Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS18500

Experiment: diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day5

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	diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse18; day5
1,937,323	+		BBR_RS18495	0.42	+1.4
1,937,323	+		BBR_RS18495	0.42	+3.9
1,937,351	-		BBR_RS18495	0.45	+0.1
1,937,445	-		BBR_RS18495	0.53	+1.7
1,937,453	-		BBR_RS18495	0.53	+1.4
1,937,467	+		BBR_RS18495	0.55	-1.2
1,937,535	+		BBR_RS18495	0.60	-1.9
1,937,591	+		BBR_RS18495	0.65	+0.4
1,937,623	+		BBR_RS18495	0.68	-1.6
1,937,654	+		BBR_RS18495	0.71	-0.1
1,937,662	-		BBR_RS18495	0.71	+0.5
1,937,671	+		BBR_RS18495	0.72	+2.4
1,937,696	-		BBR_RS18495	0.74	+1.1
1,937,696	-		BBR_RS18495	0.74	+0.1
1,937,709	-		BBR_RS18495	0.75	+1.4
1,937,735	+		BBR_RS18495	0.77	-2.9
1,937,735	+		BBR_RS18495	0.77	+1.1
1,937,742	+		BBR_RS18495	0.78	-0.3
1,937,742	+		BBR_RS18495	0.78	-2.0
1,937,744	+		BBR_RS18495	0.78	+0.6
1,937,748	-		BBR_RS18495	0.79	+3.6
1,937,750	-		BBR_RS18495	0.79	-1.2
1,937,750	-		BBR_RS18495	0.79	+1.2
1,937,768	+		BBR_RS18495	0.80	-1.4
1,937,768	+		BBR_RS18495	0.80	+1.6
1,937,768	+		BBR_RS18495	0.80	-0.4
1,937,776	-		BBR_RS18495	0.81	-2.5
1,937,776	-		BBR_RS18495	0.81	-2.2
1,937,824	+		BBR_RS18495	0.85	-1.1
1,937,824	+		BBR_RS18495	0.85	+0.2
1,937,832	-		BBR_RS18495	0.86	-0.6
1,937,834	-		BBR_RS18495	0.86	+1.0
1,937,834	-		BBR_RS18495	0.86	-0.6
1,937,847	-		BBR_RS18495	0.87	-1.0
1,937,865	+		BBR_RS18495	0.89	-2.5
1,937,872	+		BBR_RS18495	0.89	-0.7
1,937,908	+				-2.2
1,937,908	+				-1.2
1,937,908	+				-0.6
1,937,916	-				+0.7
1,937,943	-				+0.9
1,937,950	+				+2.4
1,937,950	+				+4.7
1,937,950	+				-0.9
1,937,950	+				+3.4
1,937,950	+				+0.5
1,937,951	+				-0.4
1,937,958	-				-1.4
1,937,958	-				+3.5
1,937,958	-				-1.0
1,937,966	+				+0.8
1,937,977	+				-1.7
1,937,990	-				-0.7
1,937,992	+				-0.6
1,937,992	+				+0.3
1,938,000	-				-1.2
1,938,005	-				+4.5
1,938,025	-				+2.9
1,938,030	-				-1.9
1,938,030	-				+0.6
1,938,036	-				+1.5
1,938,036	-				+0.5
1,938,064	+				+2.0
1,938,074	+				-0.8
1,938,083	+				+0.8
1,938,091	-				+2.1
1,938,127	-				-1.7
1,938,130	+				-0.6
1,938,132	-				+0.8
1,938,142	+				-1.3
1,938,151	-				-0.1
1,938,152	-				+0.4
1,938,170	-				-1.9
1,938,176	-				-1.9
1,938,178	+				-0.2
1,938,188	+				+1.2
1,938,188	+				-0.0
1,938,191	-				+0.3
1,938,196	-				+0.9
1,938,196	-				-1.3
1,938,278	-				+0.6
1,938,286	-				-1.0
1,938,306	+				+1.5
1,938,314	-				+2.6
1,938,314	-				+0.2
1,938,327	+				-1.2
1,938,336	-				+2.2
1,938,336	-				+0.3
1,938,353	-				-3.3
1,938,372	-				+0.9
1,938,372	-				-1.7
1,938,391	-				-0.1
1,938,403	+				+2.7
