Strain Fitness in Pseudomonas putida KT2440 around PP_1688

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
1,879,442	+		PP_1686	0.38	+0.8
1,879,443	-		PP_1686	0.39	+0.4
1,879,484	+		PP_1686	0.45	+2.8
1,879,484	+		PP_1686	0.45	+0.8
1,879,485	-		PP_1686	0.45	+0.7
1,879,485	-		PP_1686	0.45	+2.2
1,879,485	-		PP_1686	0.45	+0.6
1,879,485	-		PP_1686	0.45	-1.6
1,879,493	+		PP_1686	0.47	-0.6
1,879,493	+		PP_1686	0.47	-0.0
1,879,494	-		PP_1686	0.47	-2.0
1,879,584	-		PP_1686	0.62	-0.0
1,879,592	+		PP_1686	0.63	-1.9
1,879,592	+		PP_1686	0.63	+1.2
1,879,592	+		PP_1686	0.63	+0.1
1,879,593	-		PP_1686	0.63	+0.5
1,879,593	-		PP_1686	0.63	-1.4
1,879,593	-		PP_1686	0.63	-2.8
1,879,593	-		PP_1686	0.63	+1.1
1,879,593	-		PP_1686	0.63	-1.9
1,879,593	-		PP_1686	0.63	-0.5
1,879,593	-		PP_1686	0.63	-0.0
1,879,700	+		PP_1686	0.81	-0.5
1,879,706	+		PP_1686	0.82	-2.7
1,879,706	+		PP_1686	0.82	-2.0
1,879,706	+		PP_1686	0.82	+2.0
1,879,706	+		PP_1686	0.82	+0.5
1,879,706	+		PP_1686	0.82	-0.9
1,879,706	+		PP_1686	0.82	-0.9
1,879,707	-		PP_1686	0.82	-1.3
1,879,707	-		PP_1686	0.82	+1.3
1,879,707	-		PP_1686	0.82	-1.2
1,879,970	-				-0.9
1,879,973	-				+0.0
1,880,043	+		PP_1687	0.30	+0.4
1,880,044	-		PP_1687	0.31	+1.5
1,880,067	+		PP_1687	0.38	+1.9
1,880,067	+		PP_1687	0.38	-1.2
1,880,067	+		PP_1687	0.38	-2.0
1,880,067	+		PP_1687	0.38	-0.7
1,880,067	+		PP_1687	0.38	-0.6
1,880,068	-		PP_1687	0.39	+1.6
1,880,068	-		PP_1687	0.39	+0.3
1,880,068	-		PP_1687	0.39	-0.9
1,880,068	-		PP_1687	0.39	+1.7
1,880,068	-		PP_1687	0.39	-2.1
1,880,139	+		PP_1687	0.62	-3.3
1,880,139	+		PP_1687	0.62	-1.1
1,880,139	+		PP_1687	0.62	-1.1
1,880,139	+		PP_1687	0.62	+0.3
1,880,139	+		PP_1687	0.62	-2.2
1,880,139	+		PP_1687	0.62	+0.3
1,880,140	-		PP_1687	0.63	-2.0
1,880,140	-		PP_1687	0.63	+0.3
1,880,155	-		PP_1687	0.68	+1.0
1,880,179	+		PP_1687	0.76	-2.3
1,880,246	+				-0.2
1,880,263	-				+1.5
1,880,270	+				+0.7
1,880,271	-				+0.3
1,880,295	+				+0.7
1,880,295	+				-0.3
1,880,347	+				-0.2
1,880,377	+				-3.4
1,880,378	-				-0.3
1,880,463	+		PP_1688	0.15	+0.0
1,880,519	+		PP_1688	0.21	-3.4
1,880,519	+		PP_1688	0.21	-0.8
1,880,520	-		PP_1688	0.21	-0.9
1,880,520	-		PP_1688	0.21	-0.8
1,880,522	+		PP_1688	0.21	-1.1
1,880,523	-		PP_1688	0.21	+0.8
1,880,523	-		PP_1688	0.21	-2.1
1,880,532	+		PP_1688	0.22	-0.0
1,880,533	-		PP_1688	0.22	-1.8
1,880,540	-		PP_1688	0.23	-1.4
1,880,540	-		PP_1688	0.23	-1.9
1,880,658	+		PP_1688	0.36	+0.1
1,880,722	+		PP_1688	0.42	-0.7
1,880,856	+		PP_1688	0.57	+0.4
1,880,982	+		PP_1688	0.70	+2.7
