Strain Fitness in Pseudomonas simiae WCS417 around PS417_08345

Experiment: root sample 6; outgrowth in LB

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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.

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500 ntPS417_08340 and PS417_08345 are separated by 198 nucleotidesPS417_08345 and PS417_08350 are separated by 96 nucleotides PS417_08340: PS417_08340 - type IV secretion protein Rhs, at 1,824,846 to 1,829,564 _08340 PS417_08345: PS417_08345 - chemotaxis protein, at 1,829,763 to 1,831,244 _08345 PS417_08350: PS417_08350 - preprotein translocase subunit TatD, at 1,831,341 to 1,832,147 _08350 Position (kb) 1829 1830 1831 1832Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1828.858 kb on + strand, within PS417_08340at 1828.858 kb on + strand, within PS417_08340at 1828.858 kb on + strand, within PS417_08340at 1828.858 kb on + strand, within PS417_08340at 1828.859 kb on - strand, within PS417_08340at 1828.859 kb on - strand, within PS417_08340at 1828.906 kb on + strand, within PS417_08340at 1828.907 kb on - strand, within PS417_08340at 1828.936 kb on + strand, within PS417_08340at 1828.937 kb on - strand, within PS417_08340at 1829.089 kb on + strand, within PS417_08340at 1829.098 kb on + strandat 1829.098 kb on + strandat 1829.099 kb on - strandat 1829.099 kb on - strandat 1829.135 kb on - strandat 1829.268 kb on - strandat 1829.410 kb on - strandat 1829.764 kb on + strandat 1829.765 kb on - strandat 1830.528 kb on + strand, within PS417_08345at 1830.528 kb on + strand, within PS417_08345at 1830.528 kb on + strand, within PS417_08345at 1830.708 kb on + strand, within PS417_08345at 1830.709 kb on - strand, within PS417_08345at 1830.817 kb on + strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.818 kb on - strand, within PS417_08345at 1830.881 kb on - strand, within PS417_08345at 1830.881 kb on - strand, within PS417_08345at 1830.881 kb on - strand, within PS417_08345at 1830.944 kb on + strandat 1831.080 kb on + strand, within PS417_08345at 1831.153 kb on + strandat 1831.153 kb on + strandat 1831.153 kb on + strandat 1831.153 kb on + strandat 1831.173 kb on - strandat 1831.223 kb on + strandat 1831.223 kb on + strandat 1831.224 kb on - strandat 1831.457 kb on - strand, within PS417_08350at 1831.513 kb on + strand, within PS417_08350at 1831.514 kb on - strand, within PS417_08350at 1831.639 kb on + strand, within PS417_08350at 1831.998 kb on + strand, within PS417_08350at 1832.068 kb on + strandat 1832.082 kb on + strandat 1832.082 kb on + strandat 1832.196 kb on - strandat 1832.198 kb on - strandat 1832.214 kb on + strandat 1832.214 kb on + strandat 1832.215 kb on - strandat 1832.225 kb on - strandat 1832.226 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction root sample 6; outgrowth in LB
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1,828,858 + PS417_08340 0.85 +0.7
1,828,858 + PS417_08340 0.85 +2.5
1,828,858 + PS417_08340 0.85 -0.7
1,828,858 + PS417_08340 0.85 -2.0
1,828,859 - PS417_08340 0.85 -0.6
1,828,859 - PS417_08340 0.85 -0.2
1,828,906 + PS417_08340 0.86 -0.9
1,828,907 - PS417_08340 0.86 +0.5
1,828,936 + PS417_08340 0.87 +1.4
1,828,937 - PS417_08340 0.87 -0.9
1,829,089 + PS417_08340 0.90 -0.9
1,829,098 + -1.1
1,829,098 + -1.7
1,829,099 - -0.2
1,829,099 - -0.2
1,829,135 - -0.2
1,829,268 - +0.8
1,829,410 - -0.7
1,829,764 + -0.1
1,829,765 - +0.7
1,830,528 + PS417_08345 0.52 -1.6
1,830,528 + PS417_08345 0.52 -1.5
1,830,528 + PS417_08345 0.52 -0.7
1,830,708 + PS417_08345 0.64 -1.2
1,830,709 - PS417_08345 0.64 -1.7
1,830,817 + PS417_08345 0.71 -1.4
1,830,818 - PS417_08345 0.71 -1.9
1,830,818 - PS417_08345 0.71 -1.4
1,830,818 - PS417_08345 0.71 -1.3
1,830,818 - PS417_08345 0.71 -2.1
1,830,818 - PS417_08345 0.71 -2.2
1,830,818 - PS417_08345 0.71 -2.2
1,830,881 - PS417_08345 0.75 -2.4
1,830,881 - PS417_08345 0.75 -1.5
1,830,881 - PS417_08345 0.75 -0.0
1,830,944 + +1.0
1,831,080 + PS417_08345 0.89 -0.2
1,831,153 + -1.4
1,831,153 + -2.5
1,831,153 + +0.7
1,831,153 + -2.9
1,831,173 - +1.8
1,831,223 + -0.2
1,831,223 + +0.2
1,831,224 - -1.9
1,831,457 - PS417_08350 0.14 -0.3
1,831,513 + PS417_08350 0.21 +0.3
1,831,514 - PS417_08350 0.21 -0.4
1,831,639 + PS417_08350 0.37 +1.4
1,831,998 + PS417_08350 0.81 +0.5
1,832,068 + -0.7
1,832,082 + +1.5
1,832,082 + -0.6
1,832,196 - -0.7
1,832,198 - +0.4
1,832,214 + +0.2
1,832,214 + +0.1
1,832,215 - +0.6
1,832,225 - -1.2
1,832,226 + +0.0

Or see this region's nucleotide sequence