Strain Fitness in Variovorax sp. SCN45 around GFF5340

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 ntGFF5338 and GFF5339 are separated by 10 nucleotidesGFF5339 and GFF5340 are separated by 33 nucleotidesGFF5340 and GFF5341 overlap by 4 nucleotidesGFF5341 and GFF5342 are separated by 20 nucleotides GFF5338 - Phospholipid ABC transporter shuttle protein MlaC, at 218,480 to 219,136 GFF5338 GFF5339 - Phospholipid ABC transporter-binding protein MlaB, at 219,147 to 219,422 GFF5339 GFF5340 - Efflux ABC transporter, ATP-binding protein, at 219,456 to 220,403 GFF5340 GFF5341 - Efflux ABC transporter, permease protein, at 220,400 to 221,164 GFF5341 GFF5342 - YrbA protein, at 221,185 to 221,427 GFF5342 Position (kb) 219 220 221Strain fitness (log2 ratio) -2 -1 0 1 2 3at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.828 kb on + strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.829 kb on - strand, within GFF5338at 218.957 kb on + strand, within GFF5338at 218.958 kb on - strand, within GFF5338at 218.958 kb on - strand, within GFF5338at 219.002 kb on + strand, within GFF5338at 219.002 kb on + strand, within GFF5338at 219.002 kb on + strand, within GFF5338at 219.002 kb on + strand, within GFF5338at 219.002 kb on + strand, within GFF5338at 219.003 kb on - strand, within GFF5338at 219.003 kb on - strand, within GFF5338at 219.003 kb on - strand, within GFF5338at 219.003 kb on - strand, within GFF5338at 219.003 kb on - strand, within GFF5338at 219.037 kb on + strand, within GFF5338at 219.038 kb on - strand, within GFF5338at 219.041 kb on + strand, within GFF5338at 219.041 kb on + strand, within GFF5338at 219.041 kb on + strand, within GFF5338at 219.042 kb on - strand, within GFF5338at 219.042 kb on - strand, within GFF5338at 219.042 kb on - strand, within GFF5338at 219.387 kb on + strand, within GFF5339at 219.387 kb on + strand, within GFF5339at 219.387 kb on + strand, within GFF5339at 219.388 kb on - strand, within GFF5339at 219.388 kb on - strand, within GFF5339at 219.388 kb on - strand, within GFF5339at 219.428 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.492 kb on + strandat 219.493 kb on - strandat 219.493 kb on - strandat 219.493 kb on - strandat 219.493 kb on - strandat 219.493 kb on - strandat 219.493 kb on - strandat 219.699 kb on + strand, within GFF5340at 219.699 kb on + strand, within GFF5340at 219.795 kb on + strand, within GFF5340at 219.796 kb on - strand, within GFF5340at 219.796 kb on - strand, within GFF5340at 220.037 kb on + strand, within GFF5340at 220.038 kb on - strand, within GFF5340at 220.038 kb on - strand, within GFF5340at 220.038 kb on - strand, within GFF5340at 220.038 kb on - strand, within GFF5340at 220.059 kb on + strand, within GFF5340at 220.059 kb on + strand, within GFF5340at 220.059 kb on + strand, within GFF5340at 220.059 kb on + strand, within GFF5340at 220.060 kb on - strand, within GFF5340at 220.060 kb on - strand, within GFF5340at 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.433 kb on + strandat 220.434 kb on - strandat 220.505 kb on + strand, within GFF5341at 220.505 kb on + strand, within GFF5341at 220.505 