Strain Fitness in Pseudomonas putida KT2440 around PP_0165

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_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_0163 and PP_0164 are separated by 272 nucleotidesPP_0164 and PP_0165 are separated by 10 nucleotidesPP_0165 and PP_0166 are separated by 156 nucleotides PP_0163: PP_0163 - putative transcriptional regulator, at 186,227 to 186,916 _0163 PP_0164: PP_0164 - conserved protein of unknown function, at 187,189 to 187,881 _0164 PP_0165: PP_0165 - GGDEF domain protein, at 187,892 to 189,838 _0165 PP_0166: PP_0166 - HlyD family secretion protein, at 189,995 to 191,371 _0166 Position (kb) 187 188 189 190Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 186.942 kb on + strandat 186.942 kb on + strandat 186.960 kb on + strandat 186.960 kb on + strandat 186.961 kb on - strandat 186.961 kb on - strandat 186.963 kb on + strandat 186.963 kb on + strandat 186.964 kb on - strandat 186.964 kb on - strandat 187.026 kb on - strandat 187.026 kb on - strandat 187.026 kb on - strandat 187.061 kb on + strandat 187.217 kb on + strandat 187.217 kb on + strandat 187.225 kb on + strandat 187.225 kb on + strandat 187.226 kb on - strandat 187.226 kb on - strandat 187.331 kb on + strand, within PP_0164at 187.331 kb on + strand, within PP_0164at 187.331 kb on + strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.332 kb on - strand, within PP_0164at 187.448 kb on - strand, within PP_0164at 187.484 kb on - strand, within PP_0164at 187.484 kb on - strand, within PP_0164at 187.552 kb on + strand, within PP_0164at 187.603 kb on + strand, within PP_0164at 187.603 kb on + strand, within PP_0164at 187.648 kb on + strand, within PP_0164at 187.649 kb on - strand, within PP_0164at 187.651 kb on + strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.652 kb on - strand, within PP_0164at 187.741 kb on + strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.742 kb on - strand, within PP_0164at 187.804 kb on - strand, within PP_0164at 187.876 kb on + strandat 187.991 kb on + strandat 187.991 kb on + strandat 187.992 kb on - strandat 187.992 kb on - strandat 187.992 kb on - strandat 188.114 kb on + strand, within PP_0165at 188.114 kb on + strand, within PP_0165at 188.115 kb on - strand, within PP_0165at 188.115 kb on - strand, within PP_0165at 188.117 kb on + strand, within PP_0165at 188.117 kb on + strand, within PP_0165at 188.117 kb on + strand, within PP_0165at 188.118 kb on - strand, within PP_0165at 188.426 kb on + strand, within PP_0165at 188.427 kb on - strand, within PP_0165at 188.433 kb on + strand, within PP_0165at 188.433 kb on + strand, within PP_0165at 188.433 kb on + strand, within PP_0165at 188.434 kb on - strand, within PP_0165at 188.434 kb on - strand, within PP_0165at 188.434 kb on - strand, within PP_0165at 188.449 kb on + strand, within PP_0165at 188.449 kb on + strand, within PP_0165at 188.502 kb on + strand, within PP_0165at 188.511 kb on + strand, within PP_0165at 188.511 kb on + strand, within PP_0165at 188.512 kb on - strand, within PP_0165at 188.636 kb on + strand, within PP_0165at 188.637 kb on - strand, within PP_0165at 188.664 kb on + strand, within PP_0165at 188.694 kb on - strand, within PP_0165at 188.755 kb on + strand, within PP_0165at 188.778 kb on + strand, within PP_0165at 188.779 kb on - strand, within PP_0165at 188.797 kb on + strand, within PP_0165at 188.797 kb on + strand, within PP_0165at 188.797 kb on + strand, within PP_0165at 188.797 kb on + strand, within PP_0165at 188.798 kb on - strand, within PP_0165at 188.895 kb on + strand, within PP_0165at 188.895 