Strain Fitness in Variovorax sp. SCN45 around GFF1800

Experiment: M9 with Supernatant from Cyptococcus and 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 ntGFF1798 and GFF1799 are separated by 23 nucleotidesGFF1799 and GFF1800 are separated by 13 nucleotidesGFF1800 and GFF1801 are separated by 113 nucleotides GFF1798 - 2-hydroxy-3-oxopropionate reductase (EC 1.1.1.60), at 460,805 to 461,713 GFF1798 GFF1799 - Hydroxypyruvate isomerase (EC 5.3.1.22), at 461,737 to 462,522 GFF1799 GFF1800 - Glyoxylate carboligase (EC 4.1.1.47), at 462,536 to 464,329 GFF1800 GFF1801 - Transcriptional regulator, LysR family, at 464,443 to 465,345 GFF1801 Position (kb) 462 463 464 465Strain fitness (log2 ratio) -2 -1 0 1 2at 461.801 kb on + strandat 461.802 kb on - strandat 461.862 kb on - strand, within GFF1799at 461.984 kb on + strand, within GFF1799at 461.984 kb on + strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.985 kb on - strand, within GFF1799at 461.993 kb on + strand, within GFF1799at 461.993 kb on + strand, within GFF1799at 462.411 kb on - strand, within GFF1799at 462.411 kb on - strand, within GFF1799at 462.422 kb on + strand, within GFF1799at 462.422 kb on + strand, within GFF1799at 462.423 kb on - strand, within GFF1799at 462.538 kb on - strandat 462.798 kb on + strand, within GFF1800at 462.799 kb on - strand, within GFF1800at 462.862 kb on - strand, within GFF1800at 462.906 kb on + strand, within GFF1800at 462.906 kb on + strand, within GFF1800at 462.907 kb on - strand, within GFF1800at 462.990 kb on + strand, within GFF1800at 462.990 kb on + strand, within GFF1800at 463.110 kb on + strand, within GFF1800at 463.110 kb on + strand, within GFF1800at 463.110 kb on + strand, within GFF1800at 463.111 kb on - strand, within GFF1800at 463.111 kb on - strand, within GFF1800at 463.164 kb on + strand, within GFF1800at 463.164 kb on + strand, within GFF1800at 463.164 kb on + strand, within GFF1800at 463.165 kb on - strand, within GFF1800at 463.165 kb on - strand, within GFF1800at 463.165 kb on - strand, within GFF1800at 463.165 kb on - strand, within GFF1800at 463.203 kb on + strand, within GFF1800at 463.455 kb on + strand, within GFF1800at 463.456 kb on - strand, within GFF1800at 463.456 kb on - strand, within GFF1800at 463.779 kb on + strand, within GFF1800at 463.780 kb on - strand, within GFF1800at 464.001 kb on + strand, within GFF1800at 464.001 kb on + strand, within GFF1800at 464.148 kb on + strand, within GFF1800at 464.148 kb on + strand, within GFF1800at 464.149 kb on - strand, within GFF1800at 464.229 kb on + strandat 464.229 kb on + strandat 464.360 kb on + strandat 464.360 kb on + strandat 464.360 kb on + strandat 464.422 kb on + strandat 464.635 kb on + strand, within GFF1801at 464.635 kb on + strand, within GFF1801at 464.638 kb on + strand, within GFF1801at 464.638 kb on + strand, within GFF1801at 464.639 kb on - strand, within GFF1801at 464.639 kb on - strand, within GFF1801at 464.639 kb on - strand, within GFF1801at 464.639 kb on - strand, within GFF1801at 464.782 kb on + strand, within GFF1801at 464.782 kb on + strand, within GFF1801at 464.782 kb on + strand, within GFF1801at 464.782 kb on + strand, within GFF1801at 464.782 kb on + strand, within GFF1801at 464.783 kb on - strand, within GFF1801at 464.783 kb on - strand, within GFF1801at 464.783 kb on - strand, within GFF1801at 464.783 kb on - strand, within GFF1801at 464.783 kb on - strand, within GFF1801at 464.954 kb on - strand, within GFF1801at 465.169 kb on + strand, within GFF1801at 465.170 kb on - strand, within GFF1801at 465.170 kb on - strand, within GFF1801at 465.170 kb on - strand, within GFF1801at 465.170 kb on - strand, within GFF1801

