Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS16100

Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol

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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 ntRPSI07_RS16095 and RPSI07_RS16100 are separated by 78 nucleotidesRPSI07_RS16100 and RPSI07_RS16105 are separated by 103 nucleotidesRPSI07_RS16105 and RPSI07_RS16110 are separated by 131 nucleotidesRPSI07_RS16110 and RPSI07_RS25105 are separated by 93 nucleotidesRPSI07_RS25105 and RPSI07_RS16115 overlap by 37 nucleotides RPSI07_RS16095: RPSI07_RS16095 - efflux RND transporter periplasmic adaptor subunit, at 1,767,065 to 1,768,273 _RS16095 RPSI07_RS16100: RPSI07_RS16100 - AcrB/AcrD/AcrF family protein, at 1,768,352 to 1,771,471 _RS16100 RPSI07_RS16105: RPSI07_RS16105 - tRNA-Leu, at 1,771,575 to 1,771,661 _RS16105 RPSI07_RS16110: RPSI07_RS16110 - hypothetical protein, at 1,771,793 to 1,771,987 _RS16110 RPSI07_RS25105: RPSI07_RS25105 - hypothetical protein, at 1,772,081 to 1,772,410 _RS25105 RPSI07_RS16115: RPSI07_RS16115 - bifunctional tRNA (5-methylaminomethyl-2-thiouridine)(34)-methyltransferase MnmD/FAD-dependent 5-carboxymethylaminomethyl-2-thiouridine(34) oxidoreductase MnmC, at 1,772,374 to 1,774,380 _RS16115 Position (kb) 1768 1769 1770 1771 1772Strain fitness (log2 ratio) -2 -1 0 1 2at 1767.569 kb on + strand, within RPSI07_RS16095at 1767.570 kb on - strand, within RPSI07_RS16095at 1767.638 kb on + strand, within RPSI07_RS16095at 1767.639 kb on - strand, within RPSI07_RS16095at 1767.858 kb on + strand, within RPSI07_RS16095at 1768.056 kb on + strand, within RPSI07_RS16095at 1768.067 kb on + strand, within RPSI07_RS16095at 1768.067 kb on + strand, within RPSI07_RS16095at 1768.068 kb on - strand, within RPSI07_RS16095at 1768.452 kb on - strandat 1768.453 kb on + strandat 1768.592 kb on + strandat 1768.614 kb on - strandat 1768.692 kb on - strand, within RPSI07_RS16100at 1768.692 kb on - strand, within RPSI07_RS16100at 1768.754 kb on + strand, within RPSI07_RS16100at 1768.755 kb on - strandat 1768.793 kb on + strand, within RPSI07_RS16100at 1768.794 kb on - strand, within RPSI07_RS16100at 1768.821 kb on - strand, within RPSI07_RS16100at 1768.922 kb on + strandat 1768.922 kb on + strand, within RPSI07_RS16100at 1768.923 kb on - strand, within RPSI07_RS16100at 1769.129 kb on - strand, within RPSI07_RS16100at 1769.681 kb on + strand, within RPSI07_RS16100at 1769.682 kb on - strand, within RPSI07_RS16100at 1769.682 kb on - strand, within RPSI07_RS16100at 1769.774 kb on + strand, within RPSI07_RS16100at 1769.817 kb on + strand, within RPSI07_RS16100at 1769.850 kb on - strand, within RPSI07_RS16100at 1769.967 kb on - strand, within RPSI07_RS16100at 1770.029 kb on + strand, within RPSI07_RS16100at 1770.029 kb on + strand, within RPSI07_RS16100at 1771.412 kb on + strandat 1771.413 kb on - strandat 1771.766 kb on + strandat 1771.860 kb on + strand, within RPSI07_RS16110at 1771.860 kb on + strand, within RPSI07_RS16110at 1771.964 kb on + strand, within RPSI07_RS16110at 1771.986 kb on - strandat 1772.199 kb on + strand, within RPSI07_RS25105at 1772.216 kb on + strand, within RPSI07_RS25105at 1772.216 kb on + strand, within RPSI07_RS25105at 1772.217 kb on - strand, within RPSI07_RS25105at 1772.453 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol
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1,767,569 + RPSI07_RS16095 0.42 -1.2
1,767,570 - RPSI07_RS16095 0.42 -1.2
1,767,638 + RPSI07_RS16095 0.47 -1.2
1,767,639 - RPSI07_RS16095 0.47 +1.8
1,767,858 + RPSI07_RS16095 0.66 +0.8
1,768,056 + RPSI07_RS16095 0.82 -0.2
1,768,067 + RPSI07_RS16095 0.83 -0.2
1,768,067 + RPSI07_RS16095 0.83 +0.8
1,768,068 - RPSI07_RS16095 0.83 -0.5
1,768,452 - +0.8
1,768,453 + -1.2
1,768,592 + -0.8
1,768,614 - +0.8
1,768,692 - RPSI07_RS16100 0.11 -0.2
1,768,692 - RPSI07_RS16100 0.11 +0.8
1,768,754 + RPSI07_RS16100 0.13 -0.2
1,768,755 - -0.2
1,768,793 + RPSI07_RS16100 0.14 +0.4
1,768,794 - RPSI07_RS16100 0.14 -1.2
1,768,821 - RPSI07_RS16100 0.15 -0.2
1,768,922 + +0.8
1,768,922 + RPSI07_RS16100 0.18 +0.8
1,768,923 - RPSI07_RS16100 0.18 -0.2
1,769,129 - RPSI07_RS16100 0.25 +0.8
1,769,681 + RPSI07_RS16100 0.43 -0.2
1,769,682 - RPSI07_RS16100 0.43 -1