Strain Fitness in Pseudomonas putida KT2440 around PP_3856

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
4,378,764	+				+1.1
4,378,769	+				+0.1
4,378,811	+				-0.2
4,378,811	+				+0.8
4,378,811	+				-3.1
4,378,812	-				-4.1
4,378,812	-				-0.2
4,378,812	-				-3.8
4,378,812	-				-4.4
4,378,812	-				+0.4
4,378,841	+		PP_5639	0.11	-3.4
4,378,915	+		PP_5639	0.31	+0.3
4,378,939	+		PP_5639	0.37	+0.4
4,378,939	+		PP_5639	0.37	-2.4
4,378,940	-		PP_5639	0.38	-2.8
4,378,940	-		PP_5639	0.38	+0.9
4,378,940	-		PP_5639	0.38	-2.7
4,378,940	-		PP_5639	0.38	-0.7
4,378,940	-		PP_5639	0.38	+2.5
4,378,941	+		PP_5639	0.38	-2.7
4,378,955	-		PP_5639	0.42	-3.7
4,378,971	-		PP_5639	0.46	+1.8
4,378,971	-		PP_5639	0.46	-2.3
4,378,971	-		PP_5639	0.46	+0.5
4,378,995	-		PP_5639	0.53	+0.9
4,378,995	-		PP_5639	0.53	-1.8
4,379,008	+		PP_5639	0.56	+1.7
4,379,074	+		PP_5639	0.74	+0.7
4,379,075	-		PP_5639	0.74	-2.6
4,379,075	-		PP_5639	0.74	-1.0
4,379,083	+		PP_5639	0.76	+1.2
4,379,083	+		PP_5639	0.76	+2.8
4,379,084	-		PP_5639	0.77	+0.4
4,379,084	-		PP_5639	0.77	+1.0
4,379,084	-		PP_5639	0.77	+0.9
4,379,084	-		PP_5639	0.77	-0.6
4,379,084	-		PP_5639	0.77	-1.7
4,379,084	-		PP_5639	0.77	-0.5
4,379,090	+		PP_5639	0.78	+0.1
4,379,090	+		PP_5639	0.78	-1.0
4,379,091	-		PP_5639	0.79	+0.4
4,379,105	+		PP_5639	0.82	-0.5
4,379,179	+		PP_3855	0.29	-0.4
4,379,187	+		PP_3855	0.32	+0.8
4,379,187	+		PP_3855	0.32	+0.3
4,379,198	+		PP_3855	0.37	-0.2
4,379,198	+		PP_3855	0.37	-1.3
4,379,199	-		PP_3855	0.38	+1.5
4,379,213	+		PP_3855	0.44	-2.3
4,379,213	+		PP_3855	0.44	-0.5
4,379,213	+		PP_3855	0.44	+0.1
4,379,214	-		PP_3855	0.44	+0.6
4,379,214	-		PP_3855	0.44	+0.7
4,379,257	+		PP_3855	0.64	-3.0
4,379,305	-		PP_3855	0.85	+1.4
4,379,354	+				-4.1
4,379,421	+				+0.2
4,379,442	-				+1.8
4,379,468	-				+1.3
4,379,483	-				-3.1
4,379,508	-				+2.1
4,379,542	+				-4.1
4,379,542	+				+0.6
4,379,542	+				+0.3
4,379,543	-				-0.5
4,379,543	-				-3.2
4,379,543	-				+1.1
4,379,572	+				-0.0
4,379,572	+				+0.3
4,379,572	+				-0.9
4,379,573	-				-3.4
4,379,573	-				-3.4
4,379,574	-				+0.9
4,379,580	+				-0.1
4,379,580	+				-0.3
4,379,580	+				+0.6
4,379,580	+				+0.7
4,379,580	+				-1.2
4,379,581	-				+0.5
4,379,581	-				+2.6
4,379,582	+				+1.2
4,379,583	-				+1.8
4,379,631	+				+0.8
4,379,631	+				-0.2
4,379,632	-				+0.6
4,379,632	-				-2.5
4,379,695	-				-0.2
4,379,695	-				-3.3
4,379,740	+				-3.8
4,379,763	-				+1.4
4,379,763	-				+1.7
4,379,766	-				-0.4
4,379,783	+				-0.1
4,379,784	-				-0.1
4,379,784	-				+0.3
4,379,791	+				-2.1
4,379,791	+				+0.7
4,379,866	-		PP_3856	0.14	+2.5
4,379,880	+		PP_3856	0.16	+1.7
4,379,881	-		PP_3856	0.16	+0.3
4,379,881	-		PP_3856	0.16	+0.2
4,379,881	-		PP_3856	0.16	+0.2
4,379,881	-		PP_3856	0.16	-3.8