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus and calcium pantothenate 10 mg/mL
remove
461,801 + +0.0
461,802 - -0.6
461,862 - GFF1799 0.16 -0.6
461,984 + GFF1799 0.31 -0.1
461,984 + GFF1799 0.31 -0.3
461,985 - GFF1799 0.32 +0.5
461,985 - GFF1799 0.32 -2.3
461,985 - GFF1799 0.32 -0.2
461,985 - GFF1799 0.32 -1.2
461,985 - GFF1799 0.32 -0.4
461,985 - GFF1799 0.32 -0.4
461,993 + GFF1799 0.33 -1.0
461,993 + GFF1799 0.33 -0.4
462,411 - GFF1799 0.86 -0.5
462,411 - GFF1799 0.86 -1.5
462,422 + GFF1799 0.87 -0.0
462,422 + GFF1799 0.87 +0.1
462,423 - GFF1799 0.87 -0.1
462,538 - +0.5
462,798 + GFF1800 0.15 -0.3
462,799 - GFF1800 0.15 -0.9
462,862 - GFF1800 0.18 -0.1
462,906 + GFF1800 0.21 -1.3
462,906 + GFF1800 0.21 -0.2
462,907 - GFF1800 0.21 -0.8
462,990 + GFF1800 0.25 +0.3
462,990 + GFF1800 0.25 -0.4
463,110 + GFF1800 0.32 -1.6
463,110 + GFF1800 0.32 -0.6
463,110 + GFF1800 0.32 +1.8
463,111 - GFF1800 0.32 -0.6
463,111 - GFF1800 0.32 +0.1
463,164 + GFF1800 0.35 -0.7
463,164 + GFF1800 0.35 -0.1
463,164 + GFF1800 0.35 +0.1
463,165 - GFF1800 0.35 -0.7
463,165 - GFF1800 0.35 -0.7
463,165 - GFF1800 0.35 -1.1
463,165 - GFF1800 0.35 -0.7
463,203 + GFF1800 0.37 +0.2
463,455 + GFF1800 0.51 -0.8
463,456 - GFF1800 0.51 +2.4
463,456 - GFF1800 0.51 -0.3
463,779 + GFF1800 0.69 -0.8
463,780 - GFF1800 0.69 -0.6
464,001 + GFF1800 0.82 -0.2
464,001 + GFF1800 0.82 +0.4
464,148 + GFF1800 0.90 -2.0
464,148 + GFF1800 0.90 -0.4
464,149 - GFF1800 0.90 +0.4
464,229 + -0.6
464,229 + -0.9
464,360 + +0.3
464,360 + -1.4
464,360 + +1.8
464,422 + +0.3
464,635 + GFF1801 0.21 -0.4
464,635 + GFF1801 0.21 +0.5
464,638 + GFF1801 0.22 -1.0
464,638 + GFF1801 0.22 +0.2
464,639 - GFF1801 0.22 +0.8
464,639 - GFF1801 0.22 -0.2
464,639 - GFF1801 0.22 -0.0
464,639 - GFF1801 0.22 -0.4
464,782 + GFF1801 0.38 -0.8
464,782 + GFF1801 0.38 -1.9
464,782 + GFF1801 0.38 +0.3
464,782 + GFF1801 0.38 -0.4
464,782 + GFF1801 0.38 -1.0
464,783 - GFF1801 0.38 -2.0
464,783 - GFF1801 0.38 -1.3
464,783 - GFF1801 0.38 -0.8
464,783 - GFF1801 0.38 +0.2
464,783 - GFF1801 0.38 -0.3
464,954 - GFF1801 0.57 -0.5
465,169 + GFF1801 0.80 +0.4
465,170 - GFF1801 0.81 -0.3
465,170 - GFF1801 0.81 +0.7
465,170 - GFF1801 0.81 +0.4
465,170 - GFF1801 0.81 +1.4

Or see this region's nucleotide sequence