Strain Fitness in Pseudomonas putida KT2440 around PP_1411

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_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=288_hrs
1,607,821	+				+1.8
1,607,821	+				+0.7
1,607,822	-				-4.0
1,607,850	-				+0.2
1,607,850	-				-3.6
1,607,850	-				-0.1
1,607,878	+				+0.1
1,607,889	+				+0.0
1,607,889	+				+0.1
1,608,022	+		PP_1409	0.21	+0.2
1,608,023	+		PP_1409	0.21	+0.5
1,608,113	-		PP_1409	0.34	+0.8
1,608,139	+		PP_1409	0.38	-1.1
1,608,139	+		PP_1409	0.38	+0.1
1,608,139	+		PP_1409	0.38	-0.2
1,608,140	-		PP_1409	0.38	+1.6
1,608,140	-		PP_1409	0.38	-0.4
1,608,140	-		PP_1409	0.38	+1.1
1,608,140	-		PP_1409	0.38	+0.0
1,608,176	-		PP_1409	0.43	-0.1
1,608,279	+		PP_1409	0.58	+1.8
1,608,280	-		PP_1409	0.58	+0.4
1,608,373	+		PP_1409	0.72	+1.0
1,608,374	-		PP_1409	0.72	-0.2
1,608,374	-		PP_1409	0.72	+0.9
1,608,374	-		PP_1409	0.72	+0.8
1,608,374	-		PP_1409	0.72	+1.3
1,608,429	+		PP_1409	0.80	-0.3
1,608,430	-		PP_1409	0.80	+0.4
1,608,471	+		PP_1409	0.86	+0.2
1,608,532	+				+1.3
1,608,532	+				+1.5
1,608,533	-				+1.5
1,608,533	-				+0.3
1,608,533	-				-1.1
1,608,533	-				+1.1
1,608,699	+		PP_1410	0.52	+1.3
1,608,878	+				+0.1
1,608,940	+		PP_1411	0.11	+0.1
1,609,056	+		PP_1411	0.18	+0.4
1,609,056	+		PP_1411	0.18	+1.2
1,609,056	+		PP_1411	0.18	-1.2
1,609,056	+		PP_1411	0.18	-0.9
1,609,057	-		PP_1411	0.18	+0.7
1,609,057	-		PP_1411	0.18	-0.1
1,609,057	-		PP_1411	0.18	-1.1
1,609,057	-		PP_1411	0.18	+0.2
1,609,057	-		PP_1411	0.18	+0.6
1,609,057	-		PP_1411	0.18	-3.1
1,609,057	-		PP_1411	0.18	-3.5
1,609,058	+		PP_1411	0.19	-3.4
1,609,058	+		PP_1411	0.19	+1.1
1,609,059	-		PP_1411	0.19	+2.1
1,609,059	-		PP_1411	0.19	-0.1
1,609,059	-		PP_1411	0.19	+1.3
1,609,104	+		PP_1411	0.22	+1.2
1,609,252	+		PP_1411	0.32	+0.9
1,609,355	+		PP_1411	0.39	-0.5
1,609,356	-		PP_1411	0.39	-1.1
1,609,356	-		PP_1411	0.39	+1.1
1,609,375	+		PP_1411	0.40	-1.0
1,609,376	-		PP_1411	0.40	+0.3
1,609,432	+		PP_1411	0.44	+1.4
1,609,433	-		PP_1411	0.44	+0.0
1,609,562	+		PP_1411	0.53	+0.7
1,609,562	+		PP_1411	0.53	-1.1
1,609,563	-		PP_1411	0.53	-0.2
1,609,563	-		PP_1411	0.53	+0.7
1,609,563	-		PP_1411	0.53	+3.2
1,609,566	+		PP_1411	0.53	-0.1
1,609,566	+		PP_1411	0.53	-2.7
1,609,566	+		PP_1411	0.53	-3.8
1,609,567	-		PP_1411	0.53	-0.3
1,609,567	-		PP_1411	0.53	-0.2
1,609,567	-		PP_1411	0.53	-4.5
1,609,669	+		PP_1411	0.60	-4.2
1,609,698	+		PP_1411	0.62	+1.5
1,609,698	+		PP_1411	0.62	+0.2
1,609,698	+		PP_1411	0.62	-0.6
1,609,699	-		PP_1411	0.62	+0.8
1,609,699	-		PP_1411	0.62	-1.4
1,609,699	-		PP_1411	0.62	-0.3
1,609,742	-		PP_1411	0.65	+1.9
1,609,756	+		PP_1411	0.66	+0.6
1,609,756	+		PP_1411	0.66	+0.5
1,609,757	-		PP_1411	0.66	-0.7
1,609,757	-		PP_1411	0.66	-0.0
1,609,757	-		PP_1411	0.66	-0.9
1,609,817	-		PP_1411	0.70	+0.7
1,609,903	+		PP_1411	0.76	+0.6
1,609,903	+		PP_1411	0.76	-1.3
1,609,904	-		PP_1411	0.76	+0.0
1,609,904	-		PP_1411	0.76	-0.2
1,609,904	-		PP_1411	0.76	-2.8
1,609,904	-		PP_1411	0.76	+0.1
