Strain Fitness in Pseudomonas putida KT2440 around PP_1800

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
2,021,981	-				+1.2
2,022,010	+		PP_1799	0.10	-0.4
2,022,010	+		PP_1799	0.10	-0.1
2,022,010	+		PP_1799	0.10	+0.2
2,022,011	-		PP_1799	0.10	+0.5
2,022,011	-		PP_1799	0.10	+1.2
2,022,011	-		PP_1799	0.10	+0.3
2,022,019	+		PP_1799	0.11	+0.6
2,022,019	+		PP_1799	0.11	-0.3
2,022,028	+		PP_1799	0.12	-0.8
2,022,028	+		PP_1799	0.12	-2.5
2,022,028	+		PP_1799	0.12	-0.3
2,022,028	+		PP_1799	0.12	-0.5
2,022,028	+		PP_1799	0.12	-0.7
2,022,029	-		PP_1799	0.12	-0.1
2,022,029	-		PP_1799	0.12	-0.5
2,022,029	-		PP_1799	0.12	+0.4
2,022,036	+		PP_1799	0.13	+0.2
2,022,036	+		PP_1799	0.13	+1.0
2,022,049	-		PP_1799	0.14	+0.3
2,022,049	-		PP_1799	0.14	+1.8
2,022,072	-		PP_1799	0.16	+0.5
2,022,072	-		PP_1799	0.16	+1.3
2,022,072	-		PP_1799	0.16	-0.3
2,022,109	+		PP_1799	0.19	+1.1
2,022,109	+		PP_1799	0.19	+0.2
2,022,110	-		PP_1799	0.19	-0.3
2,022,170	+				+2.0
2,022,170	+		PP_1799	0.25	-0.6
2,022,171	-		PP_1799	0.25	-0.4
2,022,171	-		PP_1799	0.25	-0.6
2,022,172	+		PP_1799	0.25	-1.1
2,022,172	+		PP_1799	0.25	-0.1
2,022,172	+		PP_1799	0.25	+0.5
2,022,172	+		PP_1799	0.25	-0.0
2,022,172	+		PP_1799	0.25	-0.5
2,022,173	-		PP_1799	0.25	+0.9
2,022,173	-		PP_1799	0.25	+1.0
2,022,173	-		PP_1799	0.25	-0.4
2,022,173	-		PP_1799	0.25	+0.4
2,022,173	-		PP_1799	0.25	+0.7
2,022,173	-		PP_1799	0.25	+0.5
2,022,173	-		PP_1799	0.25	+0.2
2,022,301	+		PP_1799	0.37	-1.2
2,022,301	+		PP_1799	0.37	+1.1
2,022,301	+		PP_1799	0.37	-0.2
2,022,301	+		PP_1799	0.37	+0.1
2,022,302	-		PP_1799	0.37	+0.5
2,022,360	+		PP_1799	0.43	+0.3
2,022,385	+		PP_1799	0.45	+0.6
2,022,386	-		PP_1799	0.45	+0.4
2,022,403	+		PP_1799	0.47	+1.6
2,022,404	-		PP_1799	0.47	-0.2
2,022,427	+		PP_1799	0.49	+0.7
2,022,440	-		PP_1799	0.50	+1.4
2,022,462	+		PP_1799	0.52	-0.1
2,022,462	+		PP_1799	0.52	+0.4
2,022,614	-		PP_1799	0.67	+0.5
2,022,614	-				+2.0
2,022,617	+				+0.2
2,022,617	+		PP_1799	0.67	+0.5
2,022,617	+		PP_1799	0.67	-1.2
2,022,617	+		PP_1799	0.67	+1.4
2,022,618	-		PP_1799	0.67	-0.8
2,022,618	-		PP_1799	0.67	+0.5
2,022,618	-		PP_1799	0.67	+0.1
2,022,618	-		PP_1799	0.67	-0.0
2,022,891	+				+0.2
2,022,891	+				+0.6
2,022,891	+				+0.5
2,022,892	-				-2.1
2,022,918	+				+0.7
2,022,919	-				-1.3
2,022,980	+				+0.3
2,023,026	+				+0.2
2,023,056	+				-1.6
2,023,102	-		PP_1800	0.15	+1.3
2,023,168	+		PP_1800	0.22	+0.7
2,023,168	+		PP_1800	0.22	-1.2
2,023,169	-		PP_1800	0.22	+1.1
2,023,169	-		PP_1800	0.22	+0.4
2,023,169	-		PP_1800	0.22	-0.2
2,023,224	+		PP_1800	0.28	+0.4
2,023,225	-		PP_1800	0.29	+0.5