1,938,458	+		BBR_RS18500	0.10	-1.4
1,938,458	+		BBR_RS18500	0.10	+2.3
1,938,482	+		BBR_RS18500	0.12	-1.9
1,938,490	-		BBR_RS18500	0.12	-0.1
1,938,490	-		BBR_RS18500	0.12	-2.4
1,938,502	+		BBR_RS18500	0.13	-2.8
1,938,504	-		BBR_RS18500	0.13	-0.8
1,938,507	+		BBR_RS18500	0.13	-2.0
1,938,510	-		BBR_RS18500	0.13	+3.1
1,938,512	-		BBR_RS18500	0.13	+0.9
1,938,514	+		BBR_RS18500	0.13	+0.3
1,938,527	+		BBR_RS18500	0.14	-0.7
1,938,527	+		BBR_RS18500	0.14	-0.0
1,938,572	-		BBR_RS18500	0.16	+1.1
1,938,574	+		BBR_RS18500	0.16	-2.4
1,938,576	+		BBR_RS18500	0.16	+4.7
1,938,584	-		BBR_RS18500	0.17	+1.1
1,938,584	-		BBR_RS18500	0.17	-1.2
1,938,584	-		BBR_RS18500	0.17	+3.6
1,938,601	-		BBR_RS18500	0.18	+0.2
1,938,625	+		BBR_RS18500	0.19	-1.2
1,938,625	+		BBR_RS18500	0.19	-1.2
1,938,625	+		BBR_RS18500	0.19	-0.9
1,938,625	+		BBR_RS18500	0.19	+1.0
1,938,633	-		BBR_RS18500	0.19	+0.6
1,938,633	-		BBR_RS18500	0.19	-2.6
1,938,633	-		BBR_RS18500	0.19	-0.6
1,938,633	-		BBR_RS18500	0.19	+2.6
1,938,698	+		BBR_RS18500	0.22	-0.6
1,938,717	-		BBR_RS18500	0.23	+1.5
1,938,718	-		BBR_RS18500	0.23	-0.1
1,938,719	+		BBR_RS18500	0.23	+0.3
1,938,721	+		BBR_RS18500	0.23	+0.5
1,938,727	-		BBR_RS18500	0.24	+4.0
1,938,729	-		BBR_RS18500	0.24	-2.3
1,938,740	+		BBR_RS18500	0.24	-0.6
1,938,749	-		BBR_RS18500	0.25	+0.9
1,938,763	-		BBR_RS18500	0.26	+0.1
1,938,765	+		BBR_RS18500	0.26	+1.1
1,938,766	+		BBR_RS18500	0.26	-1.0
1,938,771	+		BBR_RS18500	0.26	+0.0
1,938,771	+		BBR_RS18500	0.26	-1.9
1,938,771	+		BBR_RS18500	0.26	+1.3
1,938,774	-		BBR_RS18500	0.26	+1.7
1,938,784	-		BBR_RS18500	0.27	-1.9
1,938,784	-		BBR_RS18500	0.27	+2.5
1,938,786	-		BBR_RS18500	0.27	+3.2
1,938,787	+		BBR_RS18500	0.27	+0.8
1,938,787	+		BBR_RS18500	0.27	-1.9
1,938,811	-		BBR_RS18500	0.28	+0.0
1,938,817	-		BBR_RS18500	0.28	-0.6
1,938,824	+		BBR_RS18500	0.29	+0.9
1,938,832	-		BBR_RS18500	0.29	-0.3
1,938,832	-		BBR_RS18500	0.29	+2.2
1,938,841	-		BBR_RS18500	0.29	-0.5
1,938,875	-		BBR_RS18500	0.31	-0.2
1,938,894	+		BBR_RS18500	0.32	+1.5
1,938,912	-		BBR_RS18500	0.33	-1.9
1,938,919	-		BBR_RS18500	0.33	+0.1
1,938,919	-		BBR_RS18500	0.33	-1.7
1,938,921	+		BBR_RS18500	0.33	-0.4
1,938,921	+		BBR_RS18500	0.33	-0.1
1,938,921	+		BBR_RS18500	0.33	-2.2
1,938,921	+		BBR_RS18500	0.33	-1.3
1,938,921	+		BBR_RS18500	0.33	-2.6
1,938,921	+		BBR_RS18500	0.33	-1.1
1,938,921	+		BBR_RS18500	0.33	+1.6
1,938,921	+		BBR_RS18500	0.33	+1.5
1,938,921	+		BBR_RS18500	0.33	-0.2
1,938,926	+		BBR_RS18500	0.34	-0.1
1,938,929	-		BBR_RS18500	0.34	-0.8
1,938,929	-		BBR_RS18500	0.34	+1.0
1,938,929	-		BBR_RS18500	0.34	+0.7
1,938,929	-		BBR_RS18500	0.34	+0.9
1,938,929	-		BBR_RS18500	0.34	+0.2
1,938,929	-		BBR_RS18500	0.34	-1.3
