Strain Fitness in Pseudomonas putida KT2440 around PP_3950

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs

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.

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
4,453,811	+				-0.5
4,453,811	+				-0.8
4,453,868	+				-0.3
4,454,081	-		PP_3949	0.18	+0.4
4,454,082	+		PP_3949	0.18	-0.2
4,454,082	+		PP_3949	0.18	-3.2
4,454,082	+		PP_3949	0.18	+0.0
4,454,083	-		PP_3949	0.19	-0.1
4,454,083	-		PP_3949	0.19	+0.7
4,454,083	-		PP_3949	0.19	+1.6
4,454,083	-		PP_3949	0.19	+0.8
4,454,088	+		PP_3949	0.19	+1.1
4,454,112	+		PP_3949	0.23	-2.7
4,454,131	+		PP_3949	0.26	+1.1
4,454,131	+				+0.9
4,454,132	-		PP_3949	0.26	-1.2
4,454,132	-		PP_3949	0.26	-0.5
4,454,295	+		PP_3949	0.52	-0.7
4,454,295	+		PP_3949	0.52	+1.2
4,454,295	+		PP_3949	0.52	-4.3
4,454,295	+		PP_3949	0.52	-1.1
4,454,295	+		PP_3949	0.52	-1.1
4,454,295	+		PP_3949	0.52	-0.5
4,454,298	+		PP_3949	0.52	+1.1
4,454,298	+		PP_3949	0.52	-2.7
4,454,298	+		PP_3949	0.52	+0.1
4,454,298	+		PP_3949	0.52	-1.3
4,454,299	-		PP_3949	0.52	-0.6
4,454,299	-		PP_3949	0.52	-0.7
4,454,299	-		PP_3949	0.52	-1.3
4,454,391	+		PP_3949	0.67	+0.7
4,454,391	+		PP_3949	0.67	+2.1
4,454,391	+		PP_3949	0.67	+0.2
4,454,392	-		PP_3949	0.67	+0.2
4,454,392	-		PP_3949	0.67	+0.9
4,454,392	-		PP_3949	0.67	+0.2
4,454,392	-		PP_3949	0.67	-0.2
4,454,392	-		PP_3949	0.67	-0.5
4,454,392	-		PP_3949	0.67	-3.3
4,454,392	-		PP_3949	0.67	+1.1
4,454,392	-		PP_3949	0.67	-2.0
4,454,392	-		PP_3949	0.67	-0.2
4,454,392	-		PP_3949	0.67	-0.3
4,454,392	-		PP_3949	0.67	-0.7
4,454,442	+		PP_3949	0.75	-1.7
4,454,443	-		PP_3949	0.75	+0.4
4,454,443	-		PP_3949	0.75	-4.0
4,454,445	+		PP_3949	0.75	+0.9
4,454,445	+		PP_3949	0.75	-2.2
4,454,445	+		PP_3949	0.75	-0.4
4,454,445	+		PP_3949	0.75	+1.5
4,454,445	+		PP_3949	0.75	-0.7
4,454,445	+		PP_3949	0.75	-1.6
4,454,445	+		PP_3949	0.75	+1.5
4,454,445	+		PP_3949	0.75	+0.4
4,454,446	-		PP_3949	0.75	-0.2
4,454,446	-		PP_3949	0.75	-0.3
4,454,446	-		PP_3949	0.75	-3.2
4,454,446	-		PP_3949	0.75	+0.7
4,454,446	-		PP_3949	0.75	+0.0
4,454,446	-		PP_3949	0.75	+0.7
4,454,446	-		PP_3949	0.75	+0.0
4,454,446	-		PP_3949	0.75	+0.8
4,454,545	+				+0.3
4,454,545	+				+0.5
4,454,546	-				-3.7
4,454,546	-				-2.2
4,454,546	-				-0.6
4,454,755	+				-3.5
4,454,756	-				-1.8
4,454,973	+				+0.6
4,454,973	+				+0.1
4,455,041	+		PP_3950	0.11	-2.5
4,455,041	+		PP_3950	0.11	-0.5
4,455,041	+		PP_3950	0.11	+1.7
4,455,116	+		PP_3950	0.14	+1.2
4,455,116	+		PP_3950	0.14	+0.0
4,455,566	+		PP_3950	0.35	-1.8
4,455,566	+		PP_3950	0.35	-3.3
