Strain Fitness in Pseudomonas putida KT2440 around PP_4454

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_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=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs
5,053,541	+		PP_4453	0.50	-3.1
5,053,600	+		PP_4453	0.54	-1.4
5,053,600	+		PP_4453	0.54	-2.7
5,053,600	+		PP_4453	0.54	-1.8
5,053,601	-		PP_4453	0.54	+0.2
5,053,601	-		PP_4453	0.54	-0.5
5,053,601	-		PP_4453	0.54	-1.7
5,053,601	-		PP_4453	0.54	+1.9
5,053,616	+		PP_4453	0.54	+0.2
5,053,676	+		PP_4453	0.58	-4.1
5,053,677	-		PP_4453	0.58	-0.5
5,053,678	+		PP_4453	0.58	+0.1
5,053,741	+		PP_4453	0.61	+1.8
5,053,741	+		PP_4453	0.61	+2.9
5,053,741	+		PP_4453	0.61	+1.0
5,053,741	+		PP_4453	0.61	-2.7
5,053,754	+		PP_4453	0.62	+0.6
5,053,754	+		PP_4453	0.62	-2.0
5,053,754	+		PP_4453	0.62	+0.3
5,053,754	+		PP_4453	0.62	-1.5
5,053,754	+		PP_4453	0.62	-2.3
5,053,755	-		PP_4453	0.62	+1.9
5,053,764	+		PP_4453	0.63	+0.6
5,053,765	-				-0.7
5,053,784	+		PP_4453	0.64	-1.9
5,053,784	+		PP_4453	0.64	-1.2
5,053,784	+		PP_4453	0.64	+0.8
5,053,975	+		PP_4453	0.74	+2.3
5,053,976	-		PP_4453	0.74	+1.9
5,053,985	-		PP_4453	0.75	-0.6
5,054,071	-		PP_4453	0.79	-1.5
5,054,196	+		PP_4453	0.86	+0.9
5,054,197	-		PP_4453	0.86	-2.4
5,054,197	-		PP_4453	0.86	+0.3
5,054,197	-		PP_4453	0.86	-0.8
5,054,243	+		PP_4453	0.89	-3.1
5,054,243	+		PP_4453	0.89	+0.9
5,054,244	-		PP_4453	0.89	+0.0
5,054,244	-		PP_4453	0.89	+0.4
5,054,244	-		PP_4453	0.89	-3.4
5,054,246	+		PP_4453	0.89	+2.2
5,054,246	+		PP_4453	0.89	-0.1
5,054,246	+		PP_4453	0.89	-0.4
5,054,246	+		PP_4453	0.89	-3.0
5,054,247	-		PP_4453	0.89	-0.6
5,054,247	-		PP_4453	0.89	-0.4
5,054,397	-				+1.0
5,054,397	-				+1.6
5,054,451	-				+1.8
5,054,451	-				+0.9
5,054,451	-				-0.2
5,054,451	-				+1.7
5,054,484	-				+0.6
5,054,507	+				+0.5
5,054,507	+				+0.1
5,054,507	+				-3.2
5,054,507	+				-4.4
5,054,507	+				-3.6
5,054,508	-				+0.3
5,054,508	-				-3.8
5,054,508	-				-0.9
5,054,508	-				-2.7
5,054,508	-				+1.0
5,054,508	-				+1.5
5,054,508	-				-0.2
5,054,513	+				+2.4
5,054,513	+				-2.3
5,054,514	-				+1.0
5,054,514	-				+0.8
5,054,514	-				-0.7
5,054,539	+				+0.6
5,054,573	+				-2.4
5,054,765	+		PP_4454	0.29	-0.8
5,054,766	-		PP_4454	0.29	+1.2
5,054,766	-		PP_4454	0.29	+1.0
5,054,798	-		PP_4454	0.32	+2.4
5,054,798	-		PP_4454	0.32	+1.3
5,054,798	-		PP_4454	0.32	-2.3
5,054,798	-		PP_4454	0.32	-3.8
5,054,826	+		PP_4454	0.36	-3.6
5,054,873	+		PP_4454	0.41	-0.4
5,054,873	+		PP_4454	0.41	+0.7
5,054,873	+		PP_4454	0.41	+1.6
5,054,873	+		PP_4454	0.41	+1.1
5,054,873	+		PP_4454	0.41	+2.3
5,054,873	+		PP_4454	0.41	-1.8
5,054,873	+		PP_4454	0.41	+1.0
5,054,873	+		PP_4454	0.41	-3.2
5,054,874	-		PP_4454	0.41	+1.6
5,054,874	-		PP_4454	0.41	-2.7
5,054,874	-		PP_4454	0.41	+0.6
5,054,874	-		PP_4454	0.41	-0.7
5,054,894	-		PP_4454	0.43	-0.0
5,055,041	+		PP_4454	0.60	+2.1
5,055,041	+		PP_4454	0.60	-0.0
