Strain Fitness in Pseudomonas simiae WCS417 around PS417_04490

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_04475 and PS417_04480 are separated by 57 nucleotidesPS417_04480 and PS417_04485 are separated by 182 nucleotidesPS417_04485 and PS417_04490 are separated by 150 nucleotidesPS417_04490 and PS417_04495 are separated by 133 nucleotidesPS417_04495 and PS417_04500 are separated by 11 nucleotidesPS417_04500 and PS417_04505 are separated by 36 nucleotides PS417_04475: PS417_04475 - hypothetical protein, at 991,354 to 991,941 _04475 PS417_04480: PS417_04480 - hypothetical protein, at 991,999 to 992,208 _04480 PS417_04485: PS417_04485 - hypothetical protein, at 992,391 to 992,648 _04485 PS417_04490: PS417_04490 - glycerol acyltransferase, at 992,799 to 993,962 _04490 PS417_04495: PS417_04495 - LITAF-like zinc ribbon domain containing protein, at 994,096 to 994,278 _04495 PS417_04500: PS417_04500 - hypothetical protein, at 994,290 to 994,550 _04500 PS417_04505: PS417_04505 - hypothetical protein, at 994,587 to 995,207 _04505 Position (kb) 992 993 994Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5 6at 992.096 kb on + strand, within PS417_04480at 992.178 kb on - strand, within PS417_04480at 992.219 kb on + strandat 992.249 kb on + strandat 992.278 kb on + strandat 992.286 kb on - strandat 992.286 kb on - strandat 992.291 kb on - strandat 992.316 kb on + strandat 992.335 kb on - strandat 992.377 kb on + strandat 992.378 kb on - strandat 992.429 kb on - strand, within PS417_04485at 992.429 kb on - strand, within PS417_04485at 992.431 kb on + strand, within PS417_04485at 992.431 kb on + strand, within PS417_04485at 992.432 kb on - strand, within PS417_04485at 992.432 kb on - strand, within PS417_04485at 992.432 kb on - strand, within PS417_04485at 992.554 kb on + strand, within PS417_04485at 992.555 kb on - strand, within PS417_04485at 992.555 kb on - strand, within PS417_04485at 992.726 kb on + strandat 992.727 kb on - strandat 992.800 kb on + strandat 993.977 kb on - strandat 993.977 kb on - strandat 993.992 kb on - strandat 994.005 kb on - strandat 994.005 kb on - strandat 994.024 kb on - strandat 994.024 kb on - strandat 994.042 kb on - strandat 994.042 kb on - strandat 994.052 kb on - strandat 994.056 kb on - strandat 994.056 kb on - strandat 994.070 kb on - strandat 994.070 kb on - strandat 994.070 kb on - strandat 994.115 kb on - strand, within PS417_04495at 994.115 kb on - strand, within PS417_04495at 994.115 kb on - strand, within PS417_04495at 994.115 kb on - strand, within PS417_04495at 994.127 kb on - strand, within PS417_04495at 994.180 kb on + strand, within PS417_04495at 994.180 kb on + strand, within PS417_04495at 994.180 kb on + strand, within PS417_04495at 994.180 kb on + strand, within PS417_04495at 994.180 kb on + strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.181 kb on - strand, within PS417_04495at 994.182 kb on + strand, within PS417_04495at 994.183 kb on - strand, within PS417_04495at 994.183 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.185 kb on - strand, within PS417_04495at 994.284 kb on - strandat 994.284 kb on - strandat 994.284 kb on - strandat 994.303 kb on - strandat 994.485 kb on + strand, within PS417_04500at 994.485 kb on + strand, within PS417_04500at 994.548 kb on + strandat 994.549 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction root sample 6; outgrowth in LB
remove
992,096 + PS417_04480 0.46 -0.1
992,178 - PS417_04480 0.85 +1.1
992,219 + -0.5
992,249 + +0.0
992,278 + +0.4
992,286 - +0.4
992,286 - +0.0
992,291 - +1.3
992,316 + +0.4
992,335 - -0.2
992,377 + +0.9
992,378 - -1.7
992,429 - PS417_04485 0.15 +0.3
992,429 - PS417_04485 0.15 -0.3
992,431 + PS417_04485 0.16 -1.2
992,431 + PS417_04485 0.16 +1.1
992,432 - PS417_04485 0.16 -1.3
992,432 - PS417_04485 0.16 +1.4
992,432 - PS417_04485 0.16 -0.6
992,554 + PS417_04485 0.63 +0.6
992,555 - PS417_04485 0.64 +6.0
992,555 - PS417_04485 0.64 -1.4
992,726 + -1.8
992,727 - +0.6
992,800 + +0.7
993,977 - +1.5
993,977 - +1.2
993,992 - +1.5
994,005 - -2.5
994,005 - +0.1
994,024 - -0.2
994,024 - -0.3
994,042 - -0.3
994,042 - -0.3
994,052 - +0.3
994,056 - -0.2
994,056 - +0.3
994,070 - -1.1
994,070 - +0.2
994,070 - -0.2
994,115 - PS417_04495 0.10 +0.8
994,115 - PS417_04495 0.10 +0.0
994,115 - PS417_04495 0.10 +0.2
994,115 - PS417_04495 0.10 -1.4
994,127 - PS417_04495 0.17 +0.4
994,180 + PS417_04495 0.46 -0.4
994,180 + PS417_04495 0.46 +0.1
994,180 + PS417_04495 0.46 -1.2
994,180 + PS417_04495 0.46 -0.8
994,180 + PS417_04495 0.46 -0.1
994,181 - PS417_04495 0.46 -0.3
994,181 - PS417_04495 0.46 -0.4
994,181 - PS417_04495 0.46 -0.2
994,181 - PS417_04495 0.46 +0.0
994,181 - PS417_04495 0.46 -0.7
994,181 - PS417_04495 0.46 -0.8
994,181 - PS417_04495 0.46 -0.7
994,182 + PS417_04495 0.47 -2.8
994,183 - PS417_04495 0.48 -0.3
994,183 - PS417_04495 0.48 -1.7
994,185 - PS417_04495 0.49 +1.2
994,185 - PS417_04495 0.49 +0.9
994,185 - PS417_04495 0.49 -0.4
994,185 - PS417_04495 0.49 -0.6
994,185 - PS417_04495 0.49 +0.1
994,185 - PS417_04495 0.49 +0.6
994,185 - PS417_04495 0.49 -0.2
994,185 - PS417_04495 0.49 -1.1
994,185 - PS417_04495 0.49 +0.0
994,185 - PS417_04495 0.49 +1.6
994,284 - -1.1
994,284 - +1.5
994,284 - +3.0
994,303 - +0.1
994,485 + PS417_04500 0.75 +1.0
994,485 + PS417_04500 0.75 -0.5
994,548 + +0.9
994,549 - +1.8

Or see this region's nucleotide sequence