Strain Fitness in Variovorax sp. SCN45 around GFF5626

Experiment: M9 with Supernatant from Cyptococcus 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 ntGFF5624 and GFF5625 are separated by 93 nucleotidesGFF5625 and GFF5626 are separated by 3 nucleotidesGFF5626 and GFF5627 are separated by 76 nucleotides GFF5624 - Diaminopropionate ammonia-lyase (EC 4.3.1.15), at 1,823 to 3,052 GFF5624 GFF5625 - Putative transmembrane protein, at 3,146 to 3,775 GFF5625 GFF5626 - Patatin, at 3,779 to 4,990 GFF5626 GFF5627 - [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC), at 5,067 to 6,158 GFF5627 Position (kb) 3 4 5Strain fitness (log2 ratio) -2 -1 0 1 2at 2.940 kb on + strandat 2.947 kb on - strandat 2.973 kb on - strandat 2.973 kb on - strandat 3.102 kb on + strandat 3.103 kb on - strandat 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.338 kb on + strand, within GFF5625at 3.339 kb on - strand, within GFF5625at 3.339 kb on - strand, within GFF5625at 3.339 kb on - strand, within GFF5625at 3.339 kb on - strand, within GFF5625at 3.374 kb on + strand, within GFF5625at 3.374 kb on + strand, within GFF5625at 3.374 kb on + strand, within GFF5625at 3.374 kb on + strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.375 kb on - strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.425 kb on + strand, within GFF5625at 3.426 kb on - strand, within GFF5625at 3.426 kb on - strand, within GFF5625at 3.524 kb on + strand, within GFF5625at 3.773 kb on + strandat 3.773 kb on + strandat 3.773 kb on + strandat 3.773 kb on + strandat 3.774 kb on - strandat 3.774 kb on - strandat 3.774 kb on - strandat 3.774 kb on - strandat 3.774 kb on - strandat 3.774 kb on - strandat 3.780 kb on + strandat 3.882 kb on + strandat 3.882 kb on + strandat 3.883 kb on - strandat 3.903 kb on + strand, within GFF5626at 3.903 kb on + strand, within GFF5626at 3.903 kb on + strand, within GFF5626at 3.903 kb on + strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.904 kb on - strand, within GFF5626at 3.961 kb on - strand, within GFF5626at 3.961 kb on - strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.506 kb on + strand, within GFF5626at 4.507 kb on - strand, within GFF5626at 4.507 kb on - strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.725 kb on + strand, within GFF5626at 4.726 kb on - strand, within GFF5626at 4.726 kb on - strand, within GFF5626at 4.929 kb on + strandat 4.929 kb on + strandat 4.929 kb on + strandat 4.929 kb on + strandat 4.930 kb on - strandat 4.930 kb on - strandat 4.999 kb on + strandat 5.037 kb on + strandat 5.037 kb on + strandat 5.037 kb on + strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.038 kb on - strandat 5.043 kb on - strandat 5.120 kb on + strandat 5.478 kb on + strand, within GFF5627at 5.478 kb on + strand, within GFF5627at 5.478 kb on + strand, within GFF5627at 5.478 kb on + strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.479 kb on - strand, within GFF5627at 5.688 kb on + strand, within GFF5627at 5.688 kb on + strand, within GFF5627at 5.688 kb on + strand, within GFF5627at 5.689 kb on - strand, within GFF5627at 5.961 kb on + strand, within GFF5627at 5.961 kb on + strand, within GFF5627at 5.961 kb on + strand, within GFF5627at 5.961 kb on + strand, within GFF5627at 5.962 kb on - strand, within GFF5627

