Strain Fitness in Pseudomonas putida KT2440 around PP_1888

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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	48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
2,127,600	+		PP_1887	0.77	-0.5
2,127,600	+		PP_1887	0.77	-1.2
2,127,600	+		PP_1887	0.77	+1.6
2,127,601	-		PP_1887	0.77	+0.2
2,127,601	-		PP_1887	0.77	+0.1
2,127,601	-		PP_1887	0.77	-0.7
2,127,607	-		PP_1887	0.77	-1.1
2,127,633	+		PP_1887	0.78	+1.3
2,127,633	+		PP_1887	0.78	-1.1
2,127,633	+		PP_1887	0.78	+1.3
2,127,633	+		PP_1887	0.78	-0.8
2,127,634	-		PP_1887	0.78	+0.1
2,127,634	-		PP_1887	0.78	+2.3
2,127,634	-		PP_1887	0.78	+0.1
2,127,634	-		PP_1887	0.78	-0.1
2,127,664	-		PP_1887	0.78	+0.2
2,127,818	+		PP_1887	0.82	+0.5
2,127,819	-		PP_1887	0.82	+1.6
2,127,819	-		PP_1887	0.82	-1.3
2,127,867	+		PP_1887	0.84	-0.1
2,127,939	+		PP_1887	0.85	-0.5
2,127,939	+		PP_1887	0.85	-2.7
2,127,939	+		PP_1887	0.85	-1.3
2,127,940	-		PP_1887	0.85	+0.6
2,128,032	+		PP_1887	0.88	+1.8
2,128,039	-		PP_1887	0.88	+2.8
2,128,063	+		PP_1887	0.89	-0.4
2,128,063	+		PP_1887	0.89	-0.0
2,128,064	-		PP_1887	0.89	-1.3
2,128,064	-		PP_1887	0.89	-0.4
2,128,064	-		PP_1887	0.89	-1.3
2,128,065	+		PP_1887	0.89	-0.6
2,128,065	+		PP_1887	0.89	+0.4
2,128,065	+		PP_1887	0.89	+0.6
2,128,065	+		PP_1887	0.89	+0.3
2,128,065	+		PP_1887	0.89	+0.1
2,128,065	+		PP_1887	0.89	+0.1
2,128,065	+		PP_1887	0.89	-0.4
2,128,065	+		PP_1887	0.89	-0.4
2,128,066	-		PP_1887	0.89	-1.7
2,128,066	-		PP_1887	0.89	-0.9
2,128,066	-		PP_1887	0.89	-0.3
2,128,066	-		PP_1887	0.89	+0.0
2,128,066	-		PP_1887	0.89	-2.1
2,128,066	-		PP_1887	0.89	-0.0
2,128,066	-		PP_1887	0.89	-2.3
2,128,066	-		PP_1887	0.89	-0.0
2,128,066	-		PP_1887	0.89	+0.6
2,128,066	-		PP_1887	0.89	+0.5
2,128,066	-		PP_1887	0.89	+1.2
2,128,127	-				-0.5
2,128,170	+				+1.5
2,128,170	+				-1.4
2,128,217	+				-1.4
2,128,272	+				+0.4
2,128,272	+				+0.2
2,128,272	+				-0.8
2,128,272	+				-0.3
2,128,272	+				-0.7
2,128,273	-				-0.3
2,128,273	-				-0.6
2,128,273	-				+0.2
2,128,273	-				+0.4
2,128,273	-				-0.1
2,128,273	-				+0.5
2,128,273	-				+0.3
2,128,273	-				+0.4
2,128,318	-				-1.6
2,128,348	-				-0.4
2,128,391	-				-0.9
2,128,398	+				-0.6
2,128,398	+				-0.1
2,128,398	+				+1.9
2,128,399	-				+1.4
2,128,456	-				+2.8
2,128,456	-				+0.7
2,128,461	+				-0.2
2,128,461	+				-0.5
2,128,461	+				-0.1
2,128,529	+				-0.0
2,128,530	-				-0.0
2,128,531	+				-0.0
2,128,531	+				+0.4
