Strain Fitness in Pseudomonas putida KT2440 around PP_3680

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=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=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs
4,181,273	-		PP_3678	0.78	+3.5
4,181,387	+		PP_3678	0.85	+1.8
4,181,402	+		PP_3678	0.86	+0.9
4,181,404	+		PP_3678	0.87	+0.6
4,181,426	-		PP_3678	0.88	+3.6
4,181,430	-		PP_3678	0.88	+0.2
4,181,438	-		PP_3678	0.89	-1.8
4,181,444	-		PP_3678	0.89	-0.8
4,181,479	+				+0.2
4,181,480	-				+0.1
4,181,491	-				-2.4
4,181,536	+				+0.5
4,181,545	+				+0.8
4,181,545	+				-0.1
4,181,671	+				-0.1
4,181,698	+		PP_3679	0.11	-2.5
4,181,699	-		PP_3679	0.11	+0.3
4,181,699	-		PP_3679	0.11	+0.2
4,181,819	+		PP_3679	0.48	+0.2
4,181,882	+		PP_3679	0.68	+0.7
4,181,882	+		PP_3679	0.68	+0.2
4,181,882	+		PP_3679	0.68	-0.9
4,181,885	+		PP_3679	0.69	-2.0
4,181,886	-		PP_3679	0.69	+0.2
4,181,923	+		PP_3679	0.81	-1.1
4,181,924	-		PP_3679	0.81	-0.9
4,182,020	+				-2.5
4,182,020	+				-0.4
4,182,021	-				-3.0
4,182,021	-				+0.8
4,182,024	+				+0.2
4,182,024	+				-0.7
4,182,024	+				+1.6
4,182,025	-				-0.2
4,182,025	-				-1.6
4,182,025	-				-0.5
4,182,026	+				+0.5
4,182,027	-				+0.9
4,182,027	-				-0.5
4,182,041	+				+0.7
4,182,042	-				+1.6
4,182,054	+				-0.1
4,182,055	-				+0.0
4,182,059	-				-0.1
4,182,061	+				-2.5
4,182,061	+				+2.2
4,182,062	-				-0.0
4,182,112	+				-0.1
4,182,136	+				+1.3
4,182,136	+				+0.8
4,182,137	-				+0.7
4,182,183	-				-2.2
4,182,183	-				+0.3
4,182,207	-				-1.0
4,182,207	-				+1.2
4,182,207	-				-0.3
4,182,241	+				-1.3
4,182,242	-				+0.4
4,182,356	+				+0.8
4,182,356	+				-1.3
4,182,357	-				-0.8
4,182,357	-				-1.4
4,182,357	-				+0.8
4,182,372	+				-0.3
4,182,372	+				-0.1
4,182,372	+				+0.8
4,182,372	+				+0.4
4,182,372	+				-3.0
4,182,373	-				+0.6
4,182,373	-				-2.0
4,182,373	-				+3.0
4,182,373	-				+0.8
4,182,373	-				+1.1
4,182,373	-				-0.3
4,182,376	+				+1.2
4,182,376	+				+0.5
4,182,376	+				-2.1
4,182,377	-				+2.7
4,182,377	-				-0.6
4,182,377	-				-0.1
4,182,383	+				+1.0
4,182,384	-				-2.2
4,182,658	-		PP_3680	0.22	-0.3
4,182,658	-		PP_3680	0.22	+0.6
4,182,658	-		PP_3680	0.22	+1.7
4,182,680	+		PP_3680	0.23	+0.0