1,938,929	-		BBR_RS18500	0.34	+3.8
1,938,929	-		BBR_RS18500	0.34	+0.6
1,938,934	-		BBR_RS18500	0.34	-0.3
1,938,949	-		BBR_RS18500	0.35	+0.1
1,938,953	-		BBR_RS18500	0.35	-0.7
1,938,969	+		BBR_RS18500	0.36	-2.0
1,938,995	+		BBR_RS18500	0.37	-0.9
1,938,995	+		BBR_RS18500	0.37	+3.8
1,939,020	-		BBR_RS18500	0.38	+2.3
1,939,022	-		BBR_RS18500	0.38	+1.2
1,939,022	-		BBR_RS18500	0.38	+2.5
1,939,029	+		BBR_RS18500	0.39	+1.4
1,939,029	-		BBR_RS18500	0.39	-1.4
1,939,030	-		BBR_RS18500	0.39	+0.8
1,939,033	+		BBR_RS18500	0.39	+1.0
1,939,079	+		BBR_RS18500	0.41	+0.1
1,939,079	+		BBR_RS18500	0.41	-2.3
1,939,087	-		BBR_RS18500	0.42	-2.1
1,939,089	+		BBR_RS18500	0.42	+0.8
1,939,128	-		BBR_RS18500	0.44	+1.9
1,939,134	-		BBR_RS18500	0.44	+0.9
1,939,137	+		BBR_RS18500	0.44	+3.5
1,939,145	-		BBR_RS18500	0.44	+2.7
1,939,146	-		BBR_RS18500	0.44	+0.5
1,939,156	-		BBR_RS18500	0.45	-0.0
1,939,157	-		BBR_RS18500	0.45	+1.1
1,939,157	-		BBR_RS18500	0.45	+0.2
1,939,185	+		BBR_RS18500	0.46	+0.7
1,939,193	-		BBR_RS18500	0.47	-1.3
1,939,193	-		BBR_RS18500	0.47	-1.5
1,939,221	+		BBR_RS18500	0.48	+3.1
1,939,228	+		BBR_RS18500	0.49	+0.4
1,939,228	+		BBR_RS18500	0.49	+1.1
1,939,228	+		BBR_RS18500	0.49	-1.5
1,939,236	-		BBR_RS18500	0.49	-1.2
1,939,236	-		BBR_RS18500	0.49	+1.6
1,939,241	-		BBR_RS18500	0.49	+1.0
1,939,265	+		BBR_RS18500	0.50	+3.2
1,939,265	+		BBR_RS18500	0.50	+1.0
1,939,273	-		BBR_RS18500	0.51	+1.7
1,939,273	-		BBR_RS18500	0.51	-2.0
1,939,275	-		BBR_RS18500	0.51	+1.6
1,939,276	+		BBR_RS18500	0.51	-2.1
1,939,304	+		BBR_RS18500	0.52	-1.1
1,939,304	+		BBR_RS18500	0.52	-0.0
1,939,304	-		BBR_RS18500	0.52	-0.3
1,939,322	-		BBR_RS18500	0.53	-0.6
1,939,322	-		BBR_RS18500	0.53	-0.0
1,939,331	+		BBR_RS18500	0.54	-3.8
1,939,331	+		BBR_RS18500	0.54	-0.5
1,939,332	-		BBR_RS18500	0.54	-1.4
1,939,339	-		BBR_RS18500	0.54	+3.5
1,939,339	-		BBR_RS18500	0.54	+3.5
1,939,341	-		BBR_RS18500	0.54	+1.5
1,939,361	-		BBR_RS18500	0.55	+0.8
1,939,386	+		BBR_RS18500	0.56	+0.8
1,939,399	+		BBR_RS18500	0.57	-0.1
1,939,399	+		BBR_RS18500	0.57	-0.0
1,939,399	+		BBR_RS18500	0.57	+0.1
1,939,407	+		BBR_RS18500	0.57	+0.4
1,939,407	+		BBR_RS18500	0.57	+1.4
1,939,485	-		BBR_RS18500	0.61	+1.1
1,939,494	+		BBR_RS18500	0.62	+1.3
1,939,497	-		BBR_RS18500	0.62	-0.9
1,939,502	-		BBR_RS18500	0.62	+1.1
1,939,502	-		BBR_RS18500	0.62	-1.6
1,939,528	-		BBR_RS18500	0.63	+0.7
1,939,551	-		BBR_RS18500	0.64	-1.5
1,939,571	+		BBR_RS18500	0.65	-0.4
1,939,625	+		BBR_RS18500	0.68	+2.9
1,939,661	-		BBR_RS18500	0.70	-2.4
1,939,675	+		BBR_RS18500	0.71	+2.9
1,939,675	+		BBR_RS18500	0.71	+3.5
1,939,684	+		BBR_RS18500	0.71	-1.5
1,939,717	+		BBR_RS18500	0.73	+0.2
