Strain Fitness in Variovorax sp. SCN45 around GFF5308

Experiment: M9 with Supernatant from Cyptococcus

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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.

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500 ntGFF5306 and GFF5307 overlap by 4 nucleotidesGFF5307 and GFF5308 overlap by 7 nucleotidesGFF5308 and GFF5309 are separated by 85 nucleotidesGFF5309 and GFF5310 are separated by 73 nucleotides GFF5306 - Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241), at 182,466 to 183,356 GFF5306 GFF5307 - Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241), at 183,353 to 184,237 GFF5307 GFF5308 - Epoxide hydrolase (EC 3.3.2.9), at 184,231 to 185,145 GFF5308 GFF5309 - GTP-binding protein EngB, at 185,231 to 185,971 GFF5309 GFF5310 - Cytochrome c4, at 186,045 to 186,725 GFF5310 Position (kb) 184 185 186Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 183.457 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.776 kb on + strand, within GFF5307at 183.911 kb on + strand, within GFF5307at 183.911 kb on + strand, within GFF5307at 183.911 kb on + strand, within GFF5307at 183.911 kb on + strand, within GFF5307at 183.911 kb on + strand, within GFF5307at 183.912 kb on - strand, within GFF5307at 183.912 kb on - strand, within GFF5307at 183.912 kb on - strand, within GFF5307at 183.966 kb on - strand, within GFF5307at 184.064 kb on + strand, within GFF5307at 184.065 kb on - strand, within GFF5307at 184.154 kb on + strandat 184.154 kb on + strandat 184.155 kb on - strandat 184.155 kb on - strandat 184.155 kb on - strandat 184.179 kb on - strandat 184.179 kb on - strandat 184.179 kb on - strandat 184.179 kb on - strandat 184.181 kb on + strandat 184.181 kb on + strandat 184.181 kb on + strandat 184.182 kb on - strandat 184.182 kb on - strandat 184.228 kb on + strandat 184.228 kb on + strandat 184.228 kb on + strandat 184.228 kb on + strandat 184.232 kb on + strandat 184.232 kb on + strandat 184.232 kb on + strandat 184.232 kb on + strandat 184.232 kb on + strandat 184.233 kb on - strandat 184.233 kb on - strandat 184.343 kb on + strand, within GFF5308at 184.343 kb on + strand, within GFF5308at 184.343 kb on + strand, within GFF5308at 184.343 kb on + strand, within GFF5308at 184.344 kb on - strand, within GFF5308at 184.344 kb on - strand, within GFF5308at 184.344 kb on - strand, within GFF5308at 184.344 kb on - strand, within GFF5308at 184.344 kb on - strand, within GFF5308at 184.502 kb on + strand, within GFF5308at 184.547 kb on + strand, within GFF5308at 184.547 kb on + strand, within GFF5308at 184.548 kb on - strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.685 kb on + strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.686 kb on - strand, within GFF5308at 184.800 kb on - strand, within GFF5308at 184.913 kb on + strand, within GFF5308at 184.913 kb on + strand, within GFF5308at 184.913 kb on + strand, within GFF5308at 184.913 kb on + strand, within GFF5308at 184.914 kb on - strand, within GFF5308at 184.914 kb on - strand, within GFF5308at 184.914 kb on - strand, within GFF5308at 185.006 kb on + strand, within GFF5308at 186.003 kb on - strandat 186.003 kb on - strandat 186.045 kb on - strandat 186.062 kb on + strandat 186.062 kb on + strandat 186.062 kb on + strandat 186.062 kb on + strandat 186.062 kb on + strandat 186.063 kb on - strandat 186.063 kb on - strandat 186.063 kb on - strandat 186.063 kb on - strandat 186.063 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus
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183,457 + GFF5307 0.12 -1.4
183,776 + GFF5307 0.48 -1.5
183,776 + GFF5307 0.48 -1.4
183,776 + GFF5307 0.48 -1.7
183,776 + GFF5307 0.48 +1.8
183,776 + GFF5307 0.48 -1.5
183,776 + GFF5307 0.48 -0.4
183,911 + GFF5307 0.63 -2.4
183,911 + GFF5307 0.63 +0.1
183,911 + GFF5307 0.63 -1.2
183,911 + GFF5307 0.63 -2.4
183,911 + GFF5307 0.63 +0.3
183,912 - GFF5307 0.63 -0.8
183,912 - GFF5307 0.63 -2.4
183,912 - GFF5307 0.63 -1.4
183,966 - GFF5307 0.69 -0.2
184,064 + GFF5307 0.80 +1.8
184,065 - GFF5307 0.80 -1.0
184,154 + +0.0
184,154 + -1.7
184,155 - -1.4
184,155 - -0.8
184,155 - -3.0
184,179 - -0.9
184,179 - -2.8
184,179 - -1.8
184,179 - -1.0
184,181 + -2.1
184,181 + -2.2
184,181 + -2.4
184,182 - -2.4
184,182 - -2.3
184,228 + +0.1
184,228 + -0.1
184,228 + -1.2
184,228 + +0.3
184,232 + +0.2
184,232 + -0.7
184,232 + -0.2
184,232 + -1.7
184,232 + -0.7
184,233 - -0.3
184,233 - +0.1
184,343 + GFF5308 0.12 +0.7
184,343 + GFF5308 0.12 +2.8
184,343 + GFF5308 0.12 +0.3
184,343 + GFF5308 0.12 +0.4
184,344 - GFF5308 0.12 +0.3
184,344 - GFF5308 0.12 +0.6
184,344 - GFF5308 0.12 +1.0
184,344 - GFF5308 0.12 -2.6
184,344 - GFF5308 0.12 +0.5
184,502 + GFF5308 0.30 -1.1
184,547 + GFF5308 0.35 -0.2
184,547 + GFF5308 0.35 -0.4
184,548 - GFF5308 0.35 +1.3
184,685 + GFF5308 0.50 -0.2
184,685 + GFF5308 0.50 +1.1
184,685 + GFF5308 0.50 +0.6
184,685 + GFF5308 0.50 -2.3
184,685 + GFF5308 0.50 -0.9
184,685 + GFF5308 0.50 -0.9
184,685 + GFF5308 0.50 -0.4
184,685 + GFF5308 0.50 -0.1
184,685 + GFF5308 0.50 +0.5
184,686 - GFF5308 0.50 +0.0
184,686 - GFF5308 0.50 +0.3
184,686 - GFF5308 0.50 +0.4
184,686 - GFF5308 0.50 -0.1
184,686 - GFF5308 0.50 +1.8
184,686 - GFF5308 0.50 -0.4
184,800 - GFF5308 0.62 +0.3
184,913 + GFF5308 0.75 +1.3
184,913 + GFF5308 0.75 +0.2
184,913 + GFF5308 0.75 -1.0
184,913 + GFF5308 0.75 +0.5
184,914 - GFF5308 0.75 -0.2
184,914 - GFF5308 0.75 -1.3
184,914 - GFF5308 0.75 +0.6
185,006 + GFF5308 0.85 +0.8
186,003 - -0.8
186,003 - -0.1
186,045 - -0.5
186,062 + -1.2
186,062 + -2.9
186,062 + -1.4
186,062 + +0.2
186,062 + -1.6
186,063 - -0.2
186,063 - -0.6
186,063 - -0.8
186,063 - -0.7
186,063 - -0.5

Or see this region's nucleotide sequence