Strain Fitness in Variovorax sp. SCN45 around GFF3001

Experiment: M9 with calcium pantothenate 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 ntGFF3000 and GFF3001 overlap by 4 nucleotidesGFF3001 and GFF3002 overlap by 4 nucleotidesGFF3002 and GFF3003 overlap by 4 nucleotides GFF3000 - D-2-hydroxyglutarate dehydrogenase (EC 1.1.99.2), at 429,872 to 431,299 GFF3000 GFF3001 - Metal chaperone, involved in Zn homeostasis, at 431,296 to 431,664 GFF3001 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 Position (kb) 431 432Strain fitness (log2 ratio) -1 0 1 2at 430.445 kb on + strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.298 kb on - strandat 431.298 kb on - strandat 431.379 kb on - strand, within GFF3001at 431.453 kb on + strand, within GFF3001at 431.453 kb on + strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.680 kb on + strandat 431.681 kb on - strandat 431.681 kb on - strandat 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 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 GFF3003

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
remove
430,445 + GFF3000 0.40 -0.4
430,719 - GFF3000 0.59 -0.4
430,719 - GFF3000 0.59 -0.3
430,719 - GFF3000 0.59 -0.3
430,719 - GFF3000 0.59 -0.2
431,123 + GFF3000 0.88 +0.5
431,123 + GFF3000 0.88 +1.0
431,123 + GFF3000 0.88 +0.9
431,123 + GFF3000 0.88 +0.0
431,298 - -1.2
431,298 - -0.5
431,379 - GFF3001 0.22 -0.2
431,453 + GFF3001 0.43 -0.4
431,453 + GFF3001 0.43 +0.1
431,454 - GFF3001 0.43 -0.3
431,454 - GFF3001 0.43 -0.4
431,454 - GFF3001 0.43 +0.2
431,454 - GFF3001 0.43 -0.9
431,454 - GFF3001 0.43 -0.1
431,456 + GFF3001 0.43 +1.8
431,456 + GFF3001 0.43 -0.2
431,456 + GFF3001 0.43 +0.8
431,456 + GFF3001 0.43 -0.0
431,457 - GFF3001 0.44 -0.1
431,457 - GFF3001 0.44 +0.2
431,457 - GFF3001 0.44 +0.8
431,680 + +0.5
431,681 - -1.0
431,681 - +0.8
431,767 + GFF3002 0.16 -0.4
431,767 + GFF3002 0.16 +0.2
431,767 + GFF3002 0.16 +0.4
431,767 + GFF3002 0.16 +0.5
431,767 + GFF3002 0.16 -0.4
431,768 - GFF3002 0.16 -0.1
431,768 - GFF3002 0.16 -0.8
431,768 - GFF3002 0.16 -0.6
431,768 - GFF3002 0.16 +0.8
431,768 - GFF3002 0.16 -1.0
431,768 - GFF3002 0.16 +0.8
431,867 - GFF3002 0.31 +0.6
431,867 - GFF3002 0.31 +0.4
431,867 - GFF3002 0.31 +0.7
432,025 - GFF3002 0.55 -1.3
432,025 - GFF3002 0.55 -1.1
432,025 - GFF3002 0.55 -0.2
432,121 + GFF3002 0.69 -1.2
432,121 + GFF3002 0.69 -0.0
432,124 + GFF3002 0.70 -0.4
432,124 + GFF3002 0.70 -0.2
432,124 + GFF3002 0.70 -0.1
432,124 + GFF3002 0.70 +0.1
432,124 + GFF3002 0.70 -0.3
432,125 - GFF3002 0.70 +0.8
432,125 - GFF3002 0.70 -0.0
432,125 - GFF3002 0.70 +1.5
432,125 - GFF3002 0.70 +0.2
432,125 - GFF3002 0.70 +0.4
432,125 - GFF3002 0.70 -0.1
432,125 - GFF3002 0.70 -0.2
432,125 - GFF3002 0.70 -0.1
432,125 - GFF3002 0.70 -0.9
432,125 - GFF3002 0.70 -1.3
432,125 - GFF3002 0.70 +1.0
432,140 - GFF3002 0.72 +0.1
432,319 + +0.6
432,319 + +0.0
432,319 + -0.0
432,319 + +0.3
432,319 + +0.0
432,319 + +0.4
432,319 + +0.3
432,319 + +0.0
432,319 + +0.1
432,320 - -0.5
432,320 - -0.6
432,320 - -0.0
432,320 - +0.6
432,320 - +0.8
432,320 - -0.1
432,320 - -0.1
432,457 - GFF3003 0.21 +0.9
432,579 + GFF3003 0.41 +0.4
432,580 - GFF3003 0.41 -0.2
432,580 - GFF3003 0.41 +0.2
432,580 - GFF3003 0.41 -0.2

Or see this region's nucleotide sequence