Strain Fitness in Variovorax sp. SCN45 around GFF240

Experiment: Community=Locust bean gum; Passage=4

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 ntGFF237 and GFF238 are separated by 136 nucleotidesGFF238 and GFF239 are separated by 1 nucleotidesGFF239 and GFF240 overlap by 4 nucleotidesGFF240 and GFF241 are separated by 21 nucleotides GFF237 - ABC-type branched-chain amino acid transport systems, periplasmic component, at 265,469 to 266,686 GFF237 GFF238 - hypothetical protein, at 266,823 to 267,221 GFF238 GFF239 - DNA polymerase III chi subunit (EC 2.7.7.7), at 267,223 to 267,663 GFF239 GFF240 - Cytosol aminopeptidase PepA (EC 3.4.11.1), at 267,660 to 269,159 GFF240 GFF241 - Lipopolysaccharide export system permease protein LptF, at 269,181 to 270,302 GFF241 Position (kb) 267 268 269 270Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 266.712 kb on - strandat 266.716 kb on + strandat 266.745 kb on + strandat 266.745 kb on + strandat 266.746 kb on - strandat 266.813 kb on - strandat 266.824 kb on + strandat 266.824 kb on + strandat 266.825 kb on - strandat 266.843 kb on + strandat 266.844 kb on - strandat 266.844 kb on - strandat 266.844 kb on - strandat 266.844 kb on - strandat 266.844 kb on - strandat 267.275 kb on + strand, within GFF239at 267.617 kb on + strand, within GFF239at 267.618 kb on - strand, within GFF239at 267.618 kb on - strand, within GFF239at 267.618 kb on - strand, within GFF239at 267.618 kb on - strand, within GFF239at 267.641 kb on + strandat 267.642 kb on - strandat 267.742 kb on + strandat 267.742 kb on + strandat 267.742 kb on + strandat 267.940 kb on + strand, within GFF240at 267.941 kb on - strand, within GFF240at 268.123 kb on + strand, within GFF240at 268.123 kb on + strand, within GFF240at 268.123 kb on + strand, within GFF240at 268.123 kb on + strand, within GFF240at 268.123 kb on + strand, within GFF240at 268.124 kb on - strand, within GFF240at 268.124 kb on - strand, within GFF240at 268.124 kb on - strand, within GFF240at 268.124 kb on - strand, within GFF240at 268.124 kb on - strand, within GFF240at 268.454 kb on - strand, within GFF240at 268.774 kb on + strand, within GFF240at 268.774 kb on + strand, within GFF240at 268.774 kb on + strand, within GFF240at 268.774 kb on + strand, within GFF240at 268.774 kb on + strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.775 kb on - strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.780 kb on + strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 268.781 kb on - strand, within GFF240at 269.159 kb on + strandat 269.159 kb on + strandat 269.160 kb on - strandat 269.186 kb on - strandat 269.186 kb on - strandat 269.186 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
remove
266,712 - -0.9
266,716 + +1.2
266,745 + -0.9
266,745 + -0.4
266,746 - -0.7
266,813 - -0.1
266,824 + +0.0
266,824 + -0.4
266,825 - +2.8
266,843 + +1.3
266,844 - -1.7
266,844 - -4.2
266,844 - +1.6
266,844 - +0.3
266,844 - +2.6
267,275 + GFF239 0.12 +1.6
267,617 + GFF239 0.89 +1.6
267,618 - GFF239 0.90 +1.6
267,618 - GFF239 0.90 +1.6
267,618 - GFF239 0.90 +0.1
267,618 - GFF239 0.90 +1.6
267,641 + +1.6
267,642 - +1.6
267,742 + +0.2
267,742 + -2.2
267,742 + +0.6
267,940 + GFF240 0.19 +0.6
267,941 - GFF240 0.19 -1.1
268,123 + GFF240 0.31 +1.6
268,123 + GFF240 0.31 +1.6
268,123 + GFF240 0.31 +1.6
268,123 + GFF240 0.31 +1.6
268,123 + GFF240 0.31 +0.6
268,124 - GFF240 0.31 -1.9
268,124 - GFF240 0.31 +1.2
268,124 - GFF240 0.31 +0.4
268,124 - GFF240 0.31 -1.7
268,124 - GFF240 0.31 -0.7
268,454 - GFF240 0.53 -1.2
268,774 + GFF240 0.74 +0.6
268,774 + GFF240 0.74 +1.6
268,774 + GFF240 0.74 +0.6
268,774 + GFF240 0.74 +1.6
268,774 + GFF240 0.74 +1.6
268,775 - GFF240 0.74 +2.3
268,775 - GFF240 0.74 -2.3
268,775 - GFF240 0.74 -3.2
268,775 - GFF240 0.74 -2.6
268,775 - GFF240 0.74 -1.7
268,775 - GFF240 0.74 -1.8
268,775 - GFF240 0.74 +2.2
268,775 - GFF240 0.74 -0.9
268,775 - GFF240 0.74 -3.2
268,780 + GFF240 0.75 -0.4
268,780 + GFF240 0.75 -1.4
268,780 + GFF240 0.75 +0.6
268,780 + GFF240 0.75 +0.1
268,780 + GFF240 0.75 +0.1
268,780 + GFF240 0.75 -0.9
268,780 + GFF240 0.75 +1.1
268,780 + GFF240 0.75 +1.6
268,780 + GFF240 0.75 +1.6
268,780 + GFF240 0.75 +1.6
268,780 + GFF240 0.75 -1.8
268,780 + GFF240 0.75 -0.4
268,781 - GFF240 0.75 +1.6
268,781 - GFF240 0.75 -2.6
268,781 - GFF240 0.75 -3.3
268,781 - GFF240 0.75 -0.4
268,781 - GFF240 0.75 +0.1
268,781 - GFF240 0.75 -0.9
268,781 - GFF240 0.75 -2.2
268,781 - GFF240 0.75 -1.9
268,781 - GFF240 0.75 +0.6
268,781 - GFF240 0.75 -1.4
268,781 - GFF240 0.75 -2.5
269,159 + -1.4
269,159 + -1.2
269,160 - +0.6
269,186 - +2.4
269,186 - -0.9
269,186 - +2.3

Or see this region's nucleotide sequence