Strain Fitness in Pseudomonas simiae WCS417 around PS417_19075

Experiment: rhizosphere sample 1; 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_19065 and PS417_19070 overlap by 12 nucleotidesPS417_19070 and PS417_19075 are separated by 4 nucleotidesPS417_19075 and PS417_19080 are separated by 298 nucleotidesPS417_19080 and PS417_19085 are separated by 454 nucleotides PS417_19065: PS417_19065 - monooxygenase, at 4,125,255 to 4,125,593 _19065 PS417_19070: PS417_19070 - hypothetical protein, at 4,125,582 to 4,126,310 _19070 PS417_19075: PS417_19075 - ABC transporter ATP-binding protein, at 4,126,315 to 4,127,646 _19075 PS417_19080: PS417_19080 - tRNA-Asn, at 4,127,945 to 4,128,017 _19080 PS417_19085: PS417_19085 - hypothetical protein, at 4,128,472 to 4,128,705 _19085 Position (kb) 4126 4127 4128Strain fitness (log2 ratio) -2 -1 0 1 2 3at 4125.522 kb on + strand, within PS417_19065at 4125.660 kb on + strand, within PS417_19070at 4125.674 kb on - strand, within PS417_19070at 4125.688 kb on - strand, within PS417_19070at 4125.945 kb on + strand, within PS417_19070at 4125.945 kb on + strand, within PS417_19070at 4125.946 kb on - strand, within PS417_19070at 4125.947 kb on + strandat 4125.947 kb on + strand, within PS417_19070at 4125.948 kb on - strand, within PS417_19070at 4125.948 kb on - strand, within PS417_19070at 4126.056 kb on + strand, within PS417_19070at 4126.057 kb on - strand, within PS417_19070at 4126.076 kb on - strand, within PS417_19070at 4126.085 kb on + strand, within PS417_19070at 4126.086 kb on - strand, within PS417_19070at 4126.258 kb on + strandat 4126.259 kb on - strandat 4126.377 kb on + strandat 4126.378 kb on - strandat 4126.499 kb on - strandat 4126.509 kb on - strand, within PS417_19075at 4126.509 kb on - strand, within PS417_19075at 4126.627 kb on + strand, within PS417_19075at 4126.628 kb on - strand, within PS417_19075at 4126.628 kb on - strand, within PS417_19075at 4126.665 kb on + strand, within PS417_19075at 4126.666 kb on - strand, within PS417_19075at 4126.666 kb on - strand, within PS417_19075at 4126.666 kb on - strand, within PS417_19075at 4126.666 kb on - strand, within PS417_19075at 4126.666 kb on - strand, within PS417_19075at 4126.667 kb on + strand, within PS417_19075at 4126.667 kb on + strand, within PS417_19075at 4126.668 kb on - strand, within PS417_19075at 4126.673 kb on + strand, within PS417_19075at 4126.673 kb on + strand, within PS417_19075at 4126.674 kb on - strand, within PS417_19075at 4126.674 kb on - strand, within PS417_19075at 4126.674 kb on - strandat 4126.761 kb on - strand, within PS417_19075at 4126.799 kb on + strand, within PS417_19075at 4126.938 kb on - strand, within PS417_19075at 4127.017 kb on + strand, within PS417_19075at 4127.073 kb on + strand, within PS417_19075at 4127.074 kb on - strand, within PS417_19075at 4127.080 kb on + strand, within PS417_19075at 4127.097 kb on + strand, within PS417_19075at 4127.097 kb on + strand, within PS417_19075at 4127.098 kb on - strand, within PS417_19075at 4127.207 kb on + strandat 4127.207 kb on + strand, within PS417_19075at 4127.207 kb on + strand, within PS417_19075at 4127.318 kb on + strand, within PS417_19075at 4127.319 kb on - strand, within PS417_19075at 4127.454 kb on + strand, within PS417_19075at 4127.500 kb on - strand, within PS417_19075at 4127.539 kb on - strandat 4127.541 kb on - strandat 4127.650 kb on + strandat 4127.651 kb on - strandat 4127.796 kb on + strandat 4127.796 kb on + strandat 4127.941 kb on + strandat 4128.056 kb on + strandat 4128.168 kb on - strandat 4128.258 kb on + strandat 4128.368 kb on + strandat 4128.368 kb on + strandat 4128.509 kb on + strandat 4128.514 kb on - strand, within PS417_19085at 4128.516 kb on - strand, within PS417_19085at 4128.568 kb on + strand, within PS417_19085at 4128.569 kb on - strand, within PS417_19085at 4128.617 kb on - strand, within PS417_19085