kb on + strand, within GFF5341at 220.505 kb on + strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.506 kb on - strand, within GFF5341at 220.550 kb on + strand, within GFF5341at 220.550 kb on + strand, within GFF5341at 220.551 kb on - strand, within GFF5341at 220.565 kb on + strand, within GFF5341at 220.718 kb on + strand, within GFF5341at 220.718 kb on + strand, within GFF5341at 220.718 kb on + strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.719 kb on - strand, within GFF5341at 220.958 kb on + strand, within GFF5341at 220.958 kb on + strand, within GFF5341at 220.958 kb on + strand, within GFF5341at 220.958 kb on + strand, within GFF5341at 220.959 kb on - strand, within GFF5341at 220.959 kb on - strand, within GFF5341at 220.959 kb on - strand, within GFF5341at 220.959 kb on - strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.018 kb on + strand, within GFF5341at 221.019 kb on - strand, within GFF5341at 221.019 kb on - strand, within GFF5341at 221.019 kb on - strand, within GFF5341at 221.019 kb on - strand, within GFF5341at 221.019 kb on - strand, within GFF5341at 221.040 kb on - strand, within GFF5341at 221.040 kb on - strand, within GFF5341at 221.269 kb on + strand, within GFF5342at 221.269 kb on + strand, within GFF5342at 221.269 kb on + strand, within GFF5342at 221.270 kb on - strand, within GFF5342at 221.332 kb on + strand, within GFF5342at 221.332 kb on + strand, within GFF5342at 221.332 kb on + strand, within GFF5342at 221.333 kb on - strand, within GFF5342at 221.333 kb on - strand, within GFF5342at 221.333 kb on - strand, within GFF5342at 221.333 kb on - strand, within GFF5342at 221.358 kb on + strand, within GFF5342at 221.359 kb on - strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.392 kb on + strand, within GFF5342at 221.393 kb on - strand, within GFF5342at 221.393 kb on - strand, within GFF5342

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
218,828 + GFF5338 0.53 -0.1
218,828 + GFF5338 0.53 -0.6
218,828 + GFF5338 0.53 -0.8
218,828 + GFF5338 0.53 -0.0
218,828 + GFF5338 0.53 -0.1
218,828 + GFF5338 0.53 -0.2
218,828 + GFF5338 0.53 -1.5
218,829 - GFF5338 0.53 +1.3
218,829 - GFF5338 0.53 -2.3
218,829 - GFF5338 0.53 +0.4
218,829 - GFF5338 0.53 +1.9
218,829 - GFF5338 0.53 +0.6
218,829 - GFF5338 0.53 +0.3
218,829 - GFF5338 0.53 -1.3
218,829 - GFF5338 0.53 -0.5
218,957 + GFF5338 0.73 -0.0
218,958 - GFF5338 0.73 -1.3
218,958 - GFF5338 0.73 -1.3
219,002 + GFF5338 0.79 -0.1
219,002 + GFF5338 0.79 -0.4
219,002 + GFF5338 0.79 -0.3
219,002 + GFF5338 0.79 -0.7
219,002 + GFF5338 0.79 -0.7
219,003 - GFF5338 0.80 -0.7
219,003 - GFF5338 0.80 +0.1
219,003 - GFF5338 0.80 +0.3
219,003 - GFF5338 0.80 -0.2
219,003 - GFF5338 0.80 -0.7
219,037 + GFF5338 0.85 -2.7
219,038 - GFF5338 0.85 +0.7
219,041 + GFF5338 0.85 -1.1
219,041 + GFF5338 0.85 -1.0
219,041 + GFF5338 0.85 -1.3
219,042 - GFF5338 0.86 -0.4
219,042 - GFF5338 0.86 -0.3
219,042 - GFF5338 0.86 -0.2
219,387 + GFF5339 0.87 -0.5
219,387 + GFF5339 0.87 +1.0
219,387 + GFF5339 0.87 -1.1
219,388 - GFF5339 0.87 -1.2
219,388 - GFF5339 0.87 -0.1
219,388 - GFF5339 0.87 +0.5
219,428 + -0.2
219,492 + -1.4