1,609,906	+		PP_1411	0.76	+0.3
1,609,907	-		PP_1411	0.76	+1.7
1,609,907	-		PP_1411	0.76	+0.6
1,609,907	-		PP_1411	0.76	-0.1
1,609,907	-		PP_1411	0.76	-3.9
1,609,975	+		PP_1411	0.80	+0.4
1,610,095	+		PP_1411	0.89	-3.7
1,610,167	+				+1.7
1,610,167	+				+0.6
1,610,168	-				-0.3
1,610,168	-				-3.5
1,610,168	-				-2.1
1,610,206	-				-0.3
1,610,256	+				-0.6
1,610,256	+				+0.4
1,610,256	+				+0.2
1,610,257	-				+0.5
1,610,257	-				-4.9
1,610,299	+				-3.3
1,610,299	+				+1.0
1,610,396	+				-1.2
1,610,397	-				+0.7
1,610,397	-				-0.2
1,610,484	-				-0.4
1,610,537	+		PP_5470	0.13	-0.4
1,610,537	+		PP_5470	0.13	-2.7
1,610,540	+		PP_5470	0.14	+0.5
1,610,540	+		PP_5470	0.14	-0.9
1,610,540	+		PP_5470	0.14	+0.3
1,610,541	-		PP_5470	0.14	-0.4
1,610,541	-				+0.2
1,610,541	-		PP_5470	0.14	-1.8
1,610,555	+		PP_5470	0.17	+1.5
1,610,559	-		PP_5470	0.18	-0.9
1,610,570	+		PP_5470	0.21	-2.3
1,610,571	-		PP_5470	0.21	-1.4
1,610,571	-		PP_5470	0.21	+0.7
1,610,571	-		PP_5470	0.21	+0.8
1,610,573	+		PP_5470	0.21	+0.2
1,610,574	-		PP_5470	0.22	-4.1
1,610,574	-		PP_5470	0.22	+0.1
1,610,588	+		PP_5470	0.25	-1.9
1,610,588	+		PP_5470	0.25	+1.0
1,610,589	-		PP_5470	0.25	-0.4
1,610,589	-		PP_5470	0.25	-0.2
1,610,589	-		PP_5470	0.25	-1.3
1,610,589	-		PP_5470	0.25	-3.8
1,610,589	-		PP_5470	0.25	-4.1
1,610,604	-		PP_5470	0.28	+0.7
1,610,622	-		PP_5470	0.32	+0.9
1,610,624	+		PP_5470	0.33	+0.4
1,610,624	+		PP_5470	0.33	+0.2
1,610,624	+		PP_5470	0.33	+1.7
1,610,624	+		PP_5470	0.33	+1.7
1,610,624	+		PP_5470	0.33	-2.6
1,610,624	+		PP_5470	0.33	-3.5
1,610,624	+		PP_5470	0.33	-0.6
1,610,624	+		PP_5470	0.33	-1.5
1,610,624	+		PP_5470	0.33	-0.3
1,610,624	+		PP_5470	0.33	+0.7
1,610,624	+		PP_5470	0.33	+1.2
1,610,624	+		PP_5470	0.33	+0.6
1,610,624	+		PP_5470	0.33	+0.4
1,610,625	-		PP_5470	0.33	-0.1
1,610,625	-		PP_5470	0.33	-1.1
1,610,625	-		PP_5470	0.33	-2.8
1,610,625	-		PP_5470	0.33	+0.4
1,610,625	-		PP_5470	0.33	-0.1
1,610,628	+		PP_5470	0.34	-2.9
1,610,628	+		PP_5470	0.34	-1.1
1,610,628	+		PP_5470	0.34	-0.2
1,610,629	-		PP_5470	0.34	+0.8
1,610,629	-		PP_5470	0.34	+0.0
1,610,629	-		PP_5470	0.34	+0.3
1,610,629	-		PP_5470	0.34	+0.9
1,610,629	-		PP_5470	0.34	-1.3
1,610,646	-		PP_5470	0.38	-1.8
1,610,646	-		PP_5470	0.38	-0.3
1,610,646	-		PP_5470	0.38	-0.8
1,610,646	-		PP_5470	0.38	-0.1
1,610,648	+		PP_5470	0.38	+1.2
1,610,648	+		PP_5470	0.38	-2.4
1,610,649	-		PP_5470	0.38	-0.5
1,610,649	-		PP_5470	0.38	+1.2
1,610,649	-		PP_5470	0.38	-1.0
1,610,651	+		PP_5470	0.39	-0.1
1,610,652	-		PP_5470	0.39	+1.8
1,610,652	-		PP_5470	0.39	+0.6
1,610,652	-		PP_5470	0.39	-0.6
1,610,670	-		PP_5470	0.43	-1.2
1,610,672	+		PP_5470	0.43	+0.1
1,610,756	+		PP_5470	0.62	+0.2
1,610,756	+		PP_5470	0.62	+1.2
1,610,756	+		PP_5470	0.62	-0.8
1,610,756	+		PP_5470	0.62	+0.4
1,610,756	+		PP_5470	0.62	+3.1
1,610,757	-		PP_5470	0.62	-0.1
1,610,757	-				-0.6
1,610,808	-		PP_5470	0.74	+1.1
1,611,155	+		PP_1412	0.17	-0.8
1,611,188	+		PP_1412	0.20	+1.3