Strain Fitness in Pseudomonas putida KT2440 around PP_4880

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
5,545,671	+				+0.7
5,545,695	-				+1.5
5,545,802	+				+0.3
5,545,930	+		PP_4879	0.26	-2.6
5,545,930	+		PP_4879	0.26	+1.2
5,545,930	+		PP_4879	0.26	+0.3
5,545,931	-		PP_4879	0.26	+0.1
5,545,931	-		PP_4879	0.26	-0.2
5,545,931	-		PP_4879	0.26	-0.6
5,545,931	-		PP_4879	0.26	-0.8
5,546,000	+		PP_4879	0.35	-3.1
5,546,268	+		PP_4879	0.71	+0.6
5,546,455	-				-0.8
5,546,461	+				-1.7
5,546,530	+				-0.8
5,546,530	+				-0.4
5,546,531	-				+1.5
5,546,676	+				-0.1
5,546,676	+				-2.4
5,546,676	+				-0.7
5,546,676	+				-0.3
5,546,930	+		PP_4880	0.17	-1.4
5,546,931	-		PP_4880	0.18	-0.1
5,546,946	+		PP_4880	0.18	-0.9
5,546,946	+		PP_4880	0.18	-2.5
5,546,946	+		PP_4880	0.18	+0.1
5,546,947	-		PP_4880	0.18	-2.6
5,546,949	+		PP_4880	0.18	+0.6
5,546,949	+		PP_4880	0.18	+0.1
5,546,949	+		PP_4880	0.18	-1.4
5,546,950	-				-1.3
5,546,950	-		PP_4880	0.18	-0.9
5,546,950	-		PP_4880	0.18	-1.1
5,546,950	-		PP_4880	0.18	-0.7
5,546,950	-		PP_4880	0.18	-2.7
5,546,950	-		PP_4880	0.18	-1.2
5,546,987	+		PP_4880	0.20	-0.7
5,546,987	+		PP_4880	0.20	-0.9
5,546,987	+		PP_4880	0.20	-1.6
5,546,987	+		PP_4880	0.20	-1.0
5,546,987	+		PP_4880	0.20	-2.0
5,546,988	-		PP_4880	0.20	+2.2
5,546,988	-		PP_4880	0.20	-1.7
5,546,988	-		PP_4880	0.20	-1.0
5,546,991	+		PP_4880	0.20	-2.3
5,546,991	+		PP_4880	0.20	+0.0
5,546,991	+		PP_4880	0.20	+0.1
5,546,991	+		PP_4880	0.20	-1.3
5,546,991	+		PP_4880	0.20	-1.2
5,546,991	+		PP_4880	0.20	-2.9
5,546,991	+		PP_4880	0.20	+0.7
5,546,991	+		PP_4880	0.20	-2.3
5,546,991	+		PP_4880	0.20	-1.9
5,546,991	+		PP_4880	0.20	-2.1
5,546,992	-		PP_4880	0.20	+0.4
5,546,992	-		PP_4880	0.20	-2.7
5,546,992	-		PP_4880	0.20	-0.9
5,546,992	-		PP_4880	0.20	-1.3
5,546,992	-		PP_4880	0.20	+0.8
5,546,992	-		PP_4880	0.20	-2.6
5,546,992	-		PP_4880	0.20	-2.2
5,546,992	-		PP_4880	0.20	-2.4
5,546,992	-		PP_4880	0.20	-1.9
5,546,992	-		PP_4880	0.20	+1.1
5,546,992	-		PP_4880	0.20	-1.4
5,546,992	-		PP_4880	0.20	-3.1
5,546,996	-		PP_4880	0.20	-1.9
5,547,186	+		PP_4880	0.27	-0.9
5,547,186	+		PP_4880	0.27	+0.6
5,547,186	+		PP_4880	0.27	-0.3
5,547,187	-		PP_4880	0.27	-2.2
5,547,190	+		PP_4880	0.28	+0.8
5,547,191	-		PP_4880	0.28	-1.6
5,547,191	-		PP_4880	0.28	+0.1
5,547,324	+		PP_4880	0.33	-0.4
5,547,324	+		PP_4880	0.33	-2.0
5,547,324	+		PP_4880	0.33	-0.9
5,547,325	-		PP_4880	0.33	-0.5
5,547,325	-		PP_4880	0.33	-0.7
5,547,325	-		PP_4880	0.33	-1.9
5,547,325	-		PP_4880	0.33	-1.9
5,547,325	-		PP_4880	0.33	-1.6
5,547,333	+		PP_4880	0.33	-2.0
5,547,370	-		PP_4880	0.35	-1.7
