Strain Fitness in Pseudomonas simiae WCS417 around PS417_25125

Experiment: Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_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 ntPS417_25115 and PS417_25120 are separated by 66 nucleotidesPS417_25120 and PS417_25125 are separated by 56 nucleotidesPS417_25125 and PS417_25130 are separated by 85 nucleotidesPS417_25130 and PS417_25135 are separated by 424 nucleotides PS417_25115: PS417_25115 - lipopolysaccharide biosynthesis protein, at 5,445,303 to 5,447,519 _25115 PS417_25120: PS417_25120 - capsular biosynthesis protein, at 5,447,586 to 5,448,125 _25120 PS417_25125: PS417_25125 - hypothetical protein, at 5,448,182 to 5,449,336 _25125 PS417_25130: PS417_25130 - hypothetical protein, at 5,449,422 to 5,449,892 _25130 PS417_25135: PS417_25135 - hypothetical protein, at 5,450,317 to 5,450,556 _25135 Position (kb) 5448 5449 5450Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 5447.245 kb on + strand, within PS417_25115at 5447.414 kb on + strandat 5447.588 kb on - strandat 5447.685 kb on - strand, within PS417_25120at 5447.807 kb on - strand, within PS417_25120at 5447.839 kb on - strand, within PS417_25120at 5447.857 kb on + strand, within PS417_25120at 5448.054 kb on - strand, within PS417_25120at 5448.257 kb on + strandat 5448.261 kb on + strandat 5448.278 kb on - strandat 5448.295 kb on - strandat 5448.307 kb on + strand, within PS417_25125at 5448.379 kb on - strand, within PS417_25125at 5448.465 kb on + strand, within PS417_25125at 5448.465 kb on + strand, within PS417_25125at 5448.510 kb on + strand, within PS417_25125at 5448.613 kb on + strand, within PS417_25125at 5448.614 kb on - strand, within PS417_25125at 5448.696 kb on + strand, within PS417_25125at 5448.696 kb on + strand, within PS417_25125at 5448.696 kb on + strand, within PS417_25125at 5448.697 kb on - strand, within PS417_25125at 5448.753 kb on + strand, within PS417_25125at 5448.754 kb on - strand, within PS417_25125at 5448.754 kb on - strand, within PS417_25125at 5448.756 kb on + strand, within PS417_25125at 5448.756 kb on + strand, within PS417_25125at 5448.763 kb on + strand, within PS417_25125at 5448.763 kb on + strand, within PS417_25125at 5448.837 kb on + strand, within PS417_25125at 5448.837 kb on + strand, within PS417_25125at 5448.838 kb on - strand, within PS417_25125at 5448.838 kb on - strand, within PS417_25125at 5448.882 kb on + strand, within PS417_25125at 5448.882 kb on + strand, within PS417_25125at 5448.882 kb on + strand, within PS417_25125at 5448.882 kb on + strand, within PS417_25125at 5448.882 kb on + strand, within PS417_25125at 5448.883 kb on - strand, within PS417_25125at 5448.883 kb on - strand, within PS417_25125at 5448.883 kb on - strand, within PS417_25125at 5448.905 kb on - strand, within PS417_25125at 5449.073 kb on - strand, within PS417_25125at 5449.089 kb on + strand, within PS417_25125at 5449.111 kb on + strand, within PS417_25125at 