Strain Fitness in Pseudomonas putida KT2440 around PP_4380

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
4,971,202	-		PP_4379	0.61	-0.3
4,971,202	-		PP_4379	0.61	-1.7
4,971,210	+		PP_4379	0.62	-2.5
4,971,210	+		PP_4379	0.62	-2.1
4,971,211	-		PP_4379	0.62	+0.7
4,971,211	-		PP_4379	0.62	-1.3
4,971,211	-		PP_4379	0.62	-1.2
4,971,216	+		PP_4379	0.62	-2.4
4,971,216	+		PP_4379	0.62	-1.5
4,971,216	+		PP_4379	0.62	-0.9
4,971,217	-		PP_4379	0.62	-2.1
4,971,217	-		PP_4379	0.62	-1.8
4,971,510	+				-0.9
4,971,510	+				+3.5
4,971,510	+				-0.3
4,971,510	+				+0.8
4,971,510	+				+1.5
4,971,511	-				-0.3
4,971,511	-				+1.2
4,971,511	-				-0.9
4,971,537	+				-2.5
4,971,651	+				-1.2
4,971,652	-				+0.4
4,971,703	+				+1.2
4,971,703	+				-1.9
4,971,704	-				+0.7
4,971,704	-				+1.5
4,971,704	-				-1.9
4,971,704	-				-2.8
4,971,704	-				-1.6
4,971,704	-				+2.7
4,971,704	-				-1.1
4,971,708	+				+0.7
4,971,753	+				+0.3
4,971,844	-				+0.4
4,971,844	-				+0.8
4,971,844	-				+1.2
4,971,896	+				+2.2
4,971,983	+				-3.3
4,971,983	+				-2.4
4,971,983	+				+0.1
4,972,003	+				+2.2
4,972,003	+				-0.3
4,972,003	+				-0.7
4,972,003	+				-2.0
4,972,004	-				-0.1
4,972,310	-		PP_4380	0.21	-2.8
4,972,310	-		PP_4380	0.21	-3.5
4,972,323	+		PP_4380	0.22	-0.6
4,972,324	-		PP_4380	0.22	-1.4
4,972,324	-		PP_4380	0.22	-2.1
4,972,351	-		PP_4380	0.24	-3.5
4,972,407	+		PP_4380	0.27	-0.6
4,972,407	+		PP_4380	0.27	+1.6
4,972,408	-		PP_4380	0.27	-1.5
4,972,408	-		PP_4380	0.27	-0.9
4,972,441	+		PP_4380	0.29	+1.8
4,972,442	-		PP_4380	0.29	-1.3
4,972,442	-		PP_4380	0.29	-1.1
4,972,446	+		PP_4380	0.30	-3.7
4,972,447	-		PP_4380	0.30	-2.7
4,972,478	+		PP_4380	0.32	-2.9
4,972,479	-		PP_4380	0.32	-2.3
4,972,499	+		PP_4380	0.33	-3.4
4,972,499	+		PP_4380	0.33	-3.5
4,972,551	+		PP_4380	0.36	+0.2
4,972,551	+		PP_4380	0.36	-3.0
4,972,551	+		PP_4380	0.36	-0.2
4,972,552	-		PP_4380	0.36	+0.3
4,972,552	-		PP_4380	0.36	-4.6
4,972,552	-		PP_4380	0.36	-2.9
4,972,552	-		PP_4380	0.36	-3.3
4,972,761	+		PP_4380	0.50	-3.6
4,972,892	+		PP_4380	0.58	-4.0
4,972,892	+		PP_4380	0.58	-3.7
4,972,892	+		PP_4380	0.58	-1.3
4,972,930	+		PP_4380	0.61	-0.9
4,972,930	+		PP_4380	0.61	-4.1
4,972,930	+		PP_4380	0.61	-0.8
4,972,931	-		PP_4380	0.61	-1.8
4,972,931	-		PP_4380	0.61	+0.7
4,973,009	+		PP_4380	0.66	-0.6
4,973,009	+		PP_4380	0.66	-1.2
4,973,010	-		PP_4380	0.66	-3.6
4,973,081	+		PP_4380	0.70	-3.1
4,973,081	+		PP_4380	0.70	+0.2
4,973,082	-		PP_4380	0.70	-0.2
4,973,082	-		PP_4380	0.70	-0.7
4,973,087	+		PP_4380	0.71	-0.3
4,973,087	+		PP_4380	0.71	-3.2