1,880,982	+		PP_1688	0.70	-1.6
1,880,982	+		PP_1688	0.70	-0.5
1,880,982	+		PP_1688	0.70	-2.2
1,880,983	-		PP_1688	0.71	+1.1
1,880,983	-		PP_1688	0.71	-0.5
1,881,122	+		PP_1688	0.85	-0.8
1,881,149	+		PP_1688	0.88	-2.2
1,881,155	+				+0.5
1,881,155	+		PP_1688	0.89	+0.7
1,881,156	-		PP_1688	0.89	+0.1
1,881,156	-		PP_1688	0.89	+0.3
1,881,156	-		PP_1688	0.89	+0.3
1,881,156	-		PP_1688	0.89	-1.4
1,881,156	-		PP_1688	0.89	-1.9
1,881,156	-		PP_1688	0.89	-2.4
1,881,156	-		PP_1688	0.89	-0.5
1,881,156	-		PP_1688	0.89	-2.1
1,881,213	-				+0.8
1,881,285	+				+1.5
1,881,285	+				-0.0
1,881,285	+				-0.2
1,881,285	-				+0.5
1,881,286	-				+1.1
1,881,309	-				+0.4
1,881,309	-				-0.3
1,881,347	+				-0.5
1,881,347	+				+1.2
1,881,347	+				-1.9
1,881,348	-				+1.1
1,881,348	-				-0.7
1,881,360	-				-1.7
1,881,413	+				-2.5
1,881,414	-				+0.4
1,881,414	-				+1.6
1,881,414	-				+2.7
1,881,414	-				+1.4
1,881,414	-				+2.5
1,881,420	-				-0.3
1,881,582	-		PP_1689	0.22	-0.4
1,881,582	-		PP_1689	0.22	+0.5
1,881,582	-		PP_1689	0.22	+1.3
1,881,731	+		PP_1689	0.34	+0.3
1,881,732	-				+2.9
1,881,732	-		PP_1689	0.34	+0.4
1,881,732	-		PP_1689	0.34	-0.3
1,881,893	+		PP_1689	0.47	+1.5
1,881,894	-		PP_1689	0.47	-0.2
1,881,905	-		PP_1689	0.48	+0.9
1,881,928	+		PP_1689	0.50	+1.9
1,881,928	+		PP_1689	0.50	+0.9
1,881,929	-		PP_1689	0.50	+0.5
1,881,947	+		PP_1689	0.51	-0.6
1,881,947	+		PP_1689	0.51	-1.0
1,881,960	+		PP_1689	0.52	+0.3
1,882,024	-		PP_1689	0.57	-0.1
1,882,094	+		PP_1689	0.63	+0.3
1,882,094	+		PP_1689	0.63	+0.3
1,882,095	-		PP_1689	0.63	+1.1
1,882,126	+		PP_1689	0.65	+0.6
1,882,126	+		PP_1689	0.65	+1.9
1,882,127	-		PP_1689	0.65	+0.8
1,882,196	-		PP_1689	0.71	+0.4
1,882,199	+		PP_1689	0.71	-0.9
1,882,199	+		PP_1689	0.71	+0.6
1,882,199	+		PP_1689	0.71	+1.2
1,882,199	+		PP_1689	0.71	-1.5
1,882,199	+		PP_1689	0.71	+1.0
1,882,199	+		PP_1689	0.71	+0.5
1,882,199	+		PP_1689	0.71	-0.6
1,882,199	+		PP_1689	0.71	-0.3
1,882,199	+		PP_1689	0.71	+0.6
1,882,199	+		PP_1689	0.71	+0.1
1,882,200	-		PP_1689	0.71	-0.6
1,882,200	-		PP_1689	0.71	+0.9
1,882,200	-		PP_1689	0.71	-0.4
1,882,200	-		PP_1689	0.71	+0.2
1,882,200	-		PP_1689	0.71	+0.2
1,882,200	-		PP_1689	0.71	-3.1
1,882,200	-		PP_1689	0.71	+2.2
1,882,204	-		PP_1689	0.72	+1.2
1,882,240	+		PP_1689	0.74	-0.9
1,882,240	+		PP_1689	0.74	-0.2
1,882,244	+		PP_1689	0.75	-0.7
1,882,244	+				+2.5
1,882,245	-		PP_1689	0.75	+1.8
1,882,245	-		PP_1689	0.75	-1.9
1,882,245	-		PP_1689	0.75	-2.6
1,882,245	-		PP_1689	0.75	-0.3
1,882,247	+		PP_1689	0.75	-0.7
1,882,248	-		PP_1689	0.75	+3.2