Strain Fitness in Pseudomonas putida KT2440 around PP_4411

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_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=none; SoilTreatmentTime=144_hrs
5,007,518	+		PP_5674	0.83	-2.7
5,007,536	+		PP_5674	0.86	-2.8
5,007,536	+		PP_5674	0.86	+1.0
5,007,589	+				+1.1
5,007,635	-				-3.5
5,007,635	-				-0.2
5,007,711	+				+1.7
5,007,712	-				+1.9
5,007,717	+				+0.3
5,007,718	-				+0.4
5,007,718	-				+0.7
5,007,767	+				-0.4
5,007,767	+				+0.3
5,007,768	-				+0.2
5,007,784	-				+0.1
5,007,784	-				+0.5
5,007,839	+				+0.0
5,007,840	-				+1.9
5,007,880	+				+0.6
5,007,881	-				+0.4
5,007,909	+				+0.2
5,007,909	+				-0.2
5,007,913	+				+0.1
5,007,913	+				-0.3
5,007,913	+				+0.8
5,007,914	-				-3.0
5,007,914	-				-1.9
5,007,914	-				-0.2
5,007,914	-				+0.0
5,007,914	-				-2.8
5,007,914	-				+2.0
5,007,914	-				+1.5
5,007,923	-				-0.4
5,007,948	-				+1.3
5,007,970	+				+1.4
5,007,970	+				+0.3
5,007,971	-				+1.1
5,007,971	-				+0.5
5,008,004	+				-1.7
5,008,004	+				+0.9
5,008,004	+				-0.9
5,008,004	+				-0.5
5,008,004	+				+1.1
5,008,004	+				+0.7
5,008,005	-				-3.0
5,008,005	-				+0.3
5,008,090	+				+0.7
5,008,199	+				+1.1
5,008,200	-				+0.1
5,008,200	-				-0.7
5,008,281	+				+1.3
5,008,442	+				+1.3
5,008,496	+				+1.0
5,008,513	-				+0.6
5,008,580	+		PP_4411	0.11	+2.0
5,008,589	+		PP_4411	0.13	-0.1
5,008,589	+		PP_4411	0.13	+0.5
5,008,590	-		PP_4411	0.13	-0.3
5,008,590	-		PP_4411	0.13	+2.0
5,008,590	-		PP_4411	0.13	-0.5
5,008,590	-		PP_4411	0.13	-0.9
5,008,659	+		PP_4411	0.26	-2.7
5,008,660	-		PP_4411	0.26	+0.8
5,008,664	+		PP_4411	0.27	+1.0
5,008,664	+		PP_4411	0.27	+0.4
5,008,664	+		PP_4411	0.27	+0.3
5,008,665	-		PP_4411	0.27	-1.5
5,008,712	+		PP_4411	0.36	-0.2
5,008,712	+		PP_4411	0.36	+0.1
5,008,712	+		PP_4411	0.36	+1.3
5,008,712	+		PP_4411	0.36	+1.2
5,008,712	+		PP_4411	0.36	-0.1
5,008,712	+		PP_4411	0.36	+1.9
5,008,713	-		PP_4411	0.36	+1.2
5,008,713	-		PP_4411	0.36	+1.8
5,008,713	-		PP_4411	0.36	-0.0
5,008,771	+		PP_4411	0.46	+0.6
5,008,791	+		PP_4411	0.50	+1.5
5,008,795	+		PP_4411	0.51	+1.4
5,008,795	+				+2.4
5,008,795	+		PP_4411	0.51	+6.5
5,008,796	-		PP_4411	0.51	-0.1
5,008,796	-		PP_4411	0.51	+1.7
5,008,796	-		PP_4411	0.51	+1.0
5,008,796	-		PP_4411	0.51	+0.8
5,008,796	-		PP_4411	0.51	+1.0
5,008,848	-		PP_4411	0.60	+1.5
5,008,862	+		PP_4411	0.63	-4.3
5,008,862	+		PP_4411	0.63	-0.7
5,008,862	+		PP_4411	0.63	+0.8
5,008,870	-		PP_4411	0.64	-4.2
5,008,896	-		PP_4411	0.69	-0.2
5,008,942	+		PP_4411	0.77	+1.5
