Strain Fitness in Variovorax sp. SCN45 around GFF4540

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 ntGFF4537 and GFF4538 are separated by 0 nucleotidesGFF4538 and GFF4539 are separated by 21 nucleotidesGFF4539 and GFF4540 are separated by 375 nucleotidesGFF4540 and GFF4541 are separated by 4 nucleotides GFF4537 - Tetrapartite efflux system, inner membrane component FusBC-like, at 175,084 to 177,216 GFF4537 GFF4538 - Transcriptional regulator, MarR family, at 177,217 to 177,684 GFF4538 GFF4539 - no description, at 177,706 to 177,831 GFF4539 GFF4540 - hypothetical protein, at 178,207 to 179,388 GFF4540 GFF4541 - Uncharacterized protein conserved in bacteria, at 179,393 to 180,772 GFF4541 Position (kb) 178 179 180Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.218 kb on + strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.219 kb on - strandat 177.587 kb on + strand, within GFF4538at 177.588 kb on - strand, within GFF4538at 177.743 kb on + strand, within GFF4539at 177.747 kb on + strand, within GFF4539at 177.747 kb on + strand, within GFF4539at 177.747 kb on + strand, within GFF4539at 177.771 kb on - strand, within GFF4539at 177.771 kb on - strand, within GFF4539at 177.771 kb on - strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.774 kb on + strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 177.775 kb on - strand, within GFF4539at 178.347 kb on + strand, within GFF4540at 178.347 kb on + strand, within GFF4540at 178.347 kb on + strand, within GFF4540at 178.347 kb on + strand, within GFF4540at 178.347 kb on + strand, within GFF4540at 178.347 kb on + strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.348 kb on - strand, within GFF4540at 178.370 kb on + strand, within GFF4540at 178.370 kb on + strand, within GFF4540at 178.370 kb on + strand, within GFF4540at 178.370 kb on + strand, within GFF4540at 178.371 kb on - strand, within GFF4540at 178.371 kb on - strand, within GFF4540at 178.371 kb on - strand, within GFF4540at 178.371 kb on - strand, within GFF4540at 178.504 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.799 kb on + strand, within GFF4540at 178.800 kb on - strand, within GFF4540at 178.800 kb on - strand, within GFF4540at 178.800 kb on - strand, within GFF4540at 178.800 kb on - strand, within GFF4540at 178.860 kb on - strand, within GFF4540at 179.042 kb on + strand, within GFF4540at 179.087 kb on + strand, within GFF4540at 179.088 kb on - strand, within GFF4540at 179.190 kb on - strand, within GFF4540at 179.204 kb on + strand, within GFF4540at 179.368 kb on + strandat 179.368 kb on + strandat 179.368 kb on + strandat 179.368 kb on + strandat 179.369 kb on - strandat 179.369 kb on - strandat 179.369 kb on - strandat 179.369 kb on - strandat 179.802 kb on + strand, within GFF4541at 179.802 kb on + strand, within GFF4541at 179.985 kb on + strand, within GFF4541at 179.986 kb on - strand, within GFF4541at 179.986 kb on - strand, within GFF4541at 180.144 kb on + strand, within GFF4541at 180.144 kb on + strand, within GFF4541at 180.145 kb on - strand, within GFF4541at 180.145 kb on - strand, within GFF4541at 180.360 kb on + strand, within GFF4541at 180.360 kb on + strand, within GFF4541at 180.361 kb on - strand, within GFF4541at 180.361 kb on - strand, within GFF4541