5,055,041	+		PP_4454	0.60	-1.2
5,055,041	+		PP_4454	0.60	-2.6
5,055,055	-		PP_4454	0.62	-0.8
5,055,171	+		PP_4454	0.75	+1.5
5,055,171	+		PP_4454	0.75	+0.8
5,055,171	+		PP_4454	0.75	+0.4
5,055,171	+		PP_4454	0.75	+1.1
5,055,171	+		PP_4454	0.75	+0.8
5,055,172	-		PP_4454	0.75	+2.0
5,055,172	-		PP_4454	0.75	+2.1
5,055,218	-		PP_4454	0.80	+0.3
5,055,219	+		PP_4454	0.81	+0.8
5,055,246	+		PP_4454	0.84	+0.8
5,055,247	-		PP_4454	0.84	-0.7
5,055,362	+				-3.1
5,055,382	+				-1.3
5,055,382	+				-0.3
5,055,420	-				+0.8
5,055,442	+				+0.9
5,055,442	+				+2.3
5,055,443	-				-2.7
5,055,494	+		PP_4455	0.12	-0.4
5,055,494	+		PP_4455	0.12	+0.9
5,055,494	+		PP_4455	0.12	-1.2
5,055,494	+		PP_4455	0.12	+0.9
5,055,495	-		PP_4455	0.12	-2.1
5,055,495	-		PP_4455	0.12	-0.9
5,055,594	-		PP_4455	0.22	+0.6
5,055,601	+		PP_4455	0.23	-3.3
5,055,601	+		PP_4455	0.23	-0.1
5,055,602	-		PP_4455	0.23	-3.3
5,055,602	-		PP_4455	0.23	-3.2
5,055,604	+		PP_4455	0.23	+1.2
5,055,605	-		PP_4455	0.23	-2.0
5,055,605	-		PP_4455	0.23	-0.3
5,055,605	-		PP_4455	0.23	-0.3
5,055,630	+		PP_4455	0.26	+2.5
5,055,630	+		PP_4455	0.26	+1.6
5,055,631	-		PP_4455	0.26	-3.8
5,055,660	+		PP_4455	0.29	-3.2
5,055,660	+		PP_4455	0.29	-0.6
5,055,660	+		PP_4455	0.29	-0.5
5,055,695	+		PP_4455	0.33	-2.4
5,055,696	-		PP_4455	0.33	+0.6
5,055,696	-		PP_4455	0.33	-0.0
5,055,696	-		PP_4455	0.33	-0.1
5,055,746	+		PP_4455	0.38	+0.5
5,055,746	+		PP_4455	0.38	+0.1
5,055,746	+		PP_4455	0.38	+0.4
5,055,746	+		PP_4455	0.38	+1.3
5,055,746	+		PP_4455	0.38	-3.5
5,055,746	+		PP_4455	0.38	+0.3
5,055,746	+		PP_4455	0.38	-0.7
5,055,747	-		PP_4455	0.38	-1.0
5,055,747	-		PP_4455	0.38	+0.9
5,055,747	-		PP_4455	0.38	+1.5
5,055,747	-		PP_4455	0.38	-1.2
5,055,938	+		PP_4455	0.59	+1.3
5,055,939	-		PP_4455	0.59	+0.7
5,055,939	-		PP_4455	0.59	+3.0
5,056,043	-		PP_4455	0.70	-0.4
5,056,043	-		PP_4455	0.70	-1.5
5,056,054	+		PP_4455	0.71	-0.6
5,056,054	+		PP_4455	0.71	-0.1
5,056,131	+		PP_4455	0.79	-0.5
5,056,131	+		PP_4455	0.79	+1.7
5,056,131	+		PP_4455	0.79	-0.9
5,056,131	+		PP_4455	0.79	-2.8
5,056,131	+		PP_4455	0.79	+0.2
5,056,132	-		PP_4455	0.79	+0.1
5,056,132	-		PP_4455	0.79	-3.3
5,056,132	-		PP_4455	0.79	-0.1
5,056,132	-		PP_4455	0.79	-0.8
5,056,133	+		PP_4455	0.79	-2.0
5,056,133	+		PP_4455	0.79	+1.1
5,056,133	+		PP_4455	0.79	+1.7
5,056,133	+		PP_4455	0.79	-0.6
5,056,133	+		PP_4455	0.79	-1.7
5,056,133	+		PP_4455	0.79	+0.5
5,056,133	+		PP_4455	0.79	-4.0
5,056,133	+		PP_4455	0.79	-0.0
5,056,133	+		PP_4455	0.79	+1.2
5,056,133	+		PP_4455	0.79	+1.4
5,056,133	+		PP_4455	0.79	+0.6
5,056,133	+		PP_4455	0.79	+3.0
5,056,134	-		PP_4455	0.80	+0.5
5,056,134	-		PP_4455	0.80	-2.8
5,056,134	-		PP_4455	0.80	+0.4
5,056,134	-		PP_4455	0.80	-3.2
5,056,134	-		PP_4455	0.80	-1.1
5,056,134	-		PP_4455	0.80	+2.1
5,056,134	-		PP_4455	0.80	+0.8
5,056,157	-		PP_4455	0.82	-2.9
5,056,157	-		PP_4455	0.82	+0.9
5,056,252	+				+1.9
5,056,253	-				+1.1
5,056,309	-				-3.1