Strain Fitness in Variovorax sp. SCN45 around GFF3004

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 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 ntGFF3002 and GFF3003 overlap by 4 nucleotidesGFF3003 and GFF3004 are separated by 6 nucleotidesGFF3004 and GFF3005 are separated by 5 nucleotidesGFF3005 and GFF3006 overlap by 4 nucleotides GFF3002 - Cobalt-containing nitrile hydratase subunit beta (EC 4.2.1.84), at 431,661 to 432,326 GFF3002 GFF3003 - Cobalt-containing nitrile hydratase subunit alpha (EC 4.2.1.84), at 432,323 to 432,952 GFF3003 GFF3004 - Thymidylate synthase (EC 2.1.1.45), at 432,959 to 433,828 GFF3004 GFF3005 - Dihydrofolate reductase (EC 1.5.1.3), at 433,834 to 434,355 GFF3005 GFF3006 - hypothetical protein, at 434,352 to 435,473 GFF3006 Position (kb) 432 433 434Strain fitness (log2 ratio) -2 -1 0 1 2at 432.025 kb on - strand, within GFF3002at 432.025 kb on - strand, within GFF3002at 432.025 kb on - strand, within GFF3002at 432.121 kb on + strand, within GFF3002at 432.121 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.140 kb on - strand, within GFF3002at 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.319 kb on + strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.320 kb on - strandat 432.457 kb on - strand, within GFF3003at 432.579 kb on + strand, within GFF3003at 432.580 kb on - strand, within GFF3003at 432.580 kb on - strand, within GFF3003at 432.580 kb on - strand, within GFF3003at 432.702 kb on + strand, within GFF3003at 432.819 kb on + strand, within GFF3003at 432.819 kb on + strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.820 kb on - strand, within GFF3003at 432.858 kb on + strand, within GFF3003at 432.858 kb on + strand, within GFF3003at 432.858 kb on + strand, within GFF3003at 432.859 kb on - strand, within GFF3003at 432.859 kb on - strand, within GFF3003at 432.859 kb on - strand, within GFF3003at 432.859 kb on - strand, within GFF3003at 432.859 kb on - strand, within GFF3003at 432.875 kb on + strand, within GFF3003at 432.876 kb on - strand, within GFF3003at 432.876 kb on - strand, within GFF3003at 432.876 kb on - strand, within GFF3003at 432.958 kb on + strandat 432.958 kb on + strandat 432.958 kb on + strandat 432.959 kb on - strandat 432.959 kb on - strandat 432.959 kb on - strandat 432.959 kb on - strandat 432.959 kb on - strandat 432.959 kb on - strandat 432.963 kb on + strandat 432.963 kb on + strandat 432.964 kb on - strandat 434.610 kb on + strand, within GFF3006at 434.611 kb on - strand, within GFF3006at 434.611 kb on - strand, within GFF3006

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL
remove
432,025 - GFF3002 0.55 -1.5
432,025 - GFF3002 0.55 +0.0
432,025 - GFF3002 0.55 -0.4
432,121 + GFF3002 0.69 +0.2
432,121 + GFF3002 0.69 -0.4
432,124 + GFF3002 0.70 -0.5
432,124 + GFF3002 0.70 -0.6
432,124 + GFF3002 0.70 +0.0
432,124 + GFF3002 0.70 -0.9
432,124 + GFF3002 0.70 -0.5
432,125 - GFF3002 0.70 -0.3
432,125 - GFF3002 0.70 -1.2
432,125 - GFF3002 0.70 -1.2
432,125 - GFF3002 0.70 -0.0
432,125 - GFF3002 0.70 -0.8
432,125 - GFF3002 0.70 -0.5
432,125 - GFF3002 0.70 -0.6
432,125 - GFF3002 0.70 -0.3
432,125 - GFF3002 0.70 -2.1
432,125 - GFF3002 0.70 -0.3
432,125 - GFF3002 0.70 +1.8
432,140 - GFF3002 0.72 -1.2
432,319 + +0.6
432,319 + -0.1
432,319 + +1.1
432,319 + +0.2
432,319 + +0.3
432,319 + +0.9
432,319 + -0.4
432,319 + +0.2
432,319 + -1.2
432,320 - +0.1
432,320 - -0.7
432,320 - -0.6
432,320 - +0.5
432,320 - +1.6
432,320 - -0.6
432,320 - -0.2
432,457 - GFF3003 0.21 -0.5
432,579 + GFF3003 0.41 -0.7
432,580 - GFF3003 0.41 -0.4
432,580 - GFF3003 0.41 +1.0
432,580 - GFF3003 0.41 +1.2
432,702 + GFF3003 0.60 -0.4
432,819 + GFF3003 0.79 +0.3
432,819 + GFF3003 0.79 +0.7
432,820 - GFF3003 0.79 -0.2
432,820 - GFF3003 0.79 -0.7
432,820 - GFF3003 0.79 +1.6
432,820 - GFF3003 0.79 +0.1
432,820 - GFF3003 0.79 -0.0
432,820 - GFF3003 0.79 -0.2
432,820 - GFF3003 0.79 +0.9
432,858 + GFF3003 0.85 -0.1
432,858 + GFF3003 0.85 +0.0
432,858 + GFF3003 0.85 -0.6
432,859 - GFF3003 0.85 -0.4
432,859 - GFF3003 0.85 -0.5
432,859 - GFF3003 0.85 -0.2
432,859 - GFF3003 0.85 +0.0
432,859 - GFF3003 0.85 +0.8
432,875 + GFF3003 0.88 +0.6
432,876 - GFF3003 0.88 -0.9
432,876 - GFF3003 0.88 +0.6
432,876 - GFF3003 0.88 -2.3
432,958 + -0.0
432,958 + -0.7
432,958 + +0.3
432,959 - -1.0
432,959 - +0.1
432,959 - -0.8
432,959 - -0.9
432,959 - +2.3
432,959 - -0.4
432,963 + +0.3
432,963 + -0.6
432,964 - +0.2
434,610 + GFF3006 0.23 -0.3
434,611 - GFF3006 0.23 -0.0
434,611 - GFF3006 0.23 +1.6

Or see this region's nucleotide sequence