Strain Fitness in Pseudomonas sp. RS175 around PFR28_05028

Experiment: Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct

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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 ntPFR28_05027 and PFR28_05028 are separated by 39 nucleotidesPFR28_05028 and PFR28_05029 overlap by 17 nucleotidesPFR28_05029 and PFR28_05030 overlap by 4 nucleotidesPFR28_05030 and PFR28_05031 overlap by 8 nucleotides PFR28_05027: PFR28_05027 - hypothetical protein, at 5,739,706 to 5,740,953 _05027 PFR28_05028: PFR28_05028 - hypothetical protein, at 5,740,993 to 5,743,326 _05028 PFR28_05029: PFR28_05029 - hypothetical protein, at 5,743,310 to 5,743,903 _05029 PFR28_05030: PFR28_05030 - hypothetical protein, at 5,743,900 to 5,744,325 _05030 PFR28_05031: PFR28_05031 - Tyrosine 2,3-aminomutase, at 5,744,318 to 5,745,862 _05031 Position (kb) 5740 5741 5742 5743 5744Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 5740.493 kb on + strand, within PFR28_05027at 5740.582 kb on + strand, within PFR28_05027at 5740.582 kb on + strand, within PFR28_05027at 5740.583 kb on - strand, within PFR28_05027at 5740.672 kb on - strand, within PFR28_05027at 5740.695 kb on - strand, within PFR28_05027at 5740.947 kb on + strandat 5740.948 kb on - strandat 5741.242 kb on + strand, within PFR28_05028at 5741.243 kb on - strand, within PFR28_05028at 5741.468 kb on - strand, within PFR28_05028at 5741.623 kb on + strand, within PFR28_05028at 5741.623 kb on + strand, within PFR28_05028at 5741.623 kb on + strand, within PFR28_05028at 5741.623 kb on + strand, within PFR28_05028at 5741.624 kb on - strand, within PFR28_05028at 5742.051 kb on + strand, within PFR28_05028at 5742.051 kb on + strand, within PFR28_05028at 5742.052 kb on - strand, within PFR28_05028at 5742.176 kb on + strand, within PFR28_05028at 5742.176 kb on + strand, within PFR28_05028at 5742.368 kb on + strand, within PFR28_05028at 5742.421 kb on + strand, within PFR28_05028at 5742.421 kb on + strand, within PFR28_05028at 5742.421 kb on + strand, within PFR28_05028at 5742.421 kb on + strand, within PFR28_05028at 5742.421 kb on + strand, within PFR28_05028at 5742.422 kb on - strand, within PFR28_05028at 5742.422 kb on - strand, within PFR28_05028at 5742.422 kb on - strand, within PFR28_05028at 5742.422 kb on - strand, within PFR28_05028at 5742.422 kb on - strand, within PFR28_05028at 5742.605 kb on + strand, within PFR28_05028at 5742.606 kb on - strand, within PFR28_05028at 5742.606 kb on - strand, within PFR28_05028at 5742.606 kb on - strand, within PFR28_05028at 5742.796 kb on + strand, within PFR28_05028at 5742.905 kb on - strand, within PFR28_05028at 5743.129 kb on + strandat 5743.890 kb on + strandat 5743.890 kb on + strandat 5743.890 kb on + strandat 5744.039 kb on + strand, within PFR28_05030at 5744.039 kb on + strand, within PFR28_05030at 5744.040 kb on - strand, within PFR28_05030at 5744.040 kb on - strand, within PFR28_05030at 5744.040 kb on - strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.120 kb on + strand, within PFR28_05030at 5744.121 kb on - strand, within PFR28_05030at 5744.121 kb on - strand, within PFR28_05030at 5744.121 kb on - strand, within PFR28_05030at 5744.121 kb on - strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.177 kb on + strand, within PFR28_05030at 5744.178 kb on - strand, within PFR28_05030at 5744.178 kb on - strand, within PFR28_05030at 5744.178 kb on - strand, within PFR28_05030at 5744.178 kb on - strand, within PFR28_05030at 5744.225 kb on + strand, within PFR28_05030at 5744.226 kb on - strand, within PFR28_05030at 5744.226 kb on - strand, within PFR28_05030at 5744.234 kb on + strand, within PFR28_05030at 5744.234 kb on + strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030at 5744.235 kb on - strand, within PFR28_05030