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction rhizosphere sample 1; outgrowth in LB
remove
4,125,522 + PS417_19065 0.79 -0.5
4,125,660 + PS417_19070 0.11 +0.0
4,125,674 - PS417_19070 0.13 -1.5
4,125,688 - PS417_19070 0.15 -0.9
4,125,945 + PS417_19070 0.50 -0.8
4,125,945 + PS417_19070 0.50 +1.2
4,125,946 - PS417_19070 0.50 -0.8
4,125,947 + +0.6
4,125,947 + PS417_19070 0.50 -0.4
4,125,948 - PS417_19070 0.50 +1.3
4,125,948 - PS417_19070 0.50 +0.5
4,126,056 + PS417_19070 0.65 +0.0
4,126,057 - PS417_19070 0.65 +1.2
4,126,076 - PS417_19070 0.68 -0.4
4,126,085 + PS417_19070 0.69 -0.2
4,126,086 - PS417_19070 0.69 +2.7
4,126,258 + +0.1
4,126,259 - -0.4
4,126,377 + +0.3
4,126,378 - +2.6
4,126,499 - +1.7
4,126,509 - PS417_19075 0.15 +0.7
4,126,509 - PS417_19075 0.15 -1.1
4,126,627 + PS417_19075 0.23 -0.6
4,126,628 - PS417_19075 0.23 -0.6
4,126,628 - PS417_19075 0.23 -1.6
4,126,665 + PS417_19075 0.26 -0.4
4,126,666 - PS417_19075 0.26 -1.6
4,126,666 - PS417_19075 0.26 +2.6
4,126,666 - PS417_19075 0.26 +1.2
4,126,666 - PS417_19075 0.26 -2.3
4,126,666 - PS417_19075 0.26 -1.7
4,126,667 + PS417_19075 0.26 +0.2
4,126,667 + PS417_19075 0.26 +3.1
4,126,668 - PS417_19075 0.27 -2.3
4,126,673 + PS417_19075 0.27 -0.3
4,126,673 + PS417_19075 0.27 -0.6
4,126,674 - PS417_19075 0.27 +0.2
4,126,674 - PS417_19075 0.27 -1.9
4,126,674 - +0.6
4,126,761 - PS417_19075 0.33 -1.2
4,126,799 + PS417_19075 0.36 +0.7
4,126,938 - PS417_19075 0.47 -1.8
4,127,017 + PS417_19075 0.53 -0.6
4,127,073 + PS417_19075 0.57 -0.1
4,127,074 - PS417_19075 0.57 +0.6
4,127,080 + PS417_19075 0.57 -1.0
4,127,097 + PS417_19075 0.59 +0.5
4,127,097 + PS417_19075 0.59 -1.1
4,127,098 - PS417_19075 0.59 -1.1
4,127,207 + +0.2
4,127,207 + PS417_19075 0.67 +0.5
4,127,207 + PS417_19075 0.67 -0.5
4,127,318 + PS417_19075 0.75 -0.3
4,127,319 - PS417_19075 0.75 -0.0
4,127,454 + PS417_19075 0.86 -1.2
4,127,500 - PS417_19075 0.89 -1.7
4,127,539 - -0.8
4,127,541 - -0.9
4,127,650 + -2.3
4,127,651 - -0.0
4,127,796 + +0.6
4,127,796 + -0.6
4,127,941 + -0.4
4,128,056 + +1.0
4,128,168 - -0.3
4,128,258 + +0.1
4,128,368 + +1.8
4,128,368 + +0.6
4,128,509 + +3.1
4,128,514 - PS417_19085 0.18 +1.2
4,128,516 - PS417_19085 0.19 +0.4
4,128,568 + PS417_19085 0.41 -0.0
4,128,569 - PS417_19085 0.41 -0.5
4,128,617 - PS417_19085 0.62 -0.8

Or see this region's nucleotide sequence