4,182,692	+		PP_3680	0.23	-0.9
4,182,692	+		PP_3680	0.23	+0.6
4,182,692	+		PP_3680	0.23	+1.4
4,182,692	+		PP_3680	0.23	+1.2
4,182,692	+		PP_3680	0.23	+1.5
4,182,693	-		PP_3680	0.23	+1.2
4,182,697	+		PP_3680	0.24	+2.5
4,182,697	+		PP_3680	0.24	-0.8
4,182,698	-		PP_3680	0.24	+0.1
4,182,698	-		PP_3680	0.24	-1.6
4,182,729	+				+0.1
4,182,770	+		PP_3680	0.27	-0.6
4,182,770	+		PP_3680	0.27	+0.4
4,182,770	+		PP_3680	0.27	+0.4
4,182,770	+		PP_3680	0.27	+0.4
4,182,770	+		PP_3680	0.27	-2.5
4,182,771	-		PP_3680	0.27	+1.0
4,182,771	-		PP_3680	0.27	+0.0
4,182,771	-		PP_3680	0.27	+0.0
4,182,771	-		PP_3680	0.27	-2.4
4,182,771	-		PP_3680	0.27	+0.5
4,182,771	-		PP_3680	0.27	-0.2
4,182,781	+		PP_3680	0.28	+1.3
4,182,782	-		PP_3680	0.28	-0.8
4,182,782	-		PP_3680	0.28	+1.2
4,182,782	-		PP_3680	0.28	+0.4
4,182,785	+		PP_3680	0.28	-1.0
4,182,785	+		PP_3680	0.28	+1.3
4,182,814	-		PP_3680	0.29	+1.2
4,182,839	+		PP_3680	0.31	+1.1
4,182,839	+		PP_3680	0.31	+1.9
4,182,946	+		PP_3680	0.36	-0.3
4,183,014	+		PP_3680	0.39	-0.7
4,183,014	+		PP_3680	0.39	-1.3
4,183,014	+		PP_3680	0.39	-0.1
4,183,099	+		PP_3680	0.44	-0.7
4,183,099	+		PP_3680	0.44	+1.1
4,183,100	-		PP_3680	0.44	-1.0
4,183,135	+		PP_3680	0.46	-1.4
4,183,136	-		PP_3680	0.46	+2.1
4,183,136	-		PP_3680	0.46	+1.2
4,183,152	+		PP_3680	0.46	+1.0
4,183,152	+		PP_3680	0.46	+5.0
4,183,152	+		PP_3680	0.46	-0.3
4,183,152	+		PP_3680	0.46	-0.3
4,183,152	+		PP_3680	0.46	-2.4
4,183,152	+		PP_3680	0.46	+0.7
4,183,152	+		PP_3680	0.46	-1.7
4,183,153	-		PP_3680	0.46	-2.9
4,183,153	-		PP_3680	0.46	-0.8
4,183,153	-		PP_3680	0.46	+2.0
4,183,167	-		PP_3680	0.47	-2.8
4,183,231	+		PP_3680	0.50	+1.0
4,183,233	+		PP_3680	0.50	+0.8
4,183,233	+		PP_3680	0.50	+0.5
4,183,279	+		PP_3680	0.53	+1.8
4,183,280	-		PP_3680	0.53	+1.6
4,183,280	-		PP_3680	0.53	-1.4
4,183,393	+		PP_3680	0.58	-1.7
4,183,393	+		PP_3680	0.58	-0.3
4,183,393	+		PP_3680	0.58	+0.0
4,183,466	-		PP_3680	0.62	-2.8
4,183,466	-		PP_3680	0.62	+0.0
4,183,507	+		PP_3680	0.64	-0.3
4,183,526	+		PP_3680	0.65	-0.7
4,183,542	+		PP_3680	0.66	-1.0
4,183,560	-		PP_3680	0.67	-1.2
4,183,578	+		PP_3680	0.68	+0.2
4,183,578	+		PP_3680	0.68	+1.4
4,183,578	+		PP_3680	0.68	-0.7
4,183,600	+		PP_3680	0.69	-0.2
