Strain Fitness in Variovorax sp. SCN45 around GFF6243

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 ntGFF6242 and GFF6243 are separated by 15 nucleotidesGFF6243 and GFF6244 are separated by 75 nucleotides GFF6242 - ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD, at 34,769 to 37,306 GFF6242 GFF6243 - Ku domain protein, at 37,322 to 38,293 GFF6243 GFF6244 - Predicted deacylase, at 38,369 to 39,373 GFF6244 Position (kb) 37 38 39Strain fitness (log2 ratio) -3 -2 -1 0 1at 36.333 kb on + strand, within GFF6242at 36.577 kb on - strand, within GFF6242at 36.677 kb on + strand, within GFF6242at 36.677 kb on + strand, within GFF6242at 36.677 kb on + strand, within GFF6242at 36.678 kb on - strand, within GFF6242at 36.678 kb on - strand, within GFF6242at 36.678 kb on - strand, within GFF6242at 36.781 kb on - strand, within GFF6242at 36.999 kb on + strand, within GFF6242at 37.000 kb on - strand, within GFF6242at 37.035 kb on + strand, within GFF6242at 37.152 kb on + strandat 37.903 kb on - strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.935 kb on + strand, within GFF6243at 37.936 kb on - strand, within GFF6243at 37.936 kb on - strand, within GFF6243at 37.936 kb on - strand, within GFF6243at 37.938 kb on + strand, within GFF6243at 37.938 kb on + strand, within GFF6243at 37.939 kb on - strand, within GFF6243at 37.953 kb on + strand, within GFF6243at 38.019 kb on + strand, within GFF6243at 38.055 kb on + strand, within GFF6243at 38.055 kb on + strand, within GFF6243at 38.055 kb on + strand, within GFF6243at 38.056 kb on - strand, within GFF6243at 38.056 kb on - strand, within GFF6243at 38.056 kb on - strand, within GFF6243at 38.056 kb on - strand, within GFF6243at 38.071 kb on - strand, within GFF6243at 38.103 kb on - strand, within GFF6243at 38.103 kb on - strand, within GFF6243at 38.136 kb on + strand, within GFF6243at 38.136 kb on + strand, within GFF6243at 38.136 kb on + strand, within GFF6243at 38.205 kb on + strandat 38.205 kb on + strandat 38.206 kb on - strandat 38.346 kb on + strandat 38.346 kb on + strandat 38.346 kb on + strandat 38.346 kb on + strandat 38.346 kb on + strandat 38.347 kb on - strandat 38.424 kb on + strandat 38.424 kb on + strandat 38.424 kb on + strandat 38.424 kb on + strandat 38.425 kb on - strandat 38.425 kb on - strandat 38.425 kb on - strandat 38.781 kb on + strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.782 kb on - strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.862 kb on + strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 38.863 kb on - strand, within GFF6244at 39.079 kb on - strand, within GFF6244at 39.079 kb on - strand, within GFF6244

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
36,333 + GFF6242 0.62 -0.6
36,577 - GFF6242 0.71 +0.1
36,677 + GFF6242 0.75 -0.1
36,677 + GFF6242 0.75 -0.4
36,677 + GFF6242 0.75 -1.2
36,678 - GFF6242 0.75 +0.1
36,678 - GFF6242 0.75 -0.7
36,678 - GFF6242 0.75 +0.0
36,781 - GFF6242 0.79 -0.6
36,999 + GFF6242 0.88 +1.0
37,000 - GFF6242 0.88 -2.0
37,035 + GFF6242 0.89 +0.5
37,152 + -0.3
37,903 - GFF6243 0.60 -1.0
37,935 + GFF6243 0.63 +0.4
37,935 + GFF6243 0.63 -0.1
37,935 + GFF6243 0.63 +0.5
37,935 + GFF6243 0.63 -1.1
37,935 + GFF6243 0.63 -0.0
37,935 + GFF6243 0.63 -0.8
37,935 + GFF6243 0.63 +0.3
37,935 + GFF6243 0.63 -0.7
37,935 + GFF6243 0.63 -0.2
37,936 - GFF6243 0.63 -0.7
37,936 - GFF6243 0.63 +0.1
37,936 - GFF6243 0.63 +0.4
37,938 + GFF6243 0.63 +1.0
37,938 + GFF6243 0.63 +0.1
37,939 - GFF6243 0.63 +0.2
37,953 + GFF6243 0.65 +0.5
38,019 + GFF6243 0.72 +0.1
38,055 + GFF6243 0.75 -0.3
38,055 + GFF6243 0.75 -0.6
38,055 + GFF6243 0.75 +0.4
38,056 - GFF6243 0.76 +1.3
38,056 - GFF6243 0.76 +0.8
38,056 - GFF6243 0.76 +1.3
38,056 - GFF6243 0.76 -0.7
38,071 - GFF6243 0.77 -1.1
38,103 - GFF6243 0.80 -0.1
38,103 - GFF6243 0.80 -0.0
38,136 + GFF6243 0.84 +0.0
38,136 + GFF6243 0.84 +0.6
38,136 + GFF6243 0.84 +1.2
38,205 + +0.3
38,205 + +0.2
38,206 - -0.0
38,346 + -1.0
38,346 + +0.6
38,346 + -0.3
38,346 + +0.2
38,346 + +0.9
38,347 - -0.1
38,424 + -0.1
38,424 + -0.9
38,424 + -0.5
38,424 + +0.1
38,425 - -0.7
38,425 - -0.3
38,425 - -1.2
38,781 + GFF6244 0.41 +0.8
38,782 - GFF6244 0.41 -0.5
38,782 - GFF6244 0.41 +1.5
38,782 - GFF6244 0.41 -0.2
38,782 - GFF6244 0.41 -0.0
38,782 - GFF6244 0.41 +0.0
38,782 - GFF6244 0.41 -0.9
38,862 + GFF6244 0.49 -0.5
38,862 + GFF6244 0.49 +1.5
38,862 + GFF6244 0.49 +0.7
38,862 + GFF6244 0.49 +0.0
38,862 + GFF6244 0.49 -0.7
38,862 + GFF6244 0.49 +0.1
38,863 - GFF6244 0.49 -0.6
38,863 - GFF6244 0.49 -2.9
38,863 - GFF6244 0.49 -0.8
38,863 - GFF6244 0.49 +1.0
38,863 - GFF6244 0.49 -1.7
38,863 - GFF6244 0.49 -0.2
39,079 - GFF6244 0.71 -0.5
39,079 - GFF6244 0.71 -0.8

Or see this region's nucleotide sequence