Strain Fitness in Pseudomonas putida KT2440 around PP_4457

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_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=144_hrs
5,057,305	+		PP_4456	0.61	+2.5
5,057,305	+		PP_4456	0.61	-3.4
5,057,305	+		PP_4456	0.61	-2.2
5,057,305	+		PP_4456	0.61	-1.6
5,057,306	-		PP_4456	0.61	+0.5
5,057,308	+		PP_4456	0.61	-0.7
5,057,308	+		PP_4456	0.61	-0.4
5,057,309	-		PP_4456	0.61	-0.5
5,057,344	+		PP_4456	0.64	+0.4
5,057,345	-		PP_4456	0.64	+1.2
5,057,358	+		PP_4456	0.65	-0.2
5,057,358	+		PP_4456	0.65	+1.2
5,057,358	+		PP_4456	0.65	-1.5
5,057,358	+		PP_4456	0.65	+1.6
5,057,358	+		PP_4456	0.65	-4.2
5,057,359	-		PP_4456	0.65	+1.0
5,057,359	-		PP_4456	0.65	+1.1
5,057,359	-		PP_4456	0.65	-4.1
5,057,359	-		PP_4456	0.65	-1.0
5,057,359	-		PP_4456	0.65	-0.1
5,057,447	+		PP_4456	0.71	-0.5
5,057,447	+		PP_4456	0.71	+0.6
5,057,447	+		PP_4456	0.71	+0.7
5,057,448	-		PP_4456	0.71	-1.0
5,057,448	-		PP_4456	0.71	-0.3
5,057,448	-		PP_4456	0.71	-0.9
5,057,510	-		PP_4456	0.75	+0.5
5,057,546	+		PP_4456	0.78	+2.1
5,057,546	+		PP_4456	0.78	-0.4
5,057,547	-		PP_4456	0.78	+1.0
5,057,547	-				-0.5
5,057,547	-		PP_4456	0.78	+0.1
5,057,547	-		PP_4456	0.78	-1.6
5,057,554	+		PP_4456	0.79	+0.1
5,057,554	+		PP_4456	0.79	-0.3
5,057,554	+		PP_4456	0.79	-1.0
5,057,554	+		PP_4456	0.79	+0.3
5,057,555	-		PP_4456	0.79	+1.0
5,057,555	-		PP_4456	0.79	-0.2
5,057,555	-		PP_4456	0.79	-0.1
5,057,555	-		PP_4456	0.79	+0.5
5,057,555	-		PP_4456	0.79	-4.4
5,057,613	+		PP_4456	0.83	+0.4
5,057,613	+		PP_4456	0.83	+1.3
5,057,642	+		PP_4456	0.85	+0.8
5,057,643	-		PP_4456	0.85	+1.3
5,057,664	+		PP_4456	0.87	-4.3
5,057,665	-		PP_4456	0.87	-1.9
5,057,711	+		PP_4456	0.90	+0.4
5,057,712	-				-1.1
5,057,857	+				-0.1
5,057,857	+				-2.5
5,057,857	+				-0.8
5,057,857	+				+1.4
5,057,858	-				-0.4
5,057,858	-				+0.2
5,057,858	-				+0.8
5,057,873	+		PP_5688	0.11	+2.1
5,057,873	+		PP_5688	0.11	-2.7
5,057,911	+		PP_5688	0.27	+0.3
5,057,912	-		PP_5688	0.28	-1.2
5,057,912	-		PP_5688	0.28	-1.6
5,057,945	-		PP_5688	0.42	+0.2
5,057,981	+		PP_5688	0.58	+1.5
5,057,982	-		PP_5688	0.58	+2.1
5,057,982	-		PP_5688	0.58	-0.1
5,057,982	-		PP_5688	0.58	-0.8
5,057,982	-		PP_5688	0.58	+0.6
5,057,982	-		PP_5688	0.58	+0.3
5,058,086	-				+0.3
5,058,086	-				+0.5
5,058,099	-				+1.3
5,058,099	-				-2.3
5,058,211	-				+0.5
5,058,294	+		PP_4457	0.15	-4.3
5,058,294	+		PP_4457	0.15	-1.3
5,058,295	-		PP_4457	0.15	+2.1
5,058,295	-		PP_4457	0.15	-2.9
5,058,295	-		PP_4457	0.15	-3.6
5,058,347	+		PP_4457	0.20	+0.7
5,058,348	-				-0.4
5,058,348	-		PP_4457	0.20	+1.3
5,058,389	-		PP_4457	0.23	+0.6
5,058,389	-		PP_4457	0.23	+0.9
5,058,395	-		PP_4457	0.24	+0.8
5,058,437	+		PP_4457	0.28	-2.7
5,058,437	+		PP_4457	0.28	-3.0
5,058,437	+		PP_4457	0.28	+0.7
5,058,438	-		PP_4457	0.28	+0.5
5,058,533	-		PP_4457	0.36	-0.5
5,058,605	+		PP_4457	0.43	-4.0
5,058,606	-		PP_4457	0.43	-1.1
5,058,606	-		PP_4457	0.43	+0.5