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Sorghum; PlantTreatment=None; Sample=root_top; GrowthSubstrate=calcine_clay; Collection=Direct
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5,740,493 + PFR28_05027 0.63 -1.3
5,740,582 + PFR28_05027 0.70 -1.2
5,740,582 + PFR28_05027 0.70 +1.2
5,740,583 - PFR28_05027 0.70 +0.7
5,740,672 - PFR28_05027 0.77 -0.3
5,740,695 - PFR28_05027 0.79 +0.1
5,740,947 + -0.1
5,740,948 - -0.1
5,741,242 + PFR28_05028 0.11 +1.1
5,741,243 - PFR28_05028 0.11 +1.2
5,741,468 - PFR28_05028 0.20 +1.0
5,741,623 + PFR28_05028 0.27 +0.3
5,741,623 + PFR28_05028 0.27 -2.7
5,741,623 + PFR28_05028 0.27 -0.8
5,741,623 + PFR28_05028 0.27 +0.0
5,741,624 - PFR28_05028 0.27 +0.9
5,742,051 + PFR28_05028 0.45 +0.2
5,742,051 + PFR28_05028 0.45 +0.6
5,742,052 - PFR28_05028 0.45 -0.4
5,742,176 + PFR28_05028 0.51 +1.6
5,742,176 + PFR28_05028 0.51 +3.9
5,742,368 + PFR28_05028 0.59 -1.3
5,742,421 + PFR28_05028 0.61 -0.3
5,742,421 + PFR28_05028 0.61 +0.7
5,742,421 + PFR28_05028 0.61 -1.7
5,742,421 + PFR28_05028 0.61 +1.2
5,742,421 + PFR28_05028 0.61 +0.6
5,742,422 - PFR28_05028 0.61 +0.0
5,742,422 - PFR28_05028 0.61 +1.0
5,742,422 - PFR28_05028 0.61 -0.5
5,742,422 - PFR28_05028 0.61 +0.4
5,742,422 - PFR28_05028 0.61 +0.0
5,742,605 + PFR28_05028 0.69 -1.0
5,742,606 - PFR28_05028 0.69 +1.3
5,742,606 - PFR28_05028 0.69 +1.6
5,742,606 - PFR28_05028 0.69 +1.4
5,742,796 + PFR28_05028 0.77 +0.6
5,742,905 - PFR28_05028 0.82 -2.5
5,743,129 + -0.9
5,743,890 + +3.8
5,743,890 + +1.8
5,743,890 + +0.2
5,744,039 + PFR28_05030 0.33 +1.8
5,744,039 + PFR28_05030 0.33 +1.6
5,744,040 - PFR28_05030 0.33 -1.6
5,744,040 - PFR28_05030 0.33 -0.8
5,744,040 - PFR28_05030 0.33 +1.2
5,744,120 + PFR28_05030 0.52 -0.9
5,744,120 + PFR28_05030 0.52 -2.4
5,744,120 + PFR28_05030 0.52 +0.4
5,744,120 + PFR28_05030 0.52 -1.8
5,744,120 + PFR28_05030 0.52 +0.6
5,744,120 + PFR28_05030 0.52 +0.6
5,744,120 + PFR28_05030 0.52 -0.6
5,744,121 - PFR28_05030 0.52 -0.1
5,744,121 - PFR28_05030 0.52 -1.6
5,744,121 - PFR28_05030 0.52 -0.3
5,744,121 - PFR28_05030 0.52 +1.0
5,744,177 + PFR28_05030 0.65 +1.8
5,744,177 + PFR28_05030 0.65 +0.5
5,744,177 + PFR28_05030 0.65 +1.0
5,744,177 + PFR28_05030 0.65 +0.1
5,744,177 + PFR28_05030 0.65 +2.3
5,744,177 + PFR28_05030 0.65 -1.6
5,744,177 + PFR28_05030 0.65 -1.3
5,744,177 + PFR28_05030 0.65 +2.6
5,744,177 + PFR28_05030 0.65 +0.7
5,744,177 + PFR28_05030 0.65 +0.6
5,744,178 - PFR28_05030 0.65 -0.7
5,744,178 - PFR28_05030 0.65 +0.2
5,744,178 - PFR28_05030 0.65 +1.7
5,744,178 - PFR28_05030 0.65 -1.9
5,744,225 + PFR28_05030 0.76 +1.4
5,744,226 - PFR28_05030 0.77 -1.8
5,744,226 - PFR28_05030 0.77 -0.3
5,744,234 + PFR28_05030 0.78 +1.7
5,744,234 + PFR28_05030 0.78 -0.9
5,744,235 - PFR28_05030 0.79 -1.6
5,744,235 - PFR28_05030 0.79 -2.0
5,744,235 - PFR28_05030 0.79 -1.6
5,744,235 - PFR28_05030 0.79 +0.1
5,744,235 - PFR28_05030 0.79 -0.9
5,744,235 - PFR28_05030 0.79 +1.7

Or see this region's nucleotide sequence