.648 kb on - strand, within PP_0486at 572.800 kb on - strand, within PP_0486at 572.878 kb on + strand, within PP_0486at 572.905 kb on - strand, within PP_0486at 573.031 kb on + strandat 573.031 kb on + strandat 573.032 kb on - strandat 573.084 kb on + strandat 573.085 kb on - strandat 573.107 kb on + strandat 573.108 kb on - strandat 573.108 kb on - strandat 573.108 kb on - strandat 573.108 kb on - strandat 573.116 kb on + strandat 573.117 kb on - strandat 573.140 kb on + strandat 573.145 kb on + strandat 573.173 kb on + strandat 573.223 kb on - strandat 573.223 kb on - strandat 573.223 kb on - strandat 573.248 kb on - strandat 573.267 kb on - strandat 573.267 kb on - strandat 573.267 kb on - strandat 573.300 kb on + strandat 573.300 kb on + strandat 573.301 kb on - strandat 573.301 kb on - strandat 573.301 kb on - strandat 573.495 kb on + strand, within PP_0487at 573.495 kb on + strand, within PP_0487at 573.496 kb on - strand, within PP_0487at 573.526 kb on - strand, within PP_0487at 573.533 kb on + strand, within PP_0487at 573.534 kb on - strand, within PP_0487at 573.610 kb on + strand, within PP_0487at 573.716 kb on + strand, within PP_0487at 573.716 kb on + strand, within PP_0487at 573.717 kb on - strand, within PP_0487at 573.717 kb on - strand, within PP_0487at 573.717 kb on - strand, within PP_0487at 573.717 kb on - strand, within PP_0487at 573.770 kb on + strand, within PP_0487at 573.770 kb on + strand, within PP_0487at 573.878 kb on + strand, within PP_0487at 573.878 kb on + strand, within PP_0487at 573.878 kb on + strand, within PP_0487at 573.879 kb on - strand, within PP_0487at 574.043 kb on - strandat 574.043 kb on - strandat 574.043 kb on - strandat 574.071 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=None; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16h_outgrowth_LB; Time=7_days
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570,773 + PP_0484 0.82 -1.7
570,813 + PP_0484 0.85 +0.3
570,813 + PP_0484 0.85 -0.7
570,813 + PP_0484 0.85 +1.4
570,936 + -0.2
570,936 + +1.0
570,938 + -0.3
571,669 + +0.3
571,890 - PP_0486 0.16 -1.1
571,890 - PP_0486 0.16 -0.1
571,890 - PP_0486 0.16 -1.3
571,921 + PP_0486 0.18 -0.3
571,922 - PP_0486 0.18 -0.9
571,979 + PP_0486 0.22 -0.8
572,068 - PP_0486 0.28 -0.8
572,068 - PP_0486 0.28 +0.0
572,080 - PP_0486 0.29 +0.3
572,107 + PP_0486 0.31 -0.4
572,161 + PP_0486 0.35 -1.1
572,161 + PP_0486 0.35 -1.6
572,161 + PP_0486 0.35 +0.6
572,162 - PP_0486 0.35 +1.4
572,162 - PP_0486 0.35 -0.5
572,162 - PP_0486 0.35 -0.8
572,162 - PP_0486 0.35 -0.1
572,162 - PP_0486 0.35 -1.8
572,162 - PP_0486 0.35 +1.2
572,163 + PP_0486 0.35 -2.4
572,163 + PP_0486 0.35 -0.3
572,163 + PP_0486 0.35 -0.1
572,164 - PP_0486 0.35 +0.8
572,164 - PP_0486 0.35 +1.4
572,182 + PP_0486 0.36 +1.0
572,182 + PP_0486 0.36 +0.0
572,200 + PP_0486 0.38 -1.6
572,200 + PP_0486 0.38 -1.5
572,227 + PP_0486 0.39 +1.0
572,227 + PP_0486 0.39 +1.2
572,231 + PP_0486 0.40 -0.9
572,231 + PP_0486 0.40 +2.0
572,231 + PP_0486 0.40 +0.6
572,232 - PP_0486 0.40 -1.7
572,232 - PP_0486 0.40 -1.1
572,232 - PP_0486 0.40 +0.4
572,232 - PP_0486 0.40 -0.3
572,454 + PP_0486 0.55 +0.2
572,455 - PP_0486 0.55 -1.1
572,455 - PP_0486 0.55 -0.7
572,455 - PP_0486 0.55 -0.7
572,556 + PP_0486 0.63 -0.5
572,556 + PP_0486 0.63 +0.6
572,556 + PP_0486 0.63 -0.1
572,557 - PP_0486 0.63 -1.5
572,559 + PP_0486 0.63 +0.7
572,559 + PP_0486 0.63 -0.5
572,560 - PP_0486 0.63 -1.4
572,560 - PP_0486 0.63 -0.9
572,595 + PP_0486 0.65 -0.3
572,647 + PP_0486 0.69 +1.3
572,648 - PP_0486 0.69 +1.6
572,648 - PP_0486 0.69 -0.9
572,800 - PP_0486 0.80 -1.7
572,878 + PP_0486 0.85 +0.6
572,905 - PP_0486 0.87 -0.7
573,031 + -0.2
573,031 + -1.0
573,032 - +1.1
573,084 + -1.0
573,085 - -0.1
573,107 + -0.6
573,108 - -0.6
573,108 - -0.5
573,108 - -1.2
573,108 - +2.6
573,116 + -1.6
573,117 - -1.4
573,140 + +1.6
573,145 + +1.7
573,173 + -0.2
573,223 - +1.7
573,223 - -0.1
573,223 - -1.2
573,248 - +1.0
573,267 - -0.9
573,267 - +1.0
573,267 - -2.0
573,300 + -3.2
573,300 + +0.3
573,301 - +0.8
573,301 - -0.3
573,301 - -0.2
573,495 + PP_0487 0.32 +0.2
573,495 + PP_0487 0.32 -2.7
573,496 - PP_0487 0.33 +1.6
573,526 - PP_0487 0.36 +0.9
573,533 + PP_0487 0.37 +0.5
573,534 - PP_0487 0.37 +0.0
573,610 + PP_0487 0.47 +1.4
573,716 + PP_0487 0.60 +0.5
573,716 + PP_0487 0.60 -0.3
573,717 - PP_0487 0.60 -1.4
573,717 - PP_0487 0.60 +0.5
573,717 - PP_0487 0.60 +0.9
573,717 - PP_0487 0.60 +1.1
573,770 + PP_0487 0.67 +1.2
573,770 + PP_0487 0.67 +3.0
573,878 + PP_0487 0.80 -0.7
573,878 + PP_0487 0.80 -1.8
573,878 + PP_0487 0.80 -0.1
573,879 - PP_0487 0.81 -1.1
574,043 - +0.7
574,043 - +1.8
574,043 - -0.5
574,071 + -0.7

Or see this region's nucleotide sequence