5,547,456	+		PP_4880	0.38	-0.4
5,547,493	+		PP_4880	0.39	-1.2
5,547,494	-		PP_4880	0.39	-1.4
5,547,494	-		PP_4880	0.39	-2.5
5,547,780	+				+0.1
5,547,780	+		PP_4880	0.51	-1.4
5,547,780	+		PP_4880	0.51	-0.4
5,547,781	-		PP_4880	0.51	+0.8
5,547,880	-		PP_4880	0.54	-1.3
5,547,880	-		PP_4880	0.54	-0.9
5,547,915	+		PP_4880	0.56	-1.7
5,547,915	+		PP_4880	0.56	-0.9
5,547,916	-		PP_4880	0.56	-2.7
5,547,916	-		PP_4880	0.56	-0.2
5,547,916	-		PP_4880	0.56	-0.7
5,547,925	-		PP_4880	0.56	-0.9
5,548,114	-		PP_4880	0.63	+1.1
5,548,140	+		PP_4880	0.64	+1.7
5,548,140	+		PP_4880	0.64	+0.3
5,548,141	-		PP_4880	0.65	+0.6
5,548,141	-		PP_4880	0.65	-0.4
5,548,141	-		PP_4880	0.65	-1.8
5,548,192	-		PP_4880	0.67	-3.0
5,548,392	+				-0.9
5,548,393	-		PP_4880	0.74	-2.2
5,548,393	-		PP_4880	0.74	+2.9
5,548,393	-		PP_4880	0.74	-1.9
5,548,575	+		PP_4880	0.81	+0.1
5,548,576	-		PP_4880	0.81	+0.5
5,548,815	+				+0.1
5,548,815	+				-1.9
5,548,815	+				-0.4
5,548,833	+				-2.2
5,548,837	+				-2.2
5,548,837	+				+0.6
5,548,837	+				-0.0
5,548,837	+				-0.2
5,548,837	+				-0.9
5,548,837	+				-0.4
5,549,077	+				+0.1
5,549,077	+				+0.6
5,549,077	+				+0.1
5,549,077	+				-0.9
5,549,079	+				-1.4
5,549,079	+				+0.1
5,549,079	+				+0.6
5,549,079	+				+2.0
5,549,079	+				-2.2
5,549,079	+				+4.5
5,549,079	+				+0.1
5,549,079	+				+1.3
5,549,079	+				-0.9
5,549,083	+				+0.6
5,549,150	+				-2.7
5,549,415	+				-2.2
5,549,425	+				-4.2
5,549,447	+				+1.4
5,549,447	+				+0.4
5,549,450	+				-0.7
5,549,450	+				-4.8
5,549,470	+				+1.5
5,549,492	+				-3.5
5,549,492	+				+1.0
5,549,492	+				+0.7
5,549,588	+				+0.2
5,549,601	+				-3.5
5,549,601	+				-0.6
5,549,601	+				+1.1
5,549,609	+				+2.1
5,549,635	+				+1.6
5,549,635	+				-0.2
5,549,635	+				+0.3
5,549,636	-				-1.3
5,549,636	-				-3.5
5,549,730	+				+1.5
5,549,730	+				+1.4
5,549,731	-				+1.1
5,549,731	-				+2.1
5,549,734	+				+1.1
5,549,735	-				+0.4
5,549,741	-				-3.8
5,549,752	+				-4.1
5,549,753	-				-0.7
5,549,753	-				-3.8
5,549,788	+				-0.9
5,549,867	+		PP_4881	0.11	-3.1
5,549,867	+		PP_4881	0.11	-1.4
5,549,868	-		PP_4881	0.11	+0.8
5,549,868	-		PP_4881	0.11	+0.6
5,549,868	-				+1.1
5,549,868	-		PP_4881	0.11	+1.0
5,549,868	-		PP_4881	0.11	+0.5
5,549,868	-		PP_4881	0.11	+0.9
5,549,868	-		PP_4881	0.11	+0.2
5,549,868	-		PP_4881	0.11	+0.5
5,549,868	-		PP_4881	0.11	+1.3
5,549,868	-		PP_4881	0.11	+0.8
5,549,868	-		PP_4881	0.11	-0.9
5,549,912	+		PP_4881	0.15	-0.5
5,549,912	+		PP_4881	0.15	-0.6
5,549,913	-		PP_4881	0.15	+1.6
5,549,913	-		PP_4881	0.15	+1.7
5,550,018	-		PP_4881	0.26	-1.4
5,550,018	-		PP_4881	0.26	-3.8