Strain Fitness in Pseudomonas putida KT2440 around PP_3844

Experiment: Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; 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 ntPP_3842 and PP_3843 are separated by 125 nucleotidesPP_3843 and PP_3844 are separated by 179 nucleotidesPP_3844 and PP_3845 are separated by 73 nucleotides PP_3842: PP_3842 - conserved protein of unknown function, at 4,365,212 to 4,366,309 _3842 PP_3843: PP_3843 - conserved protein of unknown function, at 4,366,435 to 4,366,734 _3843 PP_3844: PP_3844 - putative D-aminopeptidase, at 4,366,914 to 4,368,047 _3844 PP_3845: PP_3845 - putrescine-binding periplasmic protein, at 4,368,121 to 4,369,230 _3845 Position (kb) 4366 4367 4368 4369Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 4365.917 kb on + strand, within PP_3842at 4365.917 kb on + strand, within PP_3842at 4365.918 kb on - strand, within PP_3842at 4365.918 kb on - strand, within PP_3842at 4365.984 kb on + strand, within PP_3842at 4365.984 kb on + strand, within PP_3842at 4365.985 kb on - strand, within PP_3842at 4365.986 kb on + strand, within PP_3842at 4365.986 kb on + strand, within PP_3842at 4365.987 kb on - strand, within PP_3842at 4366.038 kb on + strand, within PP_3842at 4366.038 kb on + strand, within PP_3842at 4366.039 kb on - strand, within PP_3842at 4366.039 kb on - strand, within PP_3842at 4366.063 kb on + strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.071 kb on + strand, within PP_3842at 4366.147 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.200 kb on - strandat 4366.200 kb on - strandat 4366.207 kb on + strandat 4366.207 kb on + strandat 4366.250 kb on + strandat 4366.398 kb on + strandat 4366.399 kb on - strandat 4366.399 kb on - strandat 4366.567 kb on - strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.726 kb on + strandat 4366.726 kb on + strandat 4366.745 kb on + strandat 4366.745 kb on + strandat 4366.754 kb on - strandat 4366.754 kb on - strandat 4366.754 kb on - strandat 4366.759 kb on + strandat 4366.773 kb on - strandat 4366.773 kb on - strandat 4366.783 kb on + strandat 4366.783 kb on + strandat 4366.915 kb on + strandat 4366.915 kb on + strandat 4366.986 kb on + strandat 4367.022 kb on + strandat 4367.025 kb on + strandat 4367.025 kb on + strandat 4367.025 kb on + strandat 4367.026 kb on - strandat 4367.026 kb on - strandat 4367.084 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.132 kb on + strand, within PP_3844at 4367.141 kb on - strand, within PP_3844at 4367.141 kb on - strand, within PP_3844at 4367.258 kb on + strand, within PP_3844at 4367.259 kb on - strandat 4367.304 kb on + strand, within PP_3844at 4367.304 kb on + strand, within PP_3844at 4367.304 kb on + strand, within PP_3844at 4367.305 kb on - strand, within PP_3844at 4367.368 kb on + strand, within PP_3844at 4367.368 kb on + strand, within PP_3844at 4367.369 kb on - strand, within PP_3844at 4367.369 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.560 kb on - strand, within PP_3844at 4367.560 kb on - strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.568 kb on - strand, within PP_3844at 4367.568 kb on - strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.636 kb on - strand, within PP_3844at 4367.665 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.887 kb on - strand, within PP_3844at 4368.008 kb on + strandat 4368.009 kb on - strandat 4368.122 kb on + strandat 4368.226 kb on - strandat 4368.227 kb on + strandat 4368.227 kb on + strandat 4368.227 kb on + strandat 4368.228 kb on - strandat 4368.230 kb on - strandat 4368.230 kb on - strandat 4368.230 kb on - strandat 4368.230 kb on - strandat 4368.230 kb on - strandat 4368.259 kb on + strand, within PP_3845at 4368.259 kb on + strand, within PP_3845at 4368.260 kb on - strand, within PP_3845at 4368.260 kb on - strand, within PP_3845at 4368.293 kb on + strand, within PP_3845at 4368.302 kb on + strand, within PP_3845at 4368.302 kb on + strand, within PP_3845at 4368.302 kb on + strandat 4368.303 kb on - strand, within PP_3845at 4368.303 kb on - strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.341 kb on + strand, within PP_3845at 4368.342 kb on - strand, within PP_3845at 4368.342 kb on - strandat 4368.397 kb on - strand, within PP_3845at 4368.437 kb on + strand, within PP_3845at 4368.437 kb on + strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.567 kb on - strand, within PP_3845at 4368.573 kb on + strand, within PP_3845at 4368.583 kb on + strand, within PP_3845at 4368.583 kb on + strand, within PP_3845at 4368.614 kb on + strand, within PP_3845at 4368.627 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.639 kb on - strand, within PP_3845at 4368.639 kb on - strand, within PP_3845at 4368.653 kb on + strand, within PP_3845at 4368.653 kb on + strand, within PP_3845at 4368.672 kb on + strand, within PP_3845at 4368.673 kb on - strand, within PP_3845at 4368.781 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.833 kb on + strand, within PP_3845at 4368.834 kb on - strand, within PP_3845at 4368.846 kb on - strand, within PP_3845at 4368.965 kb on - strand, within PP_3845at 4368.965 kb on - strand, within PP_3845

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=NaCl_and_Fusarium; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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4,365,917 + PP_3842 0.64 +0.5
4,365,917 + PP_3842 0.64 -1.1
4,365,918 - PP_3842 0.64 -2.3
4,365,918 - PP_3842 0.64 -0.8
4,365,984 + PP_3842 0.70 -2.9
4,365,984 + PP_3842 0.70 +0.5