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
remove
177,218 + +0.1
177,218 + -1.0
177,218 + +0.0
177,218 + +0.9
177,218 + -0.2
177,218 + -1.1
177,218 + +0.3
177,218 + +0.9
177,219 - -0.2
177,219 - +0.8
177,219 - +0.1
177,219 - -1.5
177,219 - +0.5
177,219 - +0.4
177,219 - -2.2
177,219 - -0.7
177,219 - -2.1
177,219 - -3.0
177,219 - -0.5
177,219 - -0.3
177,587 + GFF4538 0.79 -1.5
177,588 - GFF4538 0.79 -1.1
177,743 + GFF4539 0.29 -0.1
177,747 + GFF4539 0.33 -0.5
177,747 + GFF4539 0.33 -0.6
177,747 + GFF4539 0.33 -2.7
177,771 - GFF4539 0.52 -1.0
177,771 - GFF4539 0.52 -1.3
177,771 - GFF4539 0.52 -0.5
177,774 + GFF4539 0.54 -0.4
177,774 + GFF4539 0.54 -0.7
177,774 + GFF4539 0.54 -0.6
177,774 + GFF4539 0.54 +0.9
177,774 + GFF4539 0.54 -1.4
177,774 + GFF4539 0.54 -2.1
177,774 + GFF4539 0.54 -0.1
177,774 + GFF4539 0.54 -2.3
177,775 - GFF4539 0.55 +0.6
177,775 - GFF4539 0.55 -0.8
177,775 - GFF4539 0.55 +1.0
177,775 - GFF4539 0.55 -1.1
177,775 - GFF4539 0.55 -0.3
177,775 - GFF4539 0.55 -1.4
177,775 - GFF4539 0.55 -0.2
177,775 - GFF4539 0.55 -0.5
178,347 + GFF4540 0.12 -0.8
178,347 + GFF4540 0.12 -0.0
178,347 + GFF4540 0.12 -1.7
178,347 + GFF4540 0.12 +1.3
178,347 + GFF4540 0.12 +0.5
178,347 + GFF4540 0.12 -0.1
178,348 - GFF4540 0.12 -0.1
178,348 - GFF4540 0.12 -3.4
178,348 - GFF4540 0.12 +0.1
178,348 - GFF4540 0.12 -0.1
178,348 - GFF4540 0.12 +1.3
178,348 - GFF4540 0.12 +0.2
178,348 - GFF4540 0.12 +0.3
178,348 - GFF4540 0.12 +0.5
178,348 - GFF4540 0.12 -0.2
178,370 + GFF4540 0.14 +1.3
178,370 + GFF4540 0.14 +3.8
178,370 + GFF4540 0.14 +0.3
178,370 + GFF4540 0.14 +0.3
178,371 - GFF4540 0.14 -1.1
178,371 - GFF4540 0.14 +1.6
178,371 - GFF4540 0.14 +2.3
178,371 - GFF4540 0.14 -2.6
178,504 + GFF4540 0.25 +0.3
178,799 + GFF4540 0.50 +1.3
178,799 + GFF4540 0.50 +2.1
178,799 + GFF4540 0.50 -0.5
178,799 + GFF4540 0.50 -1.2
178,799 + GFF4540 0.50 -1.4
178,799 + GFF4540 0.50 +2.3
178,800 - GFF4540 0.50 +0.8
178,800 - GFF4540 0.50 -1.2
178,800 - GFF4540 0.50 -2.2
178,800 - GFF4540 0.50 -2.1
178,860 - GFF4540 0.55 +0.1
179,042 + GFF4540 0.71 +0.6
179,087 + GFF4540 0.74 -0.8
179,088 - GFF4540 0.75 +0.3
179,190 - GFF4540 0.83 +0.3
179,204 + GFF4540 0.84 +0.3
179,368 + -0.3
179,368 + -0.5
179,368 + -0.7
179,368 + -1.7
179,369 - +0.8
179,369 - +1.3
179,369 - +0.8
179,369 - +1.2
179,802 + GFF4541 0.30 -1.8
179,802 + GFF4541 0.30 -0.4
179,985 + GFF4541 0.43 -1.0
179,986 - GFF4541 0.43 +0.1
179,986 - GFF4541 0.43 -1.1
180,144 + GFF4541 0.54 +1.3
180,144 + GFF4541 0.54 -2.9
180,145 - GFF4541 0.54 +0.9
180,145 - GFF4541 0.54 -2.6
180,360 + GFF4541 0.70 -1.7
180,360 + GFF4541 0.70 -0.2
180,361 - GFF4541 0.70 -1.1
180,361 - GFF4541 0.70 -1.7

Or see this region's nucleotide sequence