kb on + strand, within PP_0165at 188.896 kb on - strand, within PP_0165at 188.896 kb on - strandat 188.896 kb on - strand, within PP_0165at 188.896 kb on - strand, within PP_0165at 188.956 kb on + strand, within PP_0165at 188.974 kb on + strand, within PP_0165at 188.974 kb on + strand, within PP_0165at 188.974 kb on + strand, within PP_0165at 188.974 kb on + strand, within PP_0165at 188.975 kb on - strand, within PP_0165at 188.975 kb on - strand, within PP_0165at 188.975 kb on - strand, within PP_0165at 188.975 kb on - strand, within PP_0165at 188.976 kb on + strand, within PP_0165at 188.976 kb on + strand, within PP_0165at 188.977 kb on - strand, within PP_0165at 188.977 kb on - strand, within PP_0165at 188.977 kb on - strand, within PP_0165at 188.977 kb on - strand, within PP_0165at 189.078 kb on + strand, within PP_0165at 189.078 kb on + strand, within PP_0165at 189.078 kb on + strand, within PP_0165at 189.079 kb on - strand, within PP_0165at 189.192 kb on + strand, within PP_0165at 189.192 kb on + strand, within PP_0165at 189.216 kb on + strand, within PP_0165at 189.232 kb on + strand, within PP_0165at 189.233 kb on - strand, within PP_0165at 189.647 kb on + strandat 189.648 kb on - strandat 189.716 kb on - strandat 189.789 kb on + strandat 189.860 kb on + strandat 189.860 kb on + strandat 189.861 kb on - strandat 189.934 kb on + strandat 189.934 kb on + strandat 189.935 kb on - strandat 189.935 kb on - strandat 189.964 kb on + strandat 189.965 kb on - strandat 190.047 kb on + strandat 190.047 kb on + strandat 190.047 kb on + strandat 190.047 kb on + strandat 190.047 kb on + strandat 190.047 kb on + strandat 190.048 kb on - strandat 190.168 kb on - strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.170 kb on + strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.171 kb on - strand, within PP_0166at 190.174 kb on + strand, within PP_0166at 190.174 kb on + strand, within PP_0166at 190.174 kb on + strand, within PP_0166at 190.175 kb on - strand, within PP_0166at 190.175 kb on - strand, within PP_0166at 190.175 kb on - strand, within PP_0166at 190.175 kb on - strand, within PP_0166at 190.195 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.242 kb on + strand, within PP_0166at 190.243 kb on - strand, within PP_0166at 190.243 kb on - strand, within PP_0166at 190.251 kb on + strand, within PP_0166at 190.251 kb on + strand, within PP_0166at 190.252 kb on - strand, within PP_0166at 190.252 kb on - strand, within PP_0166at 190.758 kb on + strand, within PP_0166at 190.758 kb on + strand, within PP_0166at 190.759 kb on - strand, within PP_0166at 190.759 kb on - strand, within PP_0166at 190.779 kb on + strand, within PP_0166

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=288_hrs
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186,942 + -1.8
186,942 + -1.7
186,960 + +0.1
186,960 + +0.7
186,961 - +1.7
186,961 - +1.4
186,963 + +0.5
186,963 + -0.3
186,964 - +3.2
186,964 - +1.9
187,026 - +1.9
187,026 - +2.3
187,026 - +1.9
187,061 + -0.7
187,217 + +0.6
187,217 + +0.3
187,225 + -2.7
187,225 + -0.2
187,226 - -3.4
187,226 - -2.2
187,331 + PP_0164 0.20 -1.8
187,331 + PP_0164 0.20 -2.4
187,331 + PP_0164 0.20 -2.5
187,332 - PP_0164 0.21 -3.7
187,332 - PP_0164 0.21 -2.8
187,332 - PP_0164 0.21 -2.5
187,332 - PP_0164 0.21 -1.1
187,332 - PP_0164 0.21 -3.6
187,448 - PP_0164 0.37 -3.2
187,484 - PP_0164 0.43 -2.5
187,484 - PP_0164 0.43 -3.2
187,552 + PP_0164 0.52 -1.3
187,603 + PP_0164 0.60 -0.4
187,603 + PP_0164 0.60 -1.5
187,648 + PP_0164 0.66 -1.3
187,649 - PP_0164 0.66 -3.1
187,651 + PP_0164 0.67 -1.7
187,652 - PP_0164 0.67 -2.7