4,365,985 - PP_3842 0.70 -1.5
4,365,986 + PP_3842 0.70 +0.5
4,365,986 + PP_3842 0.70 +5.6
4,365,987 - PP_3842 0.71 +0.2
4,366,038 + PP_3842 0.75 -0.1
4,366,038 + PP_3842 0.75 -0.5
4,366,039 - PP_3842 0.75 +2.6
4,366,039 - PP_3842 0.75 +0.4
4,366,063 + PP_3842 0.78 -1.0
4,366,064 - PP_3842 0.78 +0.5
4,366,064 - PP_3842 0.78 +0.6
4,366,064 - PP_3842 0.78 +1.5
4,366,065 + PP_3842 0.78 -0.1
4,366,065 + PP_3842 0.78 -0.6
4,366,065 + PP_3842 0.78 -1.3
4,366,065 + PP_3842 0.78 -1.5
4,366,065 + PP_3842 0.78 +1.9
4,366,065 + PP_3842 0.78 +0.1
4,366,066 - PP_3842 0.78 +0.2
4,366,066 - PP_3842 0.78 -1.0
4,366,066 - PP_3842 0.78 -1.4
4,366,066 - PP_3842 0.78 +1.8
4,366,066 - PP_3842 0.78 -0.6
4,366,066 - PP_3842 0.78 +0.3
4,366,066 - PP_3842 0.78 -0.1
4,366,066 - PP_3842 0.78 -0.4
4,366,071 + PP_3842 0.78 +0.9
4,366,147 + PP_3842 0.85 -0.2
4,366,199 + PP_3842 0.90 -0.4
4,366,199 + PP_3842 0.90 -0.2
4,366,199 + PP_3842 0.90 +0.2
4,366,200 - +1.0
4,366,200 - -1.2
4,366,207 + +0.4
4,366,207 + -0.8
4,366,250 + +1.4
4,366,398 + -0.4
4,366,399 - -0.3
4,366,399 - +0.3
4,366,567 - PP_3843 0.44 -0.9
4,366,586 + PP_3843 0.50 -0.8
4,366,586 + PP_3843 0.50 -2.0
4,366,586 + PP_3843 0.50 +0.3
4,366,587 - PP_3843 0.51 -0.1
4,366,587 - PP_3843 0.51 +0.5
4,366,587 - PP_3843 0.51 -1.7
4,366,587 - PP_3843 0.51 +0.1
4,366,646 + PP_3843 0.70 +1.6
4,366,646 + PP_3843 0.70 +0.4
4,366,646 + PP_3843 0.70 -0.1
4,366,646 + PP_3843 0.70 -0.4
4,366,646 + PP_3843 0.70 -0.5
4,366,646 + PP_3843 0.70 -1.0
4,366,646 + PP_3843 0.70 -1.4
4,366,646 + PP_3843 0.70 +0.1
4,366,646 + PP_3843 0.70 -0.0
4,366,647 - PP_3843 0.71 +0.5
4,366,647 - PP_3843 0.71 +0.3
4,366,647 - PP_3843 0.71 -1.5
4,366,647 - PP_3843 0.71 +0.6
4,366,647 - PP_3843 0.71 +1.1
4,366,647 - PP_3843 0.71 +0.4
4,366,647 - PP_3843 0.71 -0.7
4,366,647 - PP_3843 0.71 +0.6
4,366,647 - PP_3843 0.71 +0.1
4,366,647 - PP_3843 0.71 -0.2
4,366,726 + -0.5
4,366,726 + -0.8
4,366,745 + +0.8
4,366,745 + +0.2
4,366,754 - +1.7
4,366,754 - +0.4
4,366,754 - +0.6
4,366,759 + +0.5
4,366,773 - +1.1
4,366,773 - +0.6
4,366,783 + +0.3
4,366,783 + -0.2
4,366,915 + +0.3
4,366,915 + +3.8
4,366,986 + +0.6
4,367,022 + +0.4
4,367,025 + -1.4
4,367,025 + -1.6
4,367,025 + +2.3
4,367,026 - -0.4
4,367,026 - -0.5
4,367,084 + PP_3844 0.15 -0.1
4,367,105 + PP_3844 0.17 +1.4
4,367,105 + PP_3844 0.17 -1.2
4,367,105 + PP_3844 0.17 -0.0
4,367,105 + PP_3844 0.17 -1.5
4,367,105 + PP_3844 0.17 -0.1
4,367,105 + PP_3844 0.17 +0.2
4,367,106 - PP_3844 0.17 -1.1
4,367,106 - PP_3844 0.17 -1.1
4,367,106 - PP_3844 0.17 +0.2
4,367,106 - PP_3844 0.17 +0.1
4,367,106 - PP_3844 0.17 +1.2
4,367,132 + PP_3844 0.19 +0.3
4,367,141 - PP_3844 0.20 +0.1
4,367,141 - PP_3844 0.20 +1.0
4,367,258 + PP_3844 0.30 -1.0
4,367,259 - +0.3
4,367,304 + PP_3844 0.34 +0.0