4,379,968	+		PP_3856	0.27	+0.5
4,379,972	+				-1.1
4,379,973	-		PP_3856	0.28	-2.0
4,379,973	-		PP_3856	0.28	+0.5
4,379,986	-		PP_3856	0.29	+1.1
4,380,002	+		PP_3856	0.32	+0.7
4,380,003	-				-1.2
4,380,053	+		PP_3856	0.38	+1.1
4,380,053	+				-0.4
4,380,054	-		PP_3856	0.38	+0.8
4,380,125	+		PP_3856	0.48	+0.2
4,380,125	+		PP_3856	0.48	+0.3
4,380,125	+		PP_3856	0.48	+0.9
4,380,125	+		PP_3856	0.48	+0.7
4,380,125	+		PP_3856	0.48	+1.5
4,380,126	-		PP_3856	0.48	+1.4
4,380,237	+		PP_3856	0.62	+0.8
4,380,237	+		PP_3856	0.62	+1.0
4,380,237	+		PP_3856	0.62	+3.2
4,380,237	+				+0.2
4,380,238	-		PP_3856	0.62	+0.2
4,380,250	+		PP_3856	0.64	+1.2
4,380,250	+		PP_3856	0.64	+0.9
4,380,250	+		PP_3856	0.64	+0.5
4,380,251	-		PP_3856	0.64	+0.2
4,380,265	-		PP_3856	0.66	+0.5
4,380,345	+		PP_3856	0.76	+2.2
4,380,351	+		PP_3856	0.77	+2.5
4,380,352	-		PP_3856	0.77	+0.1
4,380,517	+				-1.0
4,380,517	+				+1.0
4,380,518	-				-0.1
4,380,518	-				-0.4
4,380,518	-				+0.0
4,380,518	-				-0.6
4,380,551	+				+0.7
4,380,551	+				-0.2
4,380,551	+				-0.8
4,380,552	-				+0.9
4,380,552	-				+2.4
4,380,552	-				+1.2
4,380,552	-				+0.6
4,380,578	+				+1.5
4,380,578	+				+0.6
4,380,579	-				-0.0
4,380,579	-				+0.9
4,380,579	-				+0.3
4,380,579	-				-3.2
4,380,579	-				+1.0
4,380,579	-				-0.5
4,380,667	+				-1.8
4,380,667	+				+2.4
4,380,668	-				-1.7
4,380,668	-				+0.5
4,380,784	+		PP_3857	0.11	+0.1
4,380,785	-		PP_3857	0.11	+1.2
4,380,798	-		PP_3857	0.12	-0.7
4,380,820	-		PP_3857	0.13	+0.0
4,380,863	+		PP_3857	0.14	+1.0
4,380,896	+		PP_3857	0.16	+0.0
4,380,897	-		PP_3857	0.16	-1.1
4,380,900	+		PP_3857	0.16	+1.9
4,380,900	+		PP_3857	0.16	-2.8
4,380,900	+		PP_3857	0.16	-3.4
4,380,900	+		PP_3857	0.16	-1.0
4,380,900	+		PP_3857	0.16	+1.8
4,380,901	-		PP_3857	0.16	+1.3
4,380,901	-		PP_3857	0.16	+1.1
4,380,901	-		PP_3857	0.16	+0.0
4,380,942	+		PP_3857	0.18	+0.4
4,380,943	-		PP_3857	0.18	-0.5
4,380,970	+		PP_3857	0.19	+0.0
4,380,988	+		PP_3857	0.20	-0.4
4,380,988	+		PP_3857	0.20	+0.8
4,381,021	+		PP_3857	0.21	-4.0
4,381,022	-		PP_3857	0.22	+1.1
4,381,027	+		PP_3857	0.22	+0.5
4,381,033	+		PP_3857	0.22	-0.2
4,381,034	-		PP_3857	0.22	+2.3
4,381,189	+		PP_3857	0.29	+1.7
4,381,189	+		PP_3857	0.29	-0.5
4,381,190	-		PP_3857	0.29	+1.1
4,381,288	+		PP_3857	0.33	+1.1
4,381,288	+		PP_3857	0.33	+0.6
4,381,288	+		PP_3857	0.33	-3.5
4,381,288	+		PP_3857	0.33	+0.8
4,381,289	-		PP_3857	0.33	+2.3
4,381,289	-		PP_3857	0.33	+0.4
4,381,334	+		PP_3857	0.35	+1.2
4,381,334	+		PP_3857	0.35	+0.1
4,381,417	+		PP_3857	0.39	-0.5
4,381,418	-		PP_3857	0.39	-0.6
4,381,418	-		PP_3857	0.39	-0.8
4,381,418	-		PP_3857	0.39	+2.3
4,381,422	+		PP_3857	0.39	-3.1
4,381,422	+		PP_3857	0.39	+0.0
4,381,423	-		PP_3857	0.39	+1.2
4,381,423	-		PP_3857	0.39	+0.9
4,381,423	-		PP_3857	0.39	+0.3