Strain Fitness in Variovorax sp. SCN45 around GFF4946

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 10 mg/mL

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntGFF4944 and GFF4945 are separated by 24 nucleotidesGFF4945 and GFF4946 overlap by 4 nucleotidesGFF4946 and GFF4947 overlap by 4 nucleotides GFF4944 - Excinuclease ABC subunit A, at 36,537 to 39,635 GFF4944 GFF4945 - probable GntR-family transcriptional regulator, at 39,660 to 40,415 GFF4945 GFF4946 - Glycerol-3-phosphate dehydrogenase (EC 1.1.5.3), at 40,412 to 42,181 GFF4946 GFF4947 - Erythritol kinase EryA (EC 2.7.1.27), at 42,178 to 43,665 GFF4947 Position (kb) 40 41 42 43Strain fitness (log2 ratio) -2 -1 0 1 2 3at 39.616 kb on - strandat 39.746 kb on - strand, within GFF4945at 39.746 kb on - strand, within GFF4945at 39.865 kb on + strand, within GFF4945at 39.887 kb on - strand, within GFF4945at 39.887 kb on - strand, within GFF4945at 39.887 kb on - strand, within GFF4945at 40.198 kb on + strand, within GFF4945at 40.198 kb on + strand, within GFF4945at 40.198 kb on + strand, within GFF4945at 40.199 kb on - strand, within GFF4945at 40.199 kb on - strand, within GFF4945at 40.698 kb on + strand, within GFF4946at 40.698 kb on + strand, within GFF4946at 40.699 kb on - strand, within GFF4946at 40.699 kb on - strand, within GFF4946at 40.699 kb on - strand, within GFF4946at 40.699 kb on - strand, within GFF4946at 40.699 kb on - strand, within GFF4946at 41.133 kb on + strand, within GFF4946at 41.133 kb on + strand, within GFF4946at 41.133 kb on + strand, within GFF4946at 41.133 kb on + strand, within GFF4946at 41.133 kb on + strand, within GFF4946at 41.134 kb on - strand, within GFF4946at 41.134 kb on - strand, within GFF4946at 41.134 kb on - strand, within GFF4946at 41.134 kb on - strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.139 kb on + strand, within GFF4946at 41.140 kb on - strand, within GFF4946at 41.140 kb on - strand, within GFF4946at 41.140 kb on - strand, within GFF4946at 41.140 kb on - strand, within GFF4946at 41.202 kb on + strand, within GFF4946at 41.203 kb on - strand, within GFF4946at 41.292 kb on + strand, within GFF4946at 41.328 kb on + strand, within GFF4946at 41.328 kb on + strand, within GFF4946at 41.528 kb on - strand, within GFF4946at 41.556 kb on + strand, within GFF4946at 41.557 kb on - strand, within GFF4946at 41.557 kb on - strand, within GFF4946at 41.557 kb on - strand, within GFF4946at 41.557 kb on - strand, within GFF4946at 41.557 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.758 kb on - strand, within GFF4946at 41.974 kb on - strand, within GFF4946at 42.359 kb on + strand, within GFF4947at 42.360 kb on - strand, within GFF4947at 42.770 kb on + strand, within GFF4947at 42.770 kb on + strand, within GFF4947at 42.770 kb on + strand, within GFF4947at 42.771 kb on - strand, within GFF4947at 42.771 kb on - strand, within GFF4947at 42.771 kb on - strand, within GFF4947at 43.175 kb on + strand, within GFF4947at 43.175 kb on + strand, within GFF4947at 43.175 kb on + strand, within GFF4947at 43.175 kb on + strand, within GFF4947at 43.176 kb on - strand, within GFF4947

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 10 mg/mL
remove
39,616 - -0.2
39,746 - GFF4945 0.11 +1.3
39,746 - GFF4945 0.11 +0.9
39,865 + GFF4945 0.27 +0.2
39,887 - GFF4945 0.30 -0.3
39,887 - GFF4945 0.30 -1.0
39,887 - GFF4945 0.30 -0.5
40,198 + GFF4945 0.71 +0.4
40,198 + GFF4945 0.71 -0.2
40,198 + GFF4945 0.71 -1.6
40,199 - GFF4945 0.71 -0.0
40,199 - GFF4945 0.71 +0.0
40,698 + GFF4946 0.16 +1.8
40,698 + GFF4946 0.16 +0.7
40,699 - GFF4946 0.16 -0.5
40,699 - GFF4946 0.16 +0.6
40,699 - GFF4946 0.16 -0.6
40,699 - GFF4946 0.16 +0.3
40,699 - GFF4946 0.16 -0.1
41,133 + GFF4946 0.41 -0.5
41,133 + GFF4946 0.41 +3.4
41,133 + GFF4946 0.41 -0.4
41,133 + GFF4946 0.41 -0.4
41,133 + GFF4946 0.41 -1.2
41,134 - GFF4946 0.41 +0.3
41,134 - GFF4946 0.41 +0.1
41,134 - GFF4946 0.41 +0.2
41,134 - GFF4946 0.41 +0.8
41,139 + GFF4946 0.41 -1.0
41,139 + GFF4946 0.41 +0.8
41,139 + GFF4946 0.41 +1.2
41,139 + GFF4946 0.41 -1.9
41,139 + GFF4946 0.41 +0.5
41,139 + GFF4946 0.41 -0.2
41,139 + GFF4946 0.41 +1.6
41,139 + GFF4946 0.41 -0.3
41,139 + GFF4946 0.41 +0.8
41,139 + GFF4946 0.41 -0.2
41,140 - GFF4946 0.41 +1.5
41,140 - GFF4946 0.41 +2.4
41,140 - GFF4946 0.41 +0.4
41,140 - GFF4946 0.41 +0.2
41,202 + GFF4946 0.45 +0.7
41,203 - GFF4946 0.45 -0.3
41,292 + GFF4946 0.50 -0.2
41,328 + GFF4946 0.52 +0.3
41,328 + GFF4946 0.52 -0.3
41,528 - GFF4946 0.63 +0.8
41,556 + GFF4946 0.65 +1.6
41,557 - GFF4946 0.65 +0.0
41,557 - GFF4946 0.65 -0.0
41,557 - GFF4946 0.65 -0.0
41,557 - GFF4946 0.65 -0.5
41,557 - GFF4946 0.65 -0.1
41,758 - GFF4946 0.76 -0.4
41,758 - GFF4946 0.76 -0.2
41,758 - GFF4946 0.76 -0.9
41,758 - GFF4946 0.76 +0.5
41,758 - GFF4946 0.76 +0.2
41,758 - GFF4946 0.76 -0.8
41,974 - GFF4946 0.88 -1.2
42,359 + GFF4947 0.12 -0.2
42,360 - GFF4947 0.12 -0.0
42,770 + GFF4947 0.40 +1.2
42,770 + GFF4947 0.40 -0.4
42,770 + GFF4947 0.40 +1.4
42,771 - GFF4947 0.40 +0.2
42,771 - GFF4947 0.40 +0.2
42,771 - GFF4947 0.40 +0.0
43,175 + GFF4947 0.67 -0.8
43,175 + GFF4947 0.67 -0.7
43,175 + GFF4947 0.67 +0.1
43,175 + GFF4947 0.67 -0.3
43,176 - GFF4947 0.67 -0.2

Or see this region's nucleotide sequence