Strain Fitness in Pseudomonas putida KT2440 around PP_0799

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_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_0798 and PP_0799 are separated by 198 nucleotidesPP_0799 and PP_5458 are separated by 205 nucleotidesPP_5458 and PP_0800 are separated by 190 nucleotides PP_0798: PP_0798 - GGDEF domain protein, at 916,076 to 917,566 _0798 PP_0799: PP_0799 - histidine-specific outer membrane porin D, at 917,765 to 919,099 _0799 PP_5458: PP_5458 - conserved exported protein of unknown function, at 919,305 to 919,529 _5458 PP_0800: PP_0800 - conserved protein of unknown function, at 919,720 to 920,472 _0800 Position (kb) 917 918 919 920Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 916.813 kb on + strand, within PP_0798at 916.813 kb on + strand, within PP_0798at 916.860 kb on + strand, within PP_0798at 916.861 kb on - strand, within PP_0798at 916.861 kb on - strand, within PP_0798at 916.863 kb on + strand, within PP_0798at 916.863 kb on + strand, within PP_0798at 916.863 kb on + strandat 916.863 kb on + strand, within PP_0798at 916.863 kb on + strand, within PP_0798at 916.863 kb on + strand, within PP_0798at 916.864 kb on - strand, within PP_0798at 916.864 kb on - strand, within PP_0798at 916.864 kb on - strand, within PP_0798at 916.987 kb on - strand, within PP_0798at 917.044 kb on + strand, within PP_0798at 917.062 kb on + strand, within PP_0798at 917.062 kb on + strand, within PP_0798at 917.062 kb on + strand, within PP_0798at 917.062 kb on + strand, within PP_0798at 917.063 kb on - strand, within PP_0798at 917.186 kb on - strand, within PP_0798at 917.207 kb on - strand, within PP_0798at 917.355 kb on + strand, within PP_0798at 917.356 kb on - strand, within PP_0798at 917.356 kb on - strand, within PP_0798at 917.460 kb on + strandat 917.460 kb on + strandat 917.460 kb on + strandat 917.461 kb on - strandat 917.461 kb on - strandat 917.535 kb on + strandat 917.574 kb on - strandat 917.606 kb on - strandat 917.659 kb on + strandat 917.659 kb on + strandat 917.660 kb on - strandat 917.664 kb on + strandat 917.692 kb on - strandat 917.692 kb on - strandat 917.692 kb on - strandat 917.692 kb on - strandat 917.747 kb on + strandat 917.747 kb on + strandat 917.748 kb on - strandat 917.748 kb on - strandat 917.748 kb on - strandat 917.748 kb on - strandat 917.838 kb on + strandat 917.839 kb on - strandat 917.866 kb on - strandat 917.866 kb on - strandat 917.866 kb on - strandat 917.870 kb on + strandat 917.870 kb on + strandat 917.871 kb on - strandat 917.871 kb on - strandat 917.871 kb on - strandat 917.909 kb on + strand, within PP_0799at 917.910 kb on - strand, within PP_0799at 917.910 kb on - strand, within PP_0799at 917.913 kb on + strand, within PP_0799at 917.913 kb on + strand, within PP_0799at 917.914 kb on - strand, within PP_0799at 917.968 kb on - strand, within PP_0799at 917.968 kb on - strand, within PP_0799at 917.968 kb on - strand, within PP_0799at 917.970 kb on + strand, within PP_0799at 917.971 kb on - strand, within PP_0799at 917.971 kb on - strand, within PP_0799at 917.977 kb on - strand, within PP_0799at 917.977 kb on - strand, within PP_0799at 918.075 kb on + strand, within PP_0799at 918.076 kb on - strand, within PP_0799at 918.081 kb on + strand, within PP_0799at 918.081 kb on + strand, within PP_0799at 918.127 kb on - strand, within PP_0799at 918.127 kb on - strand, within PP_0799at 918.147 kb on + strand, within PP_0799at 918.147 kb on + strand, within PP_0799at 918.148 kb on - strand, within PP_0799at 918.171 kb on + strand, within PP_0799at 918.171 kb on + strand, within PP_0799at 918.241 kb on + strand, within PP_0799at 918.241 