1,939,755	-		BBR_RS18500	0.75	-2.3
1,939,784	+		BBR_RS18500	0.76	+3.3
1,939,787	-		BBR_RS18500	0.76	+3.5
1,939,810	+		BBR_RS18500	0.77	+0.4
1,939,828	-		BBR_RS18500	0.78	-1.2
1,939,832	-		BBR_RS18500	0.78	-2.7
1,939,853	-		BBR_RS18500	0.79	+3.1
1,939,853	-		BBR_RS18500	0.79	+3.7
1,939,879	+		BBR_RS18500	0.81	+1.7
1,939,892	+		BBR_RS18500	0.81	+0.1
1,939,892	+		BBR_RS18500	0.81	+1.0
1,939,931	+		BBR_RS18500	0.83	+1.4
1,939,936	+		BBR_RS18500	0.84	+0.4
1,939,936	+		BBR_RS18500	0.84	+1.7
1,939,936	+		BBR_RS18500	0.84	-1.0
1,939,941	+		BBR_RS18500	0.84	-0.7
1,939,941	+		BBR_RS18500	0.84	-0.7
1,939,941	+		BBR_RS18500	0.84	+4.3
1,939,944	-		BBR_RS18500	0.84	-2.1
1,939,944	-		BBR_RS18500	0.84	+0.0
1,939,944	-		BBR_RS18500	0.84	-1.0
1,939,968	+		BBR_RS18500	0.85	+1.2
1,939,984	+		BBR_RS18500	0.86	-1.5
1,940,008	+		BBR_RS18500	0.87	-1.8
1,940,021	-		BBR_RS18500	0.88	+2.7
1,940,048	+		BBR_RS18500	0.89	+1.3
1,940,051	-		BBR_RS18500	0.89	+4.3
1,940,090	+				-1.1
1,940,113	-				+1.2
1,940,127	+				+1.0
1,940,144	-				+2.0
1,940,156	+				+1.0
1,940,156	+				+0.3
1,940,178	+				+0.7
1,940,184	-				-1.7
1,940,192	+				+1.8
1,940,198	+				+0.9
1,940,206	-				-2.3
1,940,206	-				-3.3
1,940,227	+				-0.3
1,940,235	-				-1.6
1,940,235	-				-1.8
1,940,248	-				+1.4
1,940,369	-				+1.3
1,940,378	+				+0.4
1,940,412	-				+1.0
1,940,436	+				+3.9
1,940,450	-				-0.9
1,940,490	-				+1.2
1,940,492	-				+1.6
1,940,495	-				-1.1
1,940,528	-				+0.3
1,940,540	+		BBR_RS21050	0.14	-1.7
1,940,540	+		BBR_RS21050	0.14	+0.5
1,940,553	+		BBR_RS21050	0.21	-0.4
1,940,554	+		BBR_RS21050	0.22	-0.8
1,940,574	+		BBR_RS21050	0.32	-2.0
1,940,584	-		BBR_RS21050	0.38	+0.3
1,940,604	-		BBR_RS21050	0.48	-1.1
1,940,621	-		BBR_RS21050	0.58	+2.0
1,940,628	+				+0.2
1,940,658	+				+1.3
1,940,660	-				+1.7
1,940,681	+				+2.1
1,940,681	+				+1.8
1,940,681	+				-0.3
1,940,687	-				-0.2
1,940,689	-				+1.7
1,940,778	-		BBR_RS21055	0.72	+0.5
1,940,804	+		BBR_RS21055	0.84	-1.8
1,940,812	-		BBR_RS21055	0.88	-2.3
1,940,812	-		BBR_RS21055	0.88	-2.5
1,940,879	+				+1.6
1,940,886	+				+3.8
1,940,894	-				+0.1
1,940,897	+				+1.3
1,940,963	-				+1.5
1,940,963	-				-0.6
1,940,967	+				+1.4
1,940,980	-				+2.2
1,941,026	+				+1.1
1,941,032	-				-0.6
1,941,034	-				+1.0
1,941,034	-				+0.6
1,941,034	-				+0.5
1,941,111	-		BBR_RS18510	0.15	+3.2
1,941,112	+		BBR_RS18510	0.15	+1.2
1,941,122	+		BBR_RS18510	0.16	-2.5
1,941,131	-		BBR_RS18510	0.17	+1.4
1,941,135	+		BBR_RS18510	0.17	+0.9
1,941,143	-		BBR_RS18510	0.18	-2.1
1,941,171	-		BBR_RS18510	0.20	+0.2
1,941,185	-		BBR_RS18510	0.21	+0.0
1,941,249	+		BBR_RS18510	0.25	+1.8
1,941,259	+		BBR_RS18510	0.26	-1.8
1,941,259	+		BBR_RS18510	0.26	+2.2