4,973,087	+		PP_4380	0.71	-2.8
4,973,087	+		PP_4380	0.71	-1.2
4,973,087	+		PP_4380	0.71	-1.7
4,973,088	-		PP_4380	0.71	-3.5
4,973,088	-		PP_4380	0.71	-1.3
4,973,088	-		PP_4380	0.71	+0.3
4,973,088	-		PP_4380	0.71	+2.3
4,973,088	-		PP_4380	0.71	+0.2
4,973,088	-		PP_4380	0.71	-3.0
4,973,088	-		PP_4380	0.71	-4.0
4,973,088	-		PP_4380	0.71	+0.3
4,973,088	-		PP_4380	0.71	+0.2
4,973,111	+		PP_4380	0.72	-2.3
4,973,111	+		PP_4380	0.72	+1.0
4,973,112	-		PP_4380	0.72	-2.9
4,973,112	-		PP_4380	0.72	-2.0
4,973,112	-		PP_4380	0.72	-2.4
4,973,147	+		PP_4380	0.74	-2.5
4,973,147	+		PP_4380	0.74	-0.0
4,973,147	+		PP_4380	0.74	-0.2
4,973,148	-		PP_4380	0.74	-1.8
4,973,148	-		PP_4380	0.74	+0.5
4,973,148	-		PP_4380	0.74	+0.3
4,973,148	-		PP_4380	0.74	-2.6
4,973,148	-		PP_4380	0.74	+0.6
4,973,226	+		PP_4380	0.79	-4.7
4,973,364	-		PP_4380	0.88	-0.3
4,973,364	-		PP_4380	0.88	-0.5
4,973,470	-				-1.5
4,973,489	+				+0.3
4,973,489	+				-2.8
4,973,490	-				+1.2
4,973,502	-				-1.9
4,973,502	-				-1.7
4,973,502	-				-1.0
4,973,505	+				-2.5
4,973,505	+				-3.6
4,973,505	+				-0.8
4,973,505	+				-1.7
4,973,506	-				+0.2
4,973,506	-				-2.3
4,973,522	+				-4.3
4,973,562	+				-3.7
4,973,562	+				+0.5
4,973,563	-				-0.3
4,973,572	+				+1.2
4,973,628	+				-3.2
4,973,628	+				+0.9
4,973,629	-				+0.1
4,973,629	-				+0.7
4,973,629	-				-3.4
4,973,631	+				-1.0
4,973,632	-				-1.7
4,973,632	-				-1.1
4,973,911	+		PP_4381	0.17	-4.0
4,973,911	+		PP_4381	0.17	-4.1
4,973,911	+		PP_4381	0.17	-1.3
4,973,911	+		PP_4381	0.17	-3.7
4,973,975	-		PP_4381	0.20	+1.4
4,974,076	-		PP_4381	0.25	-1.6
4,974,102	+		PP_4381	0.26	-1.3
4,974,103	-		PP_4381	0.27	-0.4
4,974,198	+		PP_4381	0.31	-1.3
4,974,198	+		PP_4381	0.31	+0.2
4,974,198	+		PP_4381	0.31	+0.1
4,974,199	-		PP_4381	0.31	-3.2
4,974,199	-		PP_4381	0.31	-2.2
4,974,199	-		PP_4381	0.31	-3.8
4,974,199	-		PP_4381	0.31	-2.5
4,974,199	-		PP_4381	0.31	-0.2
4,974,202	+		PP_4381	0.31	+0.6
4,974,203	-				+2.2
4,974,203	-		PP_4381	0.31	+1.0
4,974,203	-		PP_4381	0.31	-0.4
4,974,203	-		PP_4381	0.31	-1.9
4,974,203	-		PP_4381	0.31	-4.3
4,974,203	-		PP_4381	0.31	+0.9
4,974,223	+		PP_4381	0.32	-2.7
4,974,223	+		PP_4381	0.32	-2.4
4,974,223	+		PP_4381	0.32	-4.1
4,974,223	+		PP_4381	0.32	-2.3
4,974,224	-		PP_4381	0.32	-3.9
4,974,413	+		PP_4381	0.42	-4.1
4,974,413	+		PP_4381	0.42	-1.0
4,974,414	-		PP_4381	0.42	+0.2
4,974,484	-		PP_4381	0.45	-1.4
4,974,484	-		PP_4381	0.45	-0.7
4,974,513	+		PP_4381	0.47	-3.8
4,974,513	+		PP_4381	0.47	-3.3
4,974,519	+		PP_4381	0.47	-1.1
4,974,520	-		PP_4381	0.47	+1.3
4,974,520	-		PP_4381	0.47	-3.3