2,128,532	-				+1.8
2,128,675	+		PP_1888	0.11	+1.2
2,128,708	+		PP_1888	0.14	-1.2
2,128,718	+		PP_1888	0.15	-0.5
2,128,719	-		PP_1888	0.15	-0.5
2,128,719	-		PP_1888	0.15	+0.9
2,128,719	-		PP_1888	0.15	-0.2
2,128,719	-				+2.2
2,128,731	+		PP_1888	0.16	-0.2
2,128,731	+		PP_1888	0.16	-0.7
2,128,731	+		PP_1888	0.16	-1.6
2,128,732	-		PP_1888	0.16	-0.9
2,128,732	-		PP_1888	0.16	+0.2
2,128,735	+		PP_1888	0.17	+0.4
2,128,735	+		PP_1888	0.17	+3.8
2,128,735	+		PP_1888	0.17	-0.0
2,128,735	+		PP_1888	0.17	+0.6
2,128,735	+		PP_1888	0.17	-1.3
2,128,736	-		PP_1888	0.17	-0.1
2,128,736	-		PP_1888	0.17	+0.4
2,128,736	-		PP_1888	0.17	+0.2
2,128,736	-		PP_1888	0.17	-0.0
2,128,736	-		PP_1888	0.17	-1.2
2,128,831	-		PP_1888	0.25	-0.6
2,129,021	+		PP_1888	0.43	-0.4
2,129,021	+		PP_1888	0.43	+0.8
2,129,022	-		PP_1888	0.43	+0.3
2,129,071	+		PP_1888	0.47	-0.4
2,129,177	+		PP_1888	0.57	-0.9
2,129,177	+		PP_1888	0.57	-1.0
2,129,177	+		PP_1888	0.57	-0.1
2,129,181	-		PP_1888	0.57	-1.2
2,129,344	+		PP_1888	0.72	+0.7
2,129,388	-		PP_1888	0.76	+0.3
2,129,388	-		PP_1888	0.76	-2.5
2,129,486	+		PP_1888	0.85	-1.9
2,129,486	+		PP_1888	0.85	+0.5
2,129,486	+		PP_1888	0.85	-0.6
2,129,486	+		PP_1888	0.85	+0.2
2,129,486	+		PP_1888	0.85	-2.2
2,129,486	+		PP_1888	0.85	+0.2
2,129,487	-		PP_1888	0.85	-0.1
2,129,487	-		PP_1888	0.85	-1.1
2,129,487	-		PP_1888	0.85	-0.5
2,129,680	-				-0.0
2,129,704	+				-1.6
2,129,705	-				-0.3
2,129,705	-				-0.6
2,129,705	-				-0.6
2,129,705	-				+0.7
2,129,708	+				+2.2
2,129,708	+				+0.6
2,129,708	+				+0.4
2,129,709	-				-0.2
2,129,709	-				-0.2
2,129,709	-				+2.0
2,129,709	-				-0.6
2,129,844	+				+1.0
2,129,946	+				+0.6
2,129,946	+				-0.3
2,129,946	+				-0.1
2,129,947	-				-1.0
2,130,275	-		PP_1889	0.23	+0.2
2,130,275	-		PP_1889	0.23	+0.3
2,130,293	-		PP_1889	0.24	+0.6
2,130,313	+		PP_1889	0.24	-0.3
2,130,385	+		PP_1889	0.27	+1.0
2,130,385	+		PP_1889	0.27	-0.3
2,130,386	-		PP_1889	0.27	-1.1
2,130,436	+		PP_1889	0.29	-1.6
2,130,498	+		PP_1889	0.32	-0.5
2,130,571	+		PP_1889	0.35	+0.6
2,130,571	+		PP_1889	0.35	-0.4
2,130,571	+		PP_1889	0.35	-0.9
2,130,571	+		PP_1889	0.35	-0.8
2,130,572	-		PP_1889	0.35	+0.6
2,130,572	-		PP_1889	0.35	-0.0
2,130,576	+		PP_1889	0.35	+0.6
2,130,576	+		PP_1889	0.35	+0.4
2,130,577	-		PP_1889	0.35	-0.3
2,130,577	-		PP_1889	0.35	-1.1
2,130,577	-		PP_1889	0.35	+0.0
2,130,577	-		PP_1889	0.35	+0.2
2,130,611	-		PP_1889	0.36	-1.4
2,130,640	+		PP_1889	0.38	-0.4