Strain Fitness in Variovorax sp. SCN45 around GFF3902

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 ntGFF3901 and GFF3902 are separated by 12 nucleotidesGFF3902 and GFF3903 overlap by 4 nucleotides GFF3901 - Malate dehydrogenase (EC 1.1.1.37), at 102,793 to 103,779 GFF3901 GFF3902 - Trans-aconitate 2-methyltransferase (EC 2.1.1.144), at 103,792 to 104,583 GFF3902 GFF3903 - Similar to citrate lyase beta chain, 10, at 104,580 to 105,581 GFF3903 Position (kb) 103 104 105Strain fitness (log2 ratio) -2 -1 0 1at 103.777 kb on + strandat 103.777 kb on + strandat 103.777 kb on + strandat 103.777 kb on + strandat 103.777 kb on + strandat 103.778 kb on - strandat 103.778 kb on - strandat 103.816 kb on + strandat 103.816 kb on + strandat 103.816 kb on + strandat 103.817 kb on - strandat 104.092 kb on + strand, within GFF3902at 104.092 kb on + strand, within GFF3902at 104.092 kb on + strand, within GFF3902at 104.092 kb on + strand, within GFF3902at 104.092 kb on + strand, within GFF3902at 104.093 kb on - strand, within GFF3902at 104.093 kb on - strand, within GFF3902at 104.093 kb on - strand, within GFF3902at 104.093 kb on - strand, within GFF3902at 104.311 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.314 kb on + strand, within GFF3902at 104.315 kb on - strand, within GFF3902at 104.315 kb on - strand, within GFF3902at 104.315 kb on - strand, within GFF3902at 104.315 kb on - strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.365 kb on + strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.366 kb on - strand, within GFF3902at 104.467 kb on + strand, within GFF3902at 104.467 kb on + strand, within GFF3902at 104.468 kb on - strand, within GFF3902at 104.468 kb on - strand, within GFF3902at 104.468 kb on - strand, within GFF3902at 104.468 kb on - strand, within GFF3902at 104.479 kb on + strand, within GFF3902at 104.480 kb on - strand, within GFF3902at 104.480 kb on - strand, within GFF3902at 104.661 kb on + strandat 104.661 kb on + strandat 104.661 kb on + strandat 104.662 kb on - strandat 104.662 kb on - strandat 104.662 kb on - strandat 104.662 kb on - strandat 104.662 kb on - strandat 104.662 kb on - strandat 105.112 kb on - strand, within GFF3903at 105.228 kb on + strand, within GFF3903at 105.228 kb on + strand, within GFF3903at 105.229 kb on - strand, within GFF3903at 105.229 kb on - strand, within GFF3903at 105.229 kb on - strand, within GFF3903at 105.421 kb on + strand, within GFF3903at 105.421 kb on + strand, within GFF3903at 105.421 kb on + strand, within GFF3903at 105.421 kb on + strand, within GFF3903at 105.421 kb on + strand, within GFF3903at 105.422 kb on - strand, within GFF3903at 105.422 kb on - strand, within GFF3903at 105.422 kb on - strand, within GFF3903at 105.422 kb on - strand, within GFF3903at 105.486 kb on + strandat 105.487 kb on - strandat 105.487 kb on - strand

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
103,777 + +0.4
103,777 + +1.6
103,777 + -1.0
103,777 + -0.5
103,777 + +1.2
103,778 - +0.8
103,778 - +0.4
103,816 + +0.4
103,816 + -0.3
103,816 + +0.4
103,817 - -0.9
104,092 + GFF3902 0.38 -1.0
104,092 + GFF3902 0.38 -0.4
104,092 + GFF3902 0.38 +0.1
104,092 + GFF3902 0.38 +0.0
104,092 + GFF3902 0.38 -0.2
104,093 - GFF3902 0.38 +0.4
104,093 - GFF3902 0.38 -0.1
104,093 - GFF3902 0.38 -0.9
104,093 - GFF3902 0.38 -1.3
104,311 + GFF3902 0.66 -0.6
104,314 + GFF3902 0.66 -0.4
104,314 + GFF3902 0.66 +1.6
104,314 + GFF3902 0.66 -0.7
104,314 + GFF3902 0.66 -1.1
104,314 + GFF3902 0.66 +1.0
104,314 + GFF3902 0.66 +0.6
104,314 + GFF3902 0.66 -1.8
104,315 - GFF3902 0.66 -0.1
104,315 - GFF3902 0.66 -0.0
104,315 - GFF3902 0.66 -0.7
104,315 - GFF3902 0.66 +0.7
104,365 + GFF3902 0.72 -0.8
104,365 + GFF3902 0.72 -1.7
104,365 + GFF3902 0.72 +0.4
104,365 + GFF3902 0.72 -2.1
104,365 + GFF3902 0.72 -0.2
104,365 + GFF3902 0.72 +0.0
104,365 + GFF3902 0.72 -0.5
104,365 + GFF3902 0.72 -0.2
104,366 - GFF3902 0.72 -0.4
104,366 - GFF3902 0.72 -0.7
104,366 - GFF3902 0.72 -0.5
104,366 - GFF3902 0.72 -0.6
104,366 - GFF3902 0.72 -0.2
104,366 - GFF3902 0.72 +1.6
104,366 - GFF3902 0.72 -1.0
104,366 - GFF3902 0.72 -0.8
104,366 - GFF3902 0.72 +0.4
104,366 - GFF3902 0.72 -0.5
104,366 - GFF3902 0.72 -0.2
104,467 + GFF3902 0.85 -0.5
104,467 + GFF3902 0.85 -1.2
104,468 - GFF3902 0.85 +0.5
104,468 - GFF3902 0.85 -0.5
104,468 - GFF3902 0.85 -0.7
104,468 - GFF3902 0.85 -1.0
104,479 + GFF3902 0.87 +0.3
104,480 - GFF3902 0.87 -0.7
104,480 - GFF3902 0.87 +0.4
104,661 + -0.3
104,661 + +0.5
104,661 + -0.4
104,662 - -0.3
104,662 - +0.4
104,662 - -0.6
104,662 - +0.8
104,662 - -0.4
104,662 - -0.9
105,112 - GFF3903 0.53 -0.1
105,228 + GFF3903 0.65 +0.3
105,228 + GFF3903 0.65 -0.3
105,229 - GFF3903 0.65 -1.0
105,229 - GFF3903 0.65 -0.6
105,229 - GFF3903 0.65 -1.0
105,421 + GFF3903 0.84 +0.4
105,421 + GFF3903 0.84 +0.1
105,421 + GFF3903 0.84 -0.6
105,421 + GFF3903 0.84 -0.6
105,421 + GFF3903 0.84 -1.6
105,422 - GFF3903 0.84 +0.1
105,422 - GFF3903 0.84 +0.3
105,422 - GFF3903 0.84 -0.7
105,422 - GFF3903 0.84 -0.8
105,486 + -0.6
105,487 - +0.1
105,487 - -0.8

Or see this region's nucleotide sequence