kb on + strand, within PP_0799at 918.255 kb on + strand, within PP_0799at 918.255 kb on + strand, within PP_0799at 918.255 kb on + strand, within PP_0799at 918.255 kb on + strand, within PP_0799at 918.255 kb on + strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.256 kb on - strand, within PP_0799at 918.278 kb on + strand, within PP_0799at 918.309 kb on + strand, within PP_0799at 918.310 kb on - strand, within PP_0799at 918.310 kb on - strand, within PP_0799at 918.310 kb on - strand, within PP_0799at 918.310 kb on - strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strand, within PP_0799at 918.354 kb on + strandat 918.354 kb on + strand, within PP_0799at 918.354 kb on + strandat 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.355 kb on - strand, within PP_0799at 918.360 kb on + strand, within PP_0799at 918.360 kb on + strand, within PP_0799at 918.360 kb on + strand, within PP_0799at 918.361 kb on - strand, within PP_0799at 918.375 kb on + strand, within PP_0799at 918.375 kb on + strand, within PP_0799at 918.375 kb on + strand, within PP_0799at 918.376 kb on - strand, within PP_0799at 918.378 kb on + strand, within PP_0799at 918.378 kb on + strand, within PP_0799at 918.502 kb on - strand, within PP_0799at 918.502 kb on - strand, within PP_0799at 918.504 kb on + strand, within PP_0799at 918.505 kb on - strand, within PP_0799at 918.505 kb on - strand, within PP_0799at 918.505 kb on - strand, within PP_0799at 918.505 kb on - strand, within PP_0799at 918.537 kb on + strand, within PP_0799at 918.537 kb on + strand, within PP_0799at 918.538 kb on - strand, within PP_0799at 918.605 kb on + strand, within PP_0799at 918.605 kb on + strand, within PP_0799at 918.605 kb on + strand, within PP_0799at 918.606 kb on - strand, within PP_0799at 918.606 kb on - strand, within PP_0799at 918.606 kb on - strand, within PP_0799at 918.879 kb on + strand, within PP_0799at 918.964 kb on - strand, within PP_0799at 918.970 kb on + strandat 919.106 kb on + strandat 919.106 kb on + strandat 919.106 kb on + strandat 919.106 kb on + strandat 919.107 kb on - strandat 919.163 kb on + strandat 919.175 kb on - strandat 919.238 kb on + strandat 919.238 kb on + strandat 919.244 kb on - strandat 919.290 kb on - strandat 919.518 kb on - strandat 919.518 kb on - strandat 919.537 kb on + strandat 919.559 kb on + strandat 919.559 kb on + strandat 919.559 kb on + strandat 919.575 kb on - strandat 919.581 kb on - strandat 919.581 kb on - strandat 919.688 kb on - strandat 919.739 kb on + strandat 919.739 kb on + strandat 919.739 kb on + strandat 919.740 kb on - strandat 919.846 kb on + strand, within PP_0800at 919.846 kb on + strand, within PP_0800at 919.847 kb on - strand, within PP_0800at 919.889 kb on + strand, within PP_0800at 919.890 kb on - strand, within PP_0800at 919.890 kb on - strand, within PP_0800

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs
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916,813 + PP_0798 0.49 -4.0
916,813 + PP_0798 0.49 -3.6
916,860 + PP_0798 0.53 +0.7
916,861 - PP_0798 0.53 +0.7
916,861 - PP_0798 0.53 -1.4
916,863 + PP_0798 0.53 -2.7
916,863 + PP_0798 0.53 -2.1
916,863 + +0.6
916,863 + PP_0798 0.53 +0.8
916,863 + PP_0798 0.53 -1.6
916,863 + PP_0798 0.53 -0.3
916,864 - PP_0798 0.53 +1.2
916,864 - PP_0798 0.53 +0.5
916,864 - PP_0798 0.53 +0.1
916,987 - PP_0798 0.61 +1.0
917,044 + PP_0798 0.65 +0.7
917,062 + PP_0798 0.66 -1.2
917,062 + PP_0798 0.66 -3.0
917,062 + PP_0798 0.66 +0.4
917,062 + PP_0798 0.66 +0.7
917,063 - PP_0798 0.66 -1.8
917,186 - PP_0798 0.74 -1.1
917,207 - PP_0798 0.76 -3.3
917,355 + PP_0798 0.86 +0.6
917,356 - PP_0798 0.86 +1.6
917,356 - PP_0798 0.86 +0.6
917,460 + -3.2