187,652 - PP_0164 0.67 -1.7
187,652 - PP_0164 0.67 -3.1
187,652 - PP_0164 0.67 -2.7
187,741 + PP_0164 0.80 -1.9
187,742 - PP_0164 0.80 -3.1
187,742 - PP_0164 0.80 -2.4
187,742 - PP_0164 0.80 -2.3
187,804 - PP_0164 0.89 -2.4
187,876 + -1.2
187,991 + +0.7
187,991 + -0.2
187,992 - -0.4
187,992 - +1.1
187,992 - +1.1
188,114 + PP_0165 0.11 +0.7
188,114 + PP_0165 0.11 +1.7
188,115 - PP_0165 0.11 +0.7
188,115 - PP_0165 0.11 +1.1
188,117 + PP_0165 0.12 +1.0
188,117 + PP_0165 0.12 +1.4
188,117 + PP_0165 0.12 -0.4
188,118 - PP_0165 0.12 -0.5
188,426 + PP_0165 0.27 +1.0
188,427 - PP_0165 0.27 +0.7
188,433 + PP_0165 0.28 +0.8
188,433 + PP_0165 0.28 +1.2
188,433 + PP_0165 0.28 -0.1
188,434 - PP_0165 0.28 +1.0
188,434 - PP_0165 0.28 -1.2
188,434 - PP_0165 0.28 +0.8
188,449 + PP_0165 0.29 -0.5
188,449 + PP_0165 0.29 +0.7
188,502 + PP_0165 0.31 +1.7
188,511 + PP_0165 0.32 +1.0
188,511 + PP_0165 0.32 +0.4
188,512 - PP_0165 0.32 +1.8
188,636 + PP_0165 0.38 +1.3
188,637 - PP_0165 0.38 +0.4
188,664 + PP_0165 0.40 -0.1
188,694 - PP_0165 0.41 +0.8
188,755 + PP_0165 0.44 +1.3
188,778 + PP_0165 0.46 +0.7
188,779 - PP_0165 0.46 +1.6
188,797 + PP_0165 0.46 +1.0
188,797 + PP_0165 0.46 +1.5
188,797 + PP_0165 0.46 +0.6
188,797 + PP_0165 0.46 +0.9
188,798 - PP_0165 0.47 +1.3
188,895 + PP_0165 0.52 +0.7
188,895 + PP_0165 0.52 +1.3
188,896 - PP_0165 0.52 -0.0
188,896 - +2.0
188,896 - PP_0165 0.52 +0.8
188,896 - PP_0165 0.52 +0.8
188,956 + PP_0165 0.55 +1.5
188,974 + PP_0165 0.56 +0.6
188,974 + PP_0165 0.56 +0.9
188,974 + PP_0165 0.56 +0.3
188,974 + PP_0165 0.56 +1.1
188,975 - PP_0165 0.56 +0.9
188,975 - PP_0165 0.56 +0.3
188,975 - PP_0165 0.56 +1.6
188,975 - PP_0165 0.56 +0.5
188,976 + PP_0165 0.56 +0.5
188,976 + PP_0165 0.56 +0.6
188,977 - PP_0165 0.56 +0.2
188,977 - PP_0165 0.56 +0.5
188,977 - PP_0165 0.56 +1.3
188,977 - PP_0165 0.56 +1.3
189,078 + PP_0165 0.61 +0.2
189,078 + PP_0165 0.61 +0.4
189,078 + PP_0165 0.61 +0.3
189,079 - PP_0165 0.61 +0.6
189,192 + PP_0165 0.67 +0.7
189,192 + PP_0165 0.67 +1.4
189,216 + PP_0165 0.68 +0.9
189,232 + PP_0165 0.69 +0.5
189,233 - PP_0165 0.69 +0.7
189,647 + +0.2
189,648 - -0.9
189,716 - +1.4
189,789 + +0.9
189,860 + -0.0
189,860 + +0.5
189,861 - +0.1
189,934 + +1.2
189,934 + -0.6
189,935 - +0.6
189,935 - +0.1
189,964 + -0.6
189,965 - -0.2
190,047 + +1.0
190,047 + +0.2
190,047 + +0.5
190,047 + +1.2
190,047 + +0.9
190,047 + +1.7
190,048 - +0.7
190,168 - PP_0166 0.13 +0.6
190,170 + PP_0166 0.13 +0.9
190,170 + PP_0166 0.13 +0.4
190,170 + PP_0166 0.13 +0.1
190,170 + PP_0166 0.13 +1.3
190,170 + PP_0166 0.13 +0.8
190,170 + PP_0166 0.13 +1.2
190,170 + PP_0166 0.13 +0.8
190,170 + PP_0166 0.13 +0.5
190,171 - PP_0166 0.13 +0.5
190,171 - PP_0166 0.13 +1.4
190,171 - PP_0166 0.13 -0.5
190,171 - PP_0166 0.13 -0.2
190,171 - PP_0166 0.13 +1.0
190,171 - PP_0166 0.13 +0.8
190,174 + PP_0166 0.13 +1.3
190,174 + PP_0166 0.13 +1.3
190,174 + PP_0166 0.13 +0.9
190,175 - PP_0166 0.13 -0.8
190,175 - PP_0166 0.13 +0.9
190,175 - PP_0166 0.13 +0.7
190,175 - PP_0166 0.13 +0.4
190,195 + PP_0166 0.15 +1.5
190,242 + PP_0166 0.18 +0.6
190,242 + PP_0166 0.18 +1.5
190,242 + PP_0166 0.18 +1.2
190,242 + PP_0166 0.18 +1.0
190,242 + PP_0166 0.18 +0.7
190,242 + PP_0166 0.18 +1.1
190,242 + PP_0166 0.18 +0.9
190,243 - PP_0166 0.18 +0.8
190,243 - PP_0166 0.18 +0.2
190,251 + PP_0166 0.19 +0.7
190,251 + PP_0166 0.19 +0.8
190,252 - PP_0166 0.19 +1.4
190,252 - PP_0166 0.19 +0.4
190,758 + PP_0166 0.55 +1.8
190,758 + PP_0166 0.55 +0.3
190,759 - PP_0166 0.55 +1.1
190,759 - PP_0166 0.55 +1.3
190,779 + PP_0166 0.57 +0.8

Or see this region's nucleotide sequence