Strain Fitness in Pseudomonas putida KT2440 around PP_5640

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_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_3865 and PP_5640 overlap by 8 nucleotidesPP_5640 and PP_3866 overlap by 55 nucleotidesPP_3866 and PP_3867 overlap by 4 nucleotidesPP_3867 and PP_3868 are separated by 76 nucleotides PP_3865: PP_3865 - putative Phage tail protein, at 4,388,785 to 4,390,740 _3865 PP_5640: PP_5640 - conserved protein of unknown function, at 4,390,733 to 4,390,924 _5640 PP_3866: PP_3866 - conserved protein of unknown function, at 4,390,870 to 4,391,166 _3866 PP_3867: PP_3867 - putative Phage tail tube protein, at 4,391,163 to 4,391,516 _3867 PP_3868: PP_3868 - Group II intron-encoding maturase, at 4,391,593 to 4,393,014 _3868 Position (kb) 4390 4391Strain fitness (log2 ratio) -2 -1 0 1 2at 4389.746 kb on + strand, within PP_3865at 4389.746 kb on + strand, within PP_3865at 4389.746 kb on + strand, within PP_3865at 4389.747 kb on - strand, within PP_3865at 4389.747 kb on - strand, within PP_3865at 4389.747 kb on - strand, within PP_3865at 4389.846 kb on + strand, within PP_3865at 4389.847 kb on - strandat 4389.912 kb on + strand, within PP_3865at 4389.912 kb on + strand, within PP_3865at 4389.913 kb on - strand, within PP_3865at 4389.957 kb on + strand, within PP_3865at 4389.998 kb on + strand, within PP_3865at 4389.998 kb on + strand, within PP_3865at 4389.998 kb on + strand, within PP_3865at 4389.998 kb on + strand, within PP_3865at 4389.999 kb on - strand, within PP_3865at 4390.017 kb on + strand, within PP_3865at 4390.017 kb on + strand, within PP_3865at 4390.223 kb on + strand, within PP_3865at 4390.223 kb on + strand, within PP_3865at 4390.224 kb on - strand, within PP_3865at 4390.224 kb on - strand, within PP_3865at 4390.228 kb on - strand, within PP_3865at 4390.228 kb on - strand, within PP_3865at 4390.434 kb on + strand, within PP_3865at 4390.452 kb on + strand, within PP_3865at 4390.452 kb on + strand, within PP_3865at 4390.453 kb on - strand, within PP_3865at 4390.453 kb on - strand, within PP_3865at 4390.494 kb on + strand, within PP_3865at 4390.564 kb on + strandat 4390.792 kb on + strand, within PP_5640at 4390.793 kb on - strand, within PP_5640at 4390.793 kb on - strand, within PP_5640at 4390.857 kb on + strand, within PP_5640at 4390.997 kb on + strand, within PP_3866at 4390.997 kb on + strand, within PP_3866at 4390.998 kb on - strand, within PP_3866at 4391.001 kb on + strand, within PP_3866at 4391.052 kb on - strand, within PP_3866at 4391.113 kb on - strand, within PP_3866at 4391.263 kb on + strand, within PP_3867at 4391.263 kb on + strand, within PP_3867at 4391.263 kb on + strand, within PP_3867at 4391.263 kb on + strand, within PP_3867at 4391.263 kb on + strand, within PP_3867at 4391.264 kb on - strand, within PP_3867at 4391.264 kb on - strand, within PP_3867at 4391.264 kb on - strand, within PP_3867at 4391.264 kb on - strand, within PP_3867at 4391.264 kb on - strand, within PP_3867at 4391.267 kb on + strand, within PP_3867at 4391.267 kb on + strand, within PP_3867at 4391.268 kb on - strand, within PP_3867at 4391.268 kb on - strand, within PP_3867at 4391.361 kb on + strand, within PP_3867at 4391.361 kb on + strand, within PP_3867at 4391.361 kb on + strand, within PP_3867at 4391.361 kb on + strand, within PP_3867at 4391.361 kb on + strand, within PP_3867at 4391.362 kb on - strand, within PP_3867at 4391.362 kb on - strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strandat 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.365 kb on + strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867at 4391.366 kb on - strand, within PP_3867