4,183,600	+		PP_3680	0.69	+2.1
4,183,601	-		PP_3680	0.69	-0.1
4,183,601	-		PP_3680	0.69	-0.8
4,183,671	+		PP_3680	0.72	+2.0
4,183,671	+		PP_3680	0.72	-1.4
4,183,671	+		PP_3680	0.72	-0.3
4,183,671	+		PP_3680	0.72	-0.8
4,183,680	+				+1.2
4,183,680	+		PP_3680	0.73	-2.0
4,183,680	+		PP_3680	0.73	+1.3
4,183,681	-		PP_3680	0.73	-2.3
4,183,681	-		PP_3680	0.73	+0.9
4,183,681	-		PP_3680	0.73	+0.8
4,183,681	-		PP_3680	0.73	-2.9
4,183,681	-		PP_3680	0.73	-0.8
4,183,681	-				+1.4
4,183,697	+		PP_3680	0.74	-1.2
4,183,738	+		PP_3680	0.76	-0.1
4,183,738	+		PP_3680	0.76	-2.5
4,183,738	+		PP_3680	0.76	+7.8
4,183,738	+		PP_3680	0.76	+1.2
4,183,738	+		PP_3680	0.76	-0.8
4,183,739	-		PP_3680	0.76	-0.0
4,183,761	-		PP_3680	0.77	-1.7
4,183,761	-		PP_3680	0.77	-1.0
4,183,770	+		PP_3680	0.77	-1.2
4,183,776	+		PP_3680	0.77	+2.3
4,183,776	+		PP_3680	0.77	-1.2
4,183,776	+		PP_3680	0.77	+0.8
4,183,776	+		PP_3680	0.77	-0.8
4,183,776	+		PP_3680	0.77	-1.2
4,183,776	+		PP_3680	0.77	+0.4
4,183,776	+		PP_3680	0.77	-0.2
4,183,777	-		PP_3680	0.78	-0.8
4,183,777	-		PP_3680	0.78	+0.3
4,183,777	-		PP_3680	0.78	+3.1
4,183,828	-		PP_3680	0.80	-0.6
4,183,890	-		PP_3680	0.83	+0.2
4,183,905	-		PP_3680	0.84	+1.6
4,183,905	-		PP_3680	0.84	-0.2
4,183,905	-		PP_3680	0.84	+0.1
4,184,041	+				-0.2
4,184,041	+				+0.8
4,184,074	+				+1.4
4,184,075	-				-1.6
4,184,100	+				-1.0
4,184,162	+				+0.8
4,184,260	+				+0.5
4,184,350	+				+2.2
4,184,371	-				-0.6
4,184,371	-				-0.6
4,184,371	-				-0.8
4,184,371	-				+1.9
4,184,371	-				-1.0
4,184,700	+		PP_3681	0.29	-1.0
4,184,701	-		PP_3681	0.29	+0.5
4,184,748	+		PP_3681	0.32	+0.3
4,184,862	+		PP_3681	0.39	-1.7
4,184,862	+		PP_3681	0.39	-2.2
4,184,862	+		PP_3681	0.39	+4.1
4,184,862	+		PP_3681	0.39	+0.5
4,184,863	-		PP_3681	0.39	-0.2
4,184,863	-		PP_3681	0.39	+1.0
4,184,863	-		PP_3681	0.39	-1.4
4,184,863	-				+0.0
4,184,930	-		PP_3681	0.43	+0.1
4,184,930	-		PP_3681	0.43	-0.7
4,184,930	-		PP_3681	0.43	+0.2
4,185,115	+		PP_3681	0.54	+0.4
4,185,115	+		PP_3681	0.54	+0.6
4,185,115	+		PP_3681	0.54	+0.4
4,185,116	-		PP_3681	0.54	+0.9
4,185,116	-		PP_3681	0.54	-1.2
4,185,116	-		PP_3681	0.54	-1.0
4,185,116	-		PP_3681	0.54	+2.0
4,185,141	+		PP_3681	0.55	-0.9
4,185,142	-		PP_3681	0.55	-0.3