219,492 + -0.7
219,492 + +0.5
219,492 + +1.2
219,492 + -0.1
219,492 + +0.1
219,492 + +2.9
219,492 + -0.8
219,493 - +0.6
219,493 - +0.3
219,493 - -0.4
219,493 - -1.7
219,493 - +1.0
219,493 - -1.1
219,699 + GFF5340 0.26 +0.4
219,699 + GFF5340 0.26 +0.2
219,795 + GFF5340 0.36 +0.0
219,796 - GFF5340 0.36 -0.3
219,796 - GFF5340 0.36 +1.5
220,037 + GFF5340 0.61 +0.0
220,038 - GFF5340 0.61 -0.6
220,038 - GFF5340 0.61 -0.4
220,038 - GFF5340 0.61 +0.5
220,038 - GFF5340 0.61 +1.9
220,059 + GFF5340 0.64 -0.5
220,059 + GFF5340 0.64 +0.6
220,059 + GFF5340 0.64 -0.2
220,059 + GFF5340 0.64 -0.1
220,060 - GFF5340 0.64 +0.4
220,060 - GFF5340 0.64 -0.5
220,433 + -0.1
220,433 + -0.2
220,433 + -0.7
220,433 + +0.5
220,433 + +0.5
220,433 + -0.1
220,433 + -0.4
220,433 + -1.1
220,434 - -0.4
220,505 + GFF5341 0.14 -1.0
220,505 + GFF5341 0.14 -0.0
220,505 + GFF5341 0.14 -0.5
220,505 + GFF5341 0.14 +0.3
220,506 - GFF5341 0.14 +0.5
220,506 - GFF5341 0.14 +0.1
220,506 - GFF5341 0.14 -0.3
220,506 - GFF5341 0.14 +1.1
220,506 - GFF5341 0.14 +0.2
220,506 - GFF5341 0.14 -0.5
220,506 - GFF5341 0.14 -0.9
220,506 - GFF5341 0.14 -0.1
220,550 + GFF5341 0.20 -0.1
220,550 + GFF5341 0.20 -0.4
220,551 - GFF5341 0.20 +1.2
220,565 + GFF5341 0.22 +0.8
220,718 + GFF5341 0.42 -0.0
220,718 + GFF5341 0.42 -1.2
220,718 + GFF5341 0.42 -0.8
220,719 - GFF5341 0.42 +0.3
220,719 - GFF5341 0.42 -1.7
220,719 - GFF5341 0.42 -0.2
220,719 - GFF5341 0.42 -0.3
220,719 - GFF5341 0.42 -0.0
220,719 - GFF5341 0.42 -0.5
220,958 + GFF5341 0.73 -0.1
220,958 + GFF5341 0.73 +0.3
220,958 + GFF5341 0.73 -0.1
220,958 + GFF5341 0.73 -0.4
220,959 - GFF5341 0.73 +1.3
220,959 - GFF5341 0.73 -0.7
220,959 - GFF5341 0.73 -0.1
220,959 - GFF5341 0.73 +0.0
221,018 + GFF5341 0.81 +0.4
221,018 + GFF5341 0.81 +0.0
221,018 + GFF5341 0.81 -1.0
221,018 + GFF5341 0.81 -0.7
221,018 + GFF5341 0.81 -0.1
221,018 + GFF5341 0.81 -0.5
221,018 + GFF5341 0.81 -0.4
221,018 + GFF5341 0.81 +0.1
221,018 + GFF5341 0.81 -0.5
221,018 + GFF5341 0.81 +0.4
221,018 + GFF5341 0.81 -0.9
221,019 - GFF5341 0.81 -1.0
221,019 - GFF5341 0.81 -1.5
221,019 - GFF5341 0.81 -1.9
221,019 - GFF5341 0.81 -0.8
221,019 - GFF5341 0.81 +0.2
221,040 - GFF5341 0.84 +0.2
221,040 - GFF5341 0.84 +0.2
221,269 + GFF5342 0.35 +0.9
221,269 + GFF5342 0.35 +1.4
221,269 + GFF5342 0.35 -0.9
221,270 - GFF5342 0.35 +1.1
221,332 + GFF5342 0.60 -2.2
221,332 + GFF5342 0.60 -0.2
221,332 + GFF5342 0.60 +1.9
221,333 - GFF5342 0.61 -0.8
221,333 - GFF5342 0.61 +0.3
221,333 - GFF5342 0.61 +0.2
221,333 - GFF5342 0.61 -0.9
221,358 + GFF5342 0.71 +1.4
221,359 - GFF5342 0.72 +1.0
221,392 + GFF5342 0.85 -1.1
221,392 + GFF5342 0.85 -0.0
221,392 + GFF5342 0.85 +0.7
221,392 + GFF5342 0.85 -1.6
221,392 + GFF5342 0.85 -0.9
221,392 + GFF5342 0.85 -0.4
221,392 + GFF5342 0.85 -0.5
221,392 + GFF5342 0.85 +0.3
221,392 + GFF5342 0.85 -0.1
221,392 + GFF5342 0.85 +0.1
221,392 + GFF5342 0.85 -1.3
221,392 + GFF5342 0.85 -0.4
221,392 + GFF5342 0.85 -0.7
221,392 + GFF5342 0.85 -0.9
221,392 + GFF5342 0.85 -1.3
221,392 + GFF5342 0.85 -1.0
221,393 - GFF5342 0.86 -0.4
221,393 - GFF5342 0.86 -0.3

Or see this region's nucleotide sequence