5449.123 kb on + strand, within PS417_25125at 5449.204 kb on - strand, within PS417_25125at 5449.257 kb on - strandat 5449.257 kb on - strandat 5449.394 kb on + strandat 5449.394 kb on + strandat 5449.402 kb on + strandat 5449.402 kb on + strandat 5449.403 kb on - strandat 5449.412 kb on + strandat 5449.412 kb on + strandat 5449.413 kb on - strandat 5449.415 kb on + strandat 5449.415 kb on + strandat 5449.416 kb on - strandat 5449.561 kb on + strand, within PS417_25130at 5449.561 kb on + strand, within PS417_25130at 5449.623 kb on - strand, within PS417_25130at 5449.623 kb on - strand, within PS417_25130at 5449.623 kb on - strand, within PS417_25130at 5449.625 kb on + strand, within PS417_25130at 5449.625 kb on + strand, within PS417_25130at 5449.625 kb on + strand, within PS417_25130at 5449.626 kb on - strand, within PS417_25130at 5449.626 kb on - strand, within PS417_25130at 5449.626 kb on - strand, within PS417_25130at 5449.626 kb on - strand, within PS417_25130at 5449.639 kb on + strand, within PS417_25130at 5449.640 kb on - strand, within PS417_25130at 5449.806 kb on + strand, within PS417_25130at 5449.808 kb on + strand, within PS417_25130at 5449.809 kb on - strand, within PS417_25130at 5449.809 kb on - strand, within PS417_25130at 5449.809 kb on - strand, within PS417_25130at 5449.816 kb on + strand, within PS417_25130at 5449.816 kb on + strand, within PS417_25130at 5449.817 kb on - strand, within PS417_25130at 5449.859 kb on + strandat 5449.867 kb on - strandat 5449.960 kb on + strandat 5449.961 kb on - strandat 5449.970 kb on + strandat 5449.970 kb on + strandat 5449.970 kb on + strandat 5449.971 kb on - strandat 5449.984 kb on - strandat 5449.984 kb on - strandat 5450.039 kb on + strandat 5450.039 kb on + strandat 5450.040 kb on - strandat 5450.049 kb on + strandat 5450.050 kb on - strandat 5450.052 kb on + strandat 5450.053 kb on - strandat 5450.053 kb on - strandat 5450.086 kb on + strandat 5450.086 kb on + strandat 5450.087 kb on - strandat 5450.087 kb on - strandat 5450.087 kb on - strandat 5450.087 kb on - strandat 5450.087 kb on - strandat 5450.161 kb on - strandat 5450.162 kb on + strandat 5450.162 kb on + strandat 5450.162 kb on + strandat 5450.162 kb on + strandat 5450.163 kb on - strandat 5450.163 kb on - strandat 5450.163 kb on - strandat 5450.175 kb on + strandat 5450.181 kb on + strandat 5450.238 kb on + strandat 5450.238 kb on + strandat 5450.239 kb on - strandat 5450.239 kb on - strandat 5450.284 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=34_degrees_celsius; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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5,447,245 + PS417_25115 0.88 -1.5
5,447,414 + +0.4
5,447,588 - +0.2
5,447,685 - PS417_25120 0.18 -2.1
5,447,807 - PS417_25120 0.41 -2.0
5,447,839 - PS417_25120 0.47 -0.2
5,447,857 + PS417_25120 0.50 -0.6
5,448,054 - PS417_25120 0.87 -1.0
5,448,257 + -1.6
5,448,261 + -0.6
5,448,278 - -0.7