5,008,943	-		PP_4411	0.78	-0.3
5,008,943	-		PP_4411	0.78	+0.1
5,008,943	-		PP_4411	0.78	+1.0
5,008,973	+		PP_4411	0.83	-1.2
5,008,973	+		PP_4411	0.83	+0.0
5,008,974	-		PP_4411	0.83	+2.5
5,008,988	+		PP_4411	0.86	-1.8
5,008,989	-		PP_4411	0.86	+0.6
5,009,012	+				-3.1
5,009,012	+				-3.5
5,009,013	-				+0.1
5,009,044	+				+1.1
5,009,044	+				-0.8
5,009,045	-				+0.2
5,009,045	-				+1.0
5,009,069	-				+0.2
5,009,083	+				+1.4
5,009,084	-				+1.2
5,009,084	-				+0.9
5,009,086	-				+0.6
5,009,093	-				-0.3
5,009,131	-				+0.9
5,009,229	+		PP_4412	0.29	+0.8
5,009,229	+		PP_4412	0.29	+0.3
5,009,229	+		PP_4412	0.29	+0.4
5,009,230	-		PP_4412	0.29	+0.4
5,009,242	+		PP_4412	0.31	+0.1
5,009,242	+		PP_4412	0.31	+1.4
5,009,242	+		PP_4412	0.31	+0.5
5,009,242	+		PP_4412	0.31	-3.5
5,009,243	-		PP_4412	0.31	+1.1
5,009,243	-		PP_4412	0.31	+0.8
5,009,274	+		PP_4412	0.37	-0.7
5,009,274	+		PP_4412	0.37	-0.4
5,009,294	+		PP_4412	0.40	+0.1
5,009,294	+		PP_4412	0.40	+0.8
5,009,295	-		PP_4412	0.40	+0.8
5,009,295	-		PP_4412	0.40	-1.0
5,009,311	-		PP_4412	0.43	+0.8
5,009,321	+		PP_4412	0.45	+0.9
5,009,322	-		PP_4412	0.45	-0.3
5,009,322	-				+2.4
5,009,326	+		PP_4412	0.46	-1.0
5,009,326	+		PP_4412	0.46	+0.2
5,009,326	+		PP_4412	0.46	+0.7
5,009,326	+		PP_4412	0.46	+2.3
5,009,326	+		PP_4412	0.46	-3.1
5,009,326	+		PP_4412	0.46	+0.9
5,009,327	-		PP_4412	0.46	+2.7
5,009,327	-		PP_4412	0.46	+0.7
5,009,407	+		PP_4412	0.60	-2.4
5,009,438	+		PP_4412	0.65	-0.1
5,009,438	+		PP_4412	0.65	+0.7
5,009,455	+		PP_4412	0.68	+3.6
5,009,456	-		PP_4412	0.68	-1.0
5,009,456	-		PP_4412	0.68	+0.6
5,009,456	-		PP_4412	0.68	+1.4
5,009,456	-		PP_4412	0.68	-0.4
5,009,479	+		PP_4412	0.72	-0.4
5,009,479	+		PP_4412	0.72	-0.1
5,009,479	+		PP_4412	0.72	-3.3
5,009,480	-		PP_4412	0.72	+0.8
5,009,499	+		PP_4412	0.75	+1.8
5,009,507	-		PP_4412	0.77	-1.0
5,009,638	+				+1.3
5,009,638	+				+1.4
5,009,638	+				-0.2
5,009,638	+				+1.9
5,009,639	-				+0.0
5,009,639	-				+1.1
5,009,639	-				+0.3
5,009,639	-				-2.8
5,009,835	+				+1.3
5,009,909	+		PP_4413	0.30	+0.4
5,009,921	+		PP_4413	0.34	+0.3
5,009,921	+		PP_4413	0.34	+0.6
5,009,982	+		PP_4413	0.53	+0.2
5,009,991	+		PP_4413	0.56	-0.9
5,009,991	+		PP_4413	0.56	+0.9
5,009,991	+		PP_4413	0.56	-2.0
5,009,991	+		PP_4413	0.56	-0.1
5,009,991	+		PP_4413	0.56	-0.4
5,009,992	-		PP_4413	0.56	+0.2
5,009,992	-		PP_4413	0.56	+1.5
5,009,992	-		PP_4413	0.56	+0.6
5,009,995	+		PP_4413	0.57	-3.2
5,009,996	-		PP_4413	0.57	+0.4
5,009,996	-		PP_4413	0.57	-1.4
5,010,002	+		PP_4413	0.59	-3.5
5,010,002	+		PP_4413	0.59	+2.2