Strain Fitness in Pseudomonas simiae WCS417 around PS417_22540

Experiment: root sample 6; outgrowth in LB

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 ntPS417_22535 and PS417_22540 are separated by 124 nucleotidesPS417_22540 and PS417_22545 are separated by 305 nucleotidesPS417_22545 and PS417_22550 are separated by 4 nucleotides PS417_22535: PS417_22535 - ornithine acetyltransferase, at 4,877,628 to 4,878,845 _22535 PS417_22540: PS417_22540 - preprotein translocase subunit SecA, at 4,878,970 to 4,881,705 _22540 PS417_22545: PS417_22545 - hypothetical protein, at 4,882,011 to 4,882,466 _22545 PS417_22550: PS417_22550 - ATP-binding protein, at 4,882,471 to 4,883,949 _22550 Position (kb) 4878 4879 4880 4881 4882Strain fitness (log2 ratio) -2 -1 0 1at 4878.268 kb on + strand, within PS417_22535at 4878.508 kb on + strand, within PS417_22535at 4878.949 kb on + strandat 4878.949 kb on + strandat 4878.950 kb on - strandat 4878.950 kb on - strandat 4881.728 kb on - strandat 4881.906 kb on - strandat 4881.911 kb on - strandat 4881.930 kb on - strandat 4881.993 kb on + strandat 4881.997 kb on + strandat 4881.998 kb on - strandat 4881.998 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction root sample 6; outgrowth in LB
remove
4,878,268 + PS417_22535 0.53 -0.9
4,878,508 + PS417_22535 0.72 -1.2
4,878,949 + +1.4
4,878,949 + -1.9
4,878,950 - +0.0
4,878,950 - -1.8
4,881,728 - -1.7
4,881,906 - +0.8
4,881,911 - +0.0
4,881,930 - -1.0
4,881,993 + -2.4
4,881,997 + -0.1
4,881,998 - +0.4
4,881,998 - -0.7

Or see this region's nucleotide sequence