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus and thiamine HCl 10 mg/mL
remove
2,940 + +0.4
2,947 - -0.5
2,973 - -0.1
2,973 - -0.1
3,102 + +0.3
3,103 - +0.0
3,338 + GFF5625 0.30 -0.2
3,338 + GFF5625 0.30 -0.5
3,338 + GFF5625 0.30 -0.1
3,338 + GFF5625 0.30 +0.2
3,338 + GFF5625 0.30 -0.3
3,338 + GFF5625 0.30 -0.0
3,338 + GFF5625 0.30 +0.2
3,339 - GFF5625 0.31 -0.0
3,339 - GFF5625 0.31 +0.2
3,339 - GFF5625 0.31 -0.1
3,339 - GFF5625 0.31 -0.1
3,374 + GFF5625 0.36 +0.4
3,374 + GFF5625 0.36 +0.1
3,374 + GFF5625 0.36 -0.8
3,374 + GFF5625 0.36 +0.8
3,375 - GFF5625 0.36 -0.8
3,375 - GFF5625 0.36 -0.3
3,375 - GFF5625 0.36 +0.1
3,375 - GFF5625 0.36 -0.2
3,375 - GFF5625 0.36 -0.1
3,375 - GFF5625 0.36 -0.5
3,375 - GFF5625 0.36 +1.0
3,425 + GFF5625 0.44 -0.6
3,425 + GFF5625 0.44 -0.2
3,425 + GFF5625 0.44 -0.0
3,425 + GFF5625 0.44 -0.2
3,425 + GFF5625 0.44 +0.2
3,425 + GFF5625 0.44 -2.3
3,426 - GFF5625 0.44 +0.9
3,426 - GFF5625 0.44 +0.2
3,524 + GFF5625 0.60 -0.2
3,773 + +0.1
3,773 + +0.5
3,773 + -0.8
3,773 + -0.4
3,774 - -0.5
3,774 - +1.2
3,774 - -1.3
3,774 - -0.8
3,774 - +0.6
3,774 - -1.4
3,780 + +0.6
3,882 + -1.8
3,882 + -0.0
3,883 - +0.7
3,903 + GFF5626 0.10 -1.0
3,903 + GFF5626 0.10 -0.8
3,903 + GFF5626 0.10 +0.1
3,903 + GFF5626 0.10 +0.4
3,904 - GFF5626 0.10 +1.6
3,904 - GFF5626 0.10 +0.3
3,904 - GFF5626 0.10 -0.8
3,904 - GFF5626 0.10 +0.3
3,904 - GFF5626 0.10 -0.3
3,904 - GFF5626 0.10 +0.2
3,961 - GFF5626 0.15 +0.2
3,961 - GFF5626 0.15 -1.5
4,506 + GFF5626 0.60 -1.4
4,506 + GFF5626 0.60 -1.3
4,506 + GFF5626 0.60 +0.6
4,506 + GFF5626 0.60 +0.2
4,506 + GFF5626 0.60 -0.2
4,506 + GFF5626 0.60 +1.2
4,507 - GFF5626 0.60 -0.2
4,507 - GFF5626 0.60 +0.8
4,725 + GFF5626 0.78 -0.2
4,725 + GFF5626 0.78 +1.4
4,725 + GFF5626 0.78 +0.7
4,725 + GFF5626 0.78 -0.8
4,725 + GFF5626 0.78 -1.1
4,725 + GFF5626 0.78 -0.2
4,725 + GFF5626 0.78 -2.0
4,725 + GFF5626 0.78 +0.7
4,725 + GFF5626 0.78 -0.8
4,726 - GFF5626 0.78 -0.3
4,726 - GFF5626 0.78 +0.4
4,929 + +0.7
4,929 + -0.1
4,929 + -0.2
4,929 + -0.8
4,930 - -0.7
4,930 - +1.5
4,999 + +0.0
5,037 + +0.5
5,037 + +1.4
5,037 + -0.2
5,038 - +0.7
5,038 - +0.4
5,038 - -0.2
5,038 - +1.8
5,038 - -1.0
5,038 - -0.1
5,038 - +0.6
5,038 - -0.9
5,043 - -1.2
5,120 + -1.0
5,478 + GFF5627 0.38 -0.0
5,478 + GFF5627 0.38 -0.3
5,478 + GFF5627 0.38 -0.4
5,478 + GFF5627 0.38 +0.3
5,479 - GFF5627 0.38 -0.5
5,479 - GFF5627 0.38 -1.0
5,479 - GFF5627 0.38 -0.8
5,479 - GFF5627 0.38 -1.7
5,479 - GFF5627 0.38 +0.2
5,479 - GFF5627 0.38 -0.6
5,479 - GFF5627 0.38 -0.0
5,479 - GFF5627 0.38 -0.8
5,479 - GFF5627 0.38 -1.7
5,479 - GFF5627 0.38 +0.2
5,688 + GFF5627 0.57 -0.1
5,688 + GFF5627 0.57 -1.4
5,688 + GFF5627 0.57 +0.2
5,689 - GFF5627 0.57 +1.1
5,961 + GFF5627 0.82 -0.2
5,961 + GFF5627 0.82 +0.2
5,961 + GFF5627 0.82 -0.6
5,961 + GFF5627 0.82 -0.5
5,962 - GFF5627 0.82 -0.5

Or see this region's nucleotide sequence