2,023,225	-		PP_1800	0.29	+0.2
2,023,225	-		PP_1800	0.29	+0.1
2,023,241	-		PP_1800	0.30	+1.6
2,023,241	-		PP_1800	0.30	-0.5
2,023,323	+		PP_1800	0.39	+0.9
2,023,324	-		PP_1800	0.40	+1.0
2,023,324	-		PP_1800	0.40	-1.4
2,023,324	-		PP_1800	0.40	+1.0
2,023,384	-		PP_1800	0.46	-1.8
2,023,410	+		PP_1800	0.49	+1.5
2,023,410	+		PP_1800	0.49	-0.7
2,023,410	+		PP_1800	0.49	+1.1
2,023,411	-		PP_1800	0.49	+1.1
2,023,411	-		PP_1800	0.49	+0.8
2,023,443	-		PP_1800	0.53	+0.9
2,023,467	+		PP_1800	0.56	-0.9
2,023,468	-		PP_1800	0.56	-0.3
2,023,559	-		PP_1800	0.66	+1.4
2,023,559	-				+1.0
2,023,564	+				+0.0
2,023,564	+		PP_1800	0.66	+0.7
2,023,565	-		PP_1800	0.66	-0.3
2,023,565	-		PP_1800	0.66	+0.8
2,023,585	+		PP_1800	0.69	+0.3
2,023,585	+				+1.5
2,023,585	+		PP_1800	0.69	+1.5
2,023,585	+		PP_1800	0.69	-1.5
2,023,585	+		PP_1800	0.69	-0.0
2,023,586	-		PP_1800	0.69	+0.1
2,023,586	-		PP_1800	0.69	-0.0
2,023,586	-		PP_1800	0.69	+1.4
2,023,586	-		PP_1800	0.69	+0.2
2,023,643	-		PP_1800	0.75	+1.1
2,023,782	-				+1.3
2,023,817	+				+0.1
2,023,818	-				-0.6
2,023,818	-				+0.2
2,023,865	+				-0.7
2,023,919	+				-0.5
2,023,919	+				-0.1
2,023,919	+				-0.8
2,023,920	-				+1.5
2,023,925	+				-1.1
2,023,925	+				+0.7
2,023,926	-				-1.8
2,023,926	-				+0.5
2,023,926	-				+0.9
2,023,926	-				+0.1
2,023,978	-		PP_1801	0.10	-0.1
2,023,978	-		PP_1801	0.10	-0.3
2,023,978	-		PP_1801	0.10	+1.6
2,023,978	-		PP_1801	0.10	-1.0
2,024,087	+		PP_1801	0.20	+0.6
2,024,147	+		PP_1801	0.25	+0.2
2,024,147	+		PP_1801	0.25	-1.1
2,024,147	+		PP_1801	0.25	+0.6
2,024,148	-		PP_1801	0.25	+0.7
2,024,148	-		PP_1801	0.25	-1.9
2,024,166	-		PP_1801	0.27	-0.5
2,024,259	-		PP_1801	0.35	-1.3
2,024,345	+		PP_1801	0.42	+0.3
2,024,460	+		PP_1801	0.52	-0.1
2,024,468	+		PP_1801	0.53	-0.3
2,024,468	+		PP_1801	0.53	+0.8
2,024,469	-		PP_1801	0.53	+0.4
2,024,469	-		PP_1801	0.53	-0.3
2,024,521	+		PP_1801	0.58	+0.7
2,024,521	+		PP_1801	0.58	-0.1
2,024,521	+		PP_1801	0.58	+0.3
2,024,522	-		PP_1801	0.58	-1.5
2,024,582	+		PP_1801	0.63	+0.1
2,024,727	-		PP_1801	0.76	-1.7
2,024,727	-		PP_1801	0.76	+0.4
2,024,781	+		PP_1801	0.80	+1.0
2,024,781	+		PP_1801	0.80	-0.6
2,024,782	-		PP_1801	0.80	-0.5
2,024,782	-		PP_1801	0.80	-0.5
2,024,782	-		PP_1801	0.80	+0.6
2,024,782	-		PP_1801	0.80	+0.6
2,024,782	-		PP_1801	0.80	+0.5
2,024,811	+		PP_1801	0.83	+1.5
2,024,850	+		PP_1801	0.86	-1.1
2,024,850	+		PP_1801	0.86	+0.2
2,024,850	+		PP_1801	0.86	-0.3
2,024,850	+		PP_1801	0.86	-0.2
2,024,851	-		PP_1801	0.87	+0.8
2,024,851	-		PP_1801	0.87	-0.7
2,024,851	-		PP_1801	0.87	+0.0
2,024,851	-		PP_1801	0.87	+0.6