5,448,295 - -0.9
5,448,307 + PS417_25125 0.11 +0.7
5,448,379 - PS417_25125 0.17 -0.7
5,448,465 + PS417_25125 0.25 -0.2
5,448,465 + PS417_25125 0.25 +0.0
5,448,510 + PS417_25125 0.28 -0.9
5,448,613 + PS417_25125 0.37 -0.5
5,448,614 - PS417_25125 0.37 +0.9
5,448,696 + PS417_25125 0.45 +1.1
5,448,696 + PS417_25125 0.45 +0.2
5,448,696 + PS417_25125 0.45 -1.7
5,448,697 - PS417_25125 0.45 +0.4
5,448,753 + PS417_25125 0.49 +0.3
5,448,754 - PS417_25125 0.50 +2.1
5,448,754 - PS417_25125 0.50 -0.2
5,448,756 + PS417_25125 0.50 -0.1
5,448,756 + PS417_25125 0.50 -0.7
5,448,763 + PS417_25125 0.50 -0.0
5,448,763 + PS417_25125 0.50 -0.2
5,448,837 + PS417_25125 0.57 -0.1
5,448,837 + PS417_25125 0.57 +0.1
5,448,838 - PS417_25125 0.57 -2.5
5,448,838 - PS417_25125 0.57 -2.3
5,448,882 + PS417_25125 0.61 -1.8
5,448,882 + PS417_25125 0.61 +2.1
5,448,882 + PS417_25125 0.61 -1.8
5,448,882 + PS417_25125 0.61 +0.3
5,448,882 + PS417_25125 0.61 +0.9
5,448,883 - PS417_25125 0.61 -1.3
5,448,883 - PS417_25125 0.61 -1.0
5,448,883 - PS417_25125 0.61 +0.2
5,448,905 - PS417_25125 0.63 +0.0
5,449,073 - PS417_25125 0.77 +0.1
5,449,089 + PS417_25125 0.79 +0.7
5,449,111 + PS417_25125 0.80 -1.2
5,449,123 + PS417_25125 0.81 -0.6
5,449,204 - PS417_25125 0.88 -0.1
5,449,257 - -2.0
5,449,257 - +0.1
5,449,394 + +0.3
5,449,394 + +0.7
5,449,402 + +0.0
5,449,402 + +0.2
5,449,403 - -2.3
5,449,412 + +0.4
5,449,412 + -1.5
5,449,413 - -2.0
5,449,415 + +0.2
5,449,415 + +1.3
5,449,416 - +1.8
5,449,561 + PS417_25130 0.30 -1.0
5,449,561 + PS417_25130 0.30 -0.2
5,449,623 - PS417_25130 0.43 +0.0
5,449,623 - PS417_25130 0.43 +1.3
5,449,623 - PS417_25130 0.43 +1.9
5,449,625 + PS417_25130 0.43 +0.3
5,449,625 + PS417_25130 0.43 -1.0
5,449,625 + PS417_25130 0.43 -0.8
5,449,626 - PS417_25130 0.43 -0.2
5,449,626 - PS417_25130 0.43 +0.0
5,449,626 - PS417_25130 0.43 +2.3
5,449,626 - PS417_25130 0.43 -0.4
5,449,639 + PS417_25130 0.46 +0.9
5,449,640 - PS417_25130 0.46 +2.7
5,449,806 + PS417_25130 0.82 +0.3
5,449,808 + PS417_25130 0.82 -0.2
5,449,809 - PS417_25130 0.82 +3.1
5,449,809 - PS417_25130 0.82 +0.0
5,449,809 - PS417_25130 0.82 -0.2
5,449,816 + PS417_25130 0.84 +0.0
5,449,816 + PS417_25130 0.84 +0.1
5,449,817 - PS417_25130 0.84 +1.1
5,449,859 + -2.1
5,449,867 - +0.9
5,449,960 + +0.0
5,449,961 - -1.0
5,449,970 + -0.0
5,449,970 + +0.6
5,449,970 + +0.6
5,449,971 - -2.1
5,449,984 - -0.7
5,449,984 - -1.1
5,450,039 + +0.8
5,450,039 + -1.5
5,450,040 - -0.2
5,450,049 + +1.8
5,450,050 - -3.2
5,450,052 + -1.1
5,450,053 - -1.0
5,450,053 - -1.3
5,450,086 + -0.1
5,450,086 + +0.1
5,450,087 - +0.6
5,450,087 - +0.6
5,450,087 - -1.0
5,450,087 - +0.6
5,450,087 - +1.6
5,450,161 - +0.8
5,450,162 + +0.3
5,450,162 + -0.5
5,450,162 + -0.2
5,450,162 + +0.6
5,450,163 - -0.0
5,450,163 - -0.2
5,450,163 - -1.5
5,450,175 + +0.7
5,450,181 + +0.5
5,450,238 + -1.5
5,450,238 + +4.5
5,450,239 - +0.2
5,450,239 - -0.6
5,450,284 - -2.4

Or see this region's nucleotide sequence