4,367,304 + PP_3844 0.34 +0.8
4,367,304 + PP_3844 0.34 -0.4
4,367,305 - PP_3844 0.34 -0.7
4,367,368 + PP_3844 0.40 +1.9
4,367,368 + PP_3844 0.40 -0.1
4,367,369 - PP_3844 0.40 +1.9
4,367,369 - PP_3844 0.40 -0.4
4,367,463 - PP_3844 0.48 +0.2
4,367,463 - PP_3844 0.48 -0.6
4,367,463 - PP_3844 0.48 -0.2
4,367,560 - PP_3844 0.57 -2.0
4,367,560 - PP_3844 0.57 +0.2
4,367,567 + PP_3844 0.58 +0.2
4,367,567 + PP_3844 0.58 +0.6
4,367,567 + PP_3844 0.58 -1.4
4,367,567 + PP_3844 0.58 +0.9
4,367,568 - PP_3844 0.58 +0.5
4,367,568 - PP_3844 0.58 -0.5
4,367,635 + PP_3844 0.64 +1.1
4,367,635 + PP_3844 0.64 +0.3
4,367,635 + PP_3844 0.64 -0.2
4,367,636 - PP_3844 0.64 -1.7
4,367,665 + PP_3844 0.66 +0.2
4,367,669 + PP_3844 0.67 +1.2
4,367,669 + PP_3844 0.67 +1.1
4,367,669 + PP_3844 0.67 +2.2
4,367,669 + PP_3844 0.67 +1.2
4,367,887 - PP_3844 0.86 -0.2
4,368,008 + +2.8
4,368,009 - -0.3
4,368,122 + +0.3
4,368,226 - +0.3
4,368,227 + -0.0
4,368,227 + +0.9
4,368,227 + +0.1
4,368,228 - -0.0
4,368,230 - -0.8
4,368,230 - +0.3
4,368,230 - +1.4
4,368,230 - -0.8
4,368,230 - -1.7
4,368,259 + PP_3845 0.12 -0.2
4,368,259 + PP_3845 0.12 +1.0
4,368,260 - PP_3845 0.13 +0.8
4,368,260 - PP_3845 0.13 -0.9
4,368,293 + PP_3845 0.15 -2.7
4,368,302 + PP_3845 0.16 +0.2
4,368,302 + PP_3845 0.16 +1.6
4,368,302 + +2.5
4,368,303 - PP_3845 0.16 +0.4
4,368,303 - PP_3845 0.16 +5.5
4,368,341 + PP_3845 0.20 -1.3
4,368,341 + PP_3845 0.20 -1.1
4,368,341 + PP_3845 0.20 +0.4
4,368,341 + PP_3845 0.20 +0.1
4,368,341 + PP_3845 0.20 +0.2
4,368,341 + PP_3845 0.20 +0.0
4,368,341 + PP_3845 0.20 -1.3
4,368,342 - PP_3845 0.20 -2.5
4,368,342 - -0.1
4,368,397 - PP_3845 0.25 -0.1
4,368,437 + PP_3845 0.28 +0.5
4,368,437 + PP_3845 0.28 -0.7
4,368,438 - PP_3845 0.29 -1.8
4,368,438 - PP_3845 0.29 +0.4
4,368,438 - PP_3845 0.29 -1.7
4,368,567 - PP_3845 0.40 -0.1
4,368,573 + PP_3845 0.41 -0.1
4,368,583 + PP_3845 0.42 -0.0
4,368,583 + PP_3845 0.42 -0.0
4,368,614 + PP_3845 0.44 +1.3
4,368,627 + PP_3845 0.46 -1.6
4,368,638 + PP_3845 0.47 -0.7
4,368,638 + PP_3845 0.47 -1.1
4,368,638 + PP_3845 0.47 +0.7
4,368,638 + PP_3845 0.47 -1.8
4,368,639 - PP_3845 0.47 -0.6
4,368,639 - PP_3845 0.47 +0.7
4,368,653 + PP_3845 0.48 -0.7
4,368,653 + PP_3845 0.48 +3.1
4,368,672 + PP_3845 0.50 -1.4
4,368,673 - PP_3845 0.50 -0.5
4,368,781 + PP_3845 0.59 +0.5
4,368,789 + PP_3845 0.60 -0.7
4,368,789 + PP_3845 0.60 -0.2
4,368,789 + PP_3845 0.60 +0.8
4,368,789 + PP_3845 0.60 +0.7
4,368,790 - PP_3845 0.60 -0.5
4,368,790 - PP_3845 0.60 -0.3
4,368,790 - PP_3845 0.60 -0.8
4,368,790 - PP_3845 0.60 -0.4
4,368,790 - PP_3845 0.60 +0.8
4,368,833 + PP_3845 0.64 -0.2
4,368,834 - PP_3845 0.64 -0.8
4,368,846 - PP_3845 0.65 +0.5
4,368,965 - PP_3845 0.76 +0.5
4,368,965 - PP_3845 0.76 +0.5

Or see this region's nucleotide sequence