5,058,681	-		PP_4457	0.49	-2.7
5,058,689	+		PP_4457	0.50	-0.6
5,058,689	+		PP_4457	0.50	+1.3
5,058,689	+		PP_4457	0.50	-2.0
5,058,689	+		PP_4457	0.50	-3.4
5,058,690	-		PP_4457	0.50	+0.1
5,058,690	-		PP_4457	0.50	+0.9
5,058,690	-		PP_4457	0.50	-4.1
5,058,690	-		PP_4457	0.50	-0.0
5,058,690	-		PP_4457	0.50	+0.6
5,058,690	-		PP_4457	0.50	+1.4
5,058,690	-		PP_4457	0.50	+0.9
5,058,866	+		PP_4457	0.66	+1.4
5,058,866	+		PP_4457	0.66	-0.1
5,058,866	+		PP_4457	0.66	+1.8
5,058,866	+		PP_4457	0.66	-0.8
5,058,866	+		PP_4457	0.66	-4.1
5,058,866	+		PP_4457	0.66	-0.4
5,058,867	-		PP_4457	0.66	+2.8
5,058,984	+		PP_4457	0.76	+0.8
5,059,043	-		PP_4457	0.81	+1.3
5,059,068	+		PP_4457	0.84	-0.1
5,059,068	+		PP_4457	0.84	+0.8
5,059,068	+		PP_4457	0.84	-1.6
5,059,068	+		PP_4457	0.84	+0.8
5,059,069	-		PP_4457	0.84	+0.5
5,059,069	-		PP_4457	0.84	-3.5
5,059,069	-		PP_4457	0.84	-0.2
5,059,072	+		PP_4457	0.84	-0.4
5,059,073	-		PP_4457	0.84	+0.2
5,059,073	-		PP_4457	0.84	-0.1
5,059,117	+		PP_4457	0.88	+0.7
5,059,117	+		PP_4457	0.88	+0.9
5,059,117	+		PP_4457	0.88	+0.7
5,059,118	-		PP_4457	0.88	+1.7
5,059,135	-		PP_4457	0.90	+1.2
5,059,174	+				+0.8
5,059,175	-				-0.7
5,059,227	-				-0.1
5,059,254	+				+0.7
5,059,254	+				+1.1
5,059,254	+				+0.9
5,059,255	-				-0.3
5,059,255	-				+1.2
5,059,276	+				-2.0
5,059,326	+				-2.7
5,059,326	+				-3.3
5,059,326	+				-1.5
5,059,326	+				-1.7
5,059,327	-				+0.1
5,059,327	-				+1.1
5,059,327	-				-1.1
5,059,327	-				-0.6
5,059,327	-				-0.5
5,059,327	-				+0.3
5,059,327	-				-1.3
5,059,332	+				-2.9
5,059,332	+				+0.3
5,059,332	+				+0.4
5,059,332	+				-0.6
5,059,333	-				+0.6
5,059,333	-				+0.8
5,059,352	-				+0.7
5,059,391	+				+0.1
5,059,392	-				+0.4
5,059,392	-				+0.1
5,059,392	-				-1.5
5,059,392	-				-0.9
5,059,392	-				+0.8
5,059,487	+		PP_4458	0.15	+0.8
5,059,548	+		PP_4458	0.19	+0.7
5,059,596	+		PP_4458	0.22	-0.3
5,059,597	-		PP_4458	0.22	-0.1
5,059,597	-		PP_4458	0.22	-4.4
5,059,638	+		PP_4458	0.24	+0.2
5,059,639	-		PP_4458	0.24	-0.4
5,059,639	-		PP_4458	0.24	-1.4
5,059,675	+		PP_4458	0.27	-0.9
5,059,675	+		PP_4458	0.27	+0.4
5,059,675	+		PP_4458	0.27	-3.2
5,059,702	+		PP_4458	0.28	-0.9
5,059,702	+		PP_4458	0.28	+0.4
5,059,812	+		PP_4458	0.35	+1.5
5,059,812	+		PP_4458	0.35	+1.9
5,059,813	-		PP_4458	0.35	-0.2
5,059,818	+		PP_4458	0.36	+0.8
5,059,818	+		PP_4458	0.36	-0.5
5,059,818	+		PP_4458	0.36	+0.6
5,059,819	-		PP_4458	0.36	-4.2
5,059,819	-		PP_4458	0.36	+1.3
5,059,859	+		PP_4458	0.38	+0.2
5,059,860	-		PP_4458	0.38	-3.9
5,059,860	-		PP_4458	0.38	-0.8
5,059,860	-		PP_4458	0.38	+1.7
5,059,860	-		PP_4458	0.38	+1.3
5,059,884	-		PP_4458	0.40	+1.0
5,059,884	-		PP_4458	0.40	+1.3
5,059,993	+		PP_4458	0.47	-0.0
5,060,142	+		PP_4458	0.56	-2.7
5,060,142	+		PP_4458	0.56	-1.0
5,060,143	-		PP_4458	0.56	-1.5
5,060,178	+		PP_4458	0.59	+0.4
5,060,205	+		PP_4458	0.60	+1.2
5,060,205	+		PP_4458	0.60	-0.2
5,060,205	+		PP_4458	0.60	-2.6