4,455,566	+		PP_3950	0.35	-4.1
4,455,567	-		PP_3950	0.35	-0.1
4,455,770	+		PP_3950	0.44	+1.1
4,455,770	+		PP_3950	0.44	-0.5
4,455,770	+		PP_3950	0.44	-3.5
4,455,771	-		PP_3950	0.44	-1.9
4,455,771	-		PP_3950	0.44	+0.0
4,455,771	-		PP_3950	0.44	-2.6
4,455,771	-		PP_3950	0.44	-0.3
4,455,784	+		PP_3950	0.45	+0.8
4,455,897	+		PP_3950	0.50	-3.7
4,455,897	+				-0.4
4,455,897	+		PP_3950	0.50	+0.6
4,455,898	-		PP_3950	0.50	+0.7
4,455,898	-		PP_3950	0.50	+0.2
4,455,898	-				+2.3
4,455,912	+		PP_3950	0.51	+0.3
4,455,913	-		PP_3950	0.51	-0.3
4,455,913	-		PP_3950	0.51	-0.2
4,455,913	-		PP_3950	0.51	+1.1
4,455,948	+		PP_3950	0.52	-0.5
4,455,948	+				+0.3
4,455,948	+		PP_3950	0.52	+0.8
4,455,949	-		PP_3950	0.52	+0.0
4,455,949	-		PP_3950	0.52	-1.2
4,455,949	-		PP_3950	0.52	-0.0
4,455,949	-		PP_3950	0.52	+0.3
4,455,967	-		PP_3950	0.53	-1.5
4,456,087	-		PP_3950	0.59	-1.0
4,456,104	+		PP_3950	0.60	-0.2
4,456,104	+		PP_3950	0.60	-0.3
4,456,105	-		PP_3950	0.60	+1.2
4,456,217	+		PP_3950	0.65	-0.9
4,456,218	-		PP_3950	0.65	-3.1
4,456,218	-		PP_3950	0.65	-0.8
4,456,218	-		PP_3950	0.65	-0.7
4,456,240	+		PP_3950	0.66	-3.3
4,456,240	+		PP_3950	0.66	+2.0
4,456,240	+		PP_3950	0.66	-0.1
4,456,316	+		PP_3950	0.69	+0.5
4,456,316	+		PP_3950	0.69	+0.9
4,456,317	-		PP_3950	0.69	-0.4
4,456,317	-		PP_3950	0.69	-3.1
4,456,353	+		PP_3950	0.71	-0.7
4,456,354	-		PP_3950	0.71	-0.7
4,456,354	-		PP_3950	0.71	-0.8
4,456,354	-		PP_3950	0.71	-1.3
4,456,354	-		PP_3950	0.71	-1.0
4,456,476	+		PP_3950	0.77	-1.8
4,456,476	+		PP_3950	0.77	+1.9
4,456,477	-		PP_3950	0.77	-0.4
4,456,477	-		PP_3950	0.77	-3.8
4,456,477	-		PP_3950	0.77	+0.2
4,456,477	-		PP_3950	0.77	-0.3
4,456,548	+		PP_3950	0.80	+0.3
4,456,548	+		PP_3950	0.80	-0.7
4,456,549	-		PP_3950	0.80	+0.5
4,456,606	+		PP_3950	0.83	+0.0
4,456,607	-		PP_3950	0.83	+1.2
4,456,607	-		PP_3950	0.83	-0.5
4,456,607	-		PP_3950	0.83	-0.3
4,456,943	+				-0.9
4,456,944	-				+0.8
4,456,944	-				-1.1
4,456,944	-				-1.5
4,456,973	+				+1.1
4,456,973	+				+0.5
4,456,974	-				-2.4
4,456,974	-				+0.6
4,456,974	-				-0.6
4,456,984	+				-2.8
4,456,985	-				-1.4
4,456,985	-				-0.6
4,457,165	-				-0.1
4,457,244	-				+0.7
4,457,258	+				-0.1
4,457,259	-				-2.9
4,457,260	+				+0.2
4,457,378	+				-0.4
4,457,379	-				-3.6
4,457,616	-		PP_3951	0.36	-1.1
4,457,616	-		PP_3951	0.36	+1.1
4,457,616	-		PP_3951	0.36	-0.1
4,457,616	-		PP_3951	0.36	+0.2
4,457,792	+		PP_3951	0.62	-0.5
4,457,792	+		PP_3951	0.62	+0.2
4,457,792	+		PP_3951	0.62	-1.0
4,457,793	-		PP_3951	0.62	+0.4
4,457,793	-		PP_3951	0.62	-1.7