917,460 + +1.0
917,460 + +2.2
917,461 - -1.8
917,461 - +1.1
917,535 + -0.7
917,574 - +0.5
917,606 - -4.1
917,659 + +0.2
917,659 + -1.0
917,660 - +2.7
917,664 + +0.4
917,692 - -3.0
917,692 - +0.9
917,692 - -4.7
917,692 - -2.5
917,747 + +0.9
917,747 + -1.4
917,748 - +0.5
917,748 - +1.1
917,748 - -0.5
917,748 - -3.2
917,838 + +0.7
917,839 - -0.3
917,866 - -4.0
917,866 - +1.5
917,866 - +1.6
917,870 + +1.0
917,870 + +0.4
917,871 - +0.5
917,871 - +0.4
917,871 - -3.9
917,909 + PP_0799 0.11 +0.4
917,910 - PP_0799 0.11 -0.7
917,910 - PP_0799 0.11 +1.0
917,913 + PP_0799 0.11 +0.1
917,913 + PP_0799 0.11 +2.1
917,914 - PP_0799 0.11 -4.2
917,968 - PP_0799 0.15 +0.7
917,968 - PP_0799 0.15 +0.8
917,968 - PP_0799 0.15 +0.2
917,970 + PP_0799 0.15 -1.0
917,971 - PP_0799 0.15 +0.5
917,971 - PP_0799 0.15 +0.1
917,977 - PP_0799 0.16 +1.7
917,977 - PP_0799 0.16 +1.0
918,075 + PP_0799 0.23 -0.7
918,076 - PP_0799 0.23 -1.4
918,081 + PP_0799 0.24 -3.4
918,081 + PP_0799 0.24 +1.0
918,127 - PP_0799 0.27 -1.9
918,127 - PP_0799 0.27 -3.8
918,147 + PP_0799 0.29 +0.6
918,147 + PP_0799 0.29 -1.4
918,148 - PP_0799 0.29 -0.0
918,171 + PP_0799 0.30 -0.2
918,171 + PP_0799 0.30 -2.9
918,241 + PP_0799 0.36 -3.3
918,241 + PP_0799 0.36 -2.8
918,255 + PP_0799 0.37 -1.1
918,255 + PP_0799 0.37 -4.0
918,255 + PP_0799 0.37 -1.1
918,255 + PP_0799 0.37 +1.4
918,255 + PP_0799 0.37 -3.3
918,256 - PP_0799 0.37 -0.8
918,256 - PP_0799 0.37 +0.3
918,256 - PP_0799 0.37 -0.5
918,256 - PP_0799 0.37 +1.1
918,256 - PP_0799 0.37 +0.7
918,256 - PP_0799 0.37 -0.1
918,256 - PP_0799 0.37 -0.3
918,278 + PP_0799 0.38 -3.0
918,309 + PP_0799 0.41 +0.9
918,310 - PP_0799 0.41 +0.1
918,310 - PP_0799 0.41 -0.4
918,310 - PP_0799 0.41 -4.5
918,310 - PP_0799 0.41 -1.2
918,354 + PP_0799 0.44 +0.7
918,354 + PP_0799 0.44 -3.3
918,354 + PP_0799 0.44 -0.2
918,354 + PP_0799 0.44 +0.3
918,354 + PP_0799 0.44 +0.6
918,354 + PP_0799 0.44 -0.3
918,354 + +0.2
918,354 + PP_0799 0.44 -0.2
918,354 + +0.5
918,355 - PP_0799 0.44 -1.8
918,355 - PP_0799 0.44 +0.2
918,355 - PP_0799 0.44 +0.3
918,355 - PP_0799 0.44 -0.4
918,355 - PP_0799 0.44 -1.3
918,355 - PP_0799 0.44 -0.3
918,355 - PP_0799 0.44 -0.2
918,355 - PP_0799 0.44 -0.2
918,355 - PP_0799 0.44 -3.9
918,355 - PP_0799 0.44 +0.9
918,355 - PP_0799 0.44 -3.5
918,355 - PP_0799 0.44 +0.3
918,360 + PP_0799 0.45 -1.1
918,360 + PP_0799 0.45 -0.4
918,360 + PP_0799 0.45 -3.3
918,361 - PP_0799 0.45 -0.1
918,375 + PP_0799 0.46 -3.1
918,375 + PP_0799 0.46 -3.9
918,375 + PP_0799 0.46 -1.0
918,376 - PP_0799 0.46 -0.7
918,378 + PP_0799 0.46 -1.5
918,378 + PP_0799 0.46 -1.3
918,502 - PP_0799 0.55 +0.9
918,502 - PP_0799 0.55 +0.6
918,504 + PP_0799 0.55 +1.4
918,505 - PP_0799 0.55 +1.6
918,505 - PP_0799 0.55 +0.9
918,505 - PP_0799 0.55 -0.6
918,505 - PP_0799 0.55 -0.8
918,537 + PP_0799 0.58 -0.4
918,537 + PP_0799 0.58 -0.1
918,538 - PP_0799 0.58 +1.0
918,605 + PP_0799 0.63 -2.4
918,605 + PP_0799 0.63 -0.2
918,605 + PP_0799 0.63 -2.8
918,606 - PP_0799 0.63 -3.9
918,606 - PP_0799 0.63 -1.8
918,606 - PP_0799 0.63 -0.6
918,879 + PP_0799 0.83 +1.0
918,964 - PP_0799 0.90 +0.2
918,970 + +0.7
919,106 + -0.5
919,106 + -0.0
919,106 + -0.7
919,106 + +0.3
919,107 - +0.1
919,163 + +3.9
919,175 - +0.4
919,238 + -4.3
919,238 + +0.8
919,244 - +1.8
919,290 - -0.8
919,518 - +0.5
919,518 - -0.3
919,537 + +1.5
919,559 + +0.5
919,559 + -0.7
919,559 + +0.4
919,575 - +0.5
919,581 - +0.0
919,581 - +0.5
919,688 - -3.4
919,739 + -0.6
919,739 + -0.4
919,739 + +1.0
919,740 - -1.4
919,846 + PP_0800 0.17 -1.2
919,846 + PP_0800 0.17 +0.3
919,847 - PP_0800 0.17 +0.2
919,889 + PP_0800 0.22 +0.8
919,890 - PP_0800 0.23 -4.1
919,890 - PP_0800 0.23 -0.1

Or see this region's nucleotide sequence