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Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs
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4,389,746 + PP_3865 0.49 +1.0
4,389,746 + PP_3865 0.49 -0.1
4,389,746 + PP_3865 0.49 -0.1
4,389,747 - PP_3865 0.49 +0.7
4,389,747 - PP_3865 0.49 -0.8
4,389,747 - PP_3865 0.49 -0.8
4,389,846 + PP_3865 0.54 +0.5
4,389,847 - -0.0
4,389,912 + PP_3865 0.58 +0.4
4,389,912 + PP_3865 0.58 -0.8
4,389,913 - PP_3865 0.58 +0.4
4,389,957 + PP_3865 0.60 -0.0
4,389,998 + PP_3865 0.62 +0.4
4,389,998 + PP_3865 0.62 +0.5
4,389,998 + PP_3865 0.62 +1.2
4,389,998 + PP_3865 0.62 +0.5
4,389,999 - PP_3865 0.62 +0.5
4,390,017 + PP_3865 0.63 -1.4
4,390,017 + PP_3865 0.63 -0.5
4,390,223 + PP_3865 0.74 -0.2
4,390,223 + PP_3865 0.74 +1.0
4,390,224 - PP_3865 0.74 -1.5
4,390,224 - PP_3865 0.74 -0.0
4,390,228 - PP_3865 0.74 +2.2
4,390,228 - PP_3865 0.74 +0.7
4,390,434 + PP_3865 0.84 +1.5
4,390,452 + PP_3865 0.85 -0.3
4,390,452 + PP_3865 0.85 +0.0
4,390,453 - PP_3865 0.85 -0.1
4,390,453 - PP_3865 0.85 +0.0
4,390,494 + PP_3865 0.87 -0.8
4,390,564 + -0.2
4,390,792 + PP_5640 0.31 +0.3
4,390,793 - PP_5640 0.31 +0.6
4,390,793 - PP_5640 0.31 +0.6
4,390,857 + PP_5640 0.65 +0.3
4,390,997 + PP_3866 0.43 -0.4
4,390,997 + PP_3866 0.43 -0.0
4,390,998 - PP_3866 0.43 +0.8
4,391,001 + PP_3866 0.44 +0.2
4,391,052 - PP_3866 0.61 +0.6
4,391,113 - PP_3866 0.82 -0.0
4,391,263 + PP_3867 0.28 +0.7
4,391,263 + PP_3867 0.28 +0.4
4,391,263 + PP_3867 0.28 +0.1
4,391,263 + PP_3867 0.28 +0.0
4,391,263 + PP_3867 0.28 +0.2
4,391,264 - PP_3867 0.29 -1.0
4,391,264 - PP_3867 0.29 +1.0
4,391,264 - PP_3867 0.29 -0.5
4,391,264 - PP_3867 0.29 -0.7
4,391,264 - PP_3867 0.29 -0.0
4,391,267 + PP_3867 0.29 +0.1
4,391,267 + PP_3867 0.29 +1.4
4,391,268 - PP_3867 0.30 +0.7
4,391,268 - PP_3867 0.30 +0.3
4,391,361 + PP_3867 0.56 -0.9
4,391,361 + PP_3867 0.56 +0.4
4,391,361 + PP_3867 0.56 -2.1
4,391,361 + PP_3867 0.56 -0.4
4,391,361 + PP_3867 0.56 +0.5
4,391,362 - PP_3867 0.56 +0.8
4,391,362 - PP_3867 0.56 +0.0
4,391,365 + PP_3867 0.57 -0.4
4,391,365 + PP_3867 0.57 +0.3
4,391,365 + +0.6
4,391,365 + PP_3867 0.57 -2.3
4,391,365 + PP_3867 0.57 -0.7
4,391,365 + PP_3867 0.57 -0.4
4,391,365 + PP_3867 0.57 -0.1
4,391,365 + PP_3867 0.57 -0.5
4,391,366 - PP_3867 0.57 -1.0
4,391,366 - PP_3867 0.57 -0.8
4,391,366 - PP_3867 0.57 -0.4
4,391,366 - PP_3867 0.57 +0.3
4,391,366 - PP_3867 0.57 +1.0
4,391,366 - PP_3867 0.57 -1.1
4,391,366 - PP_3867 0.57 -0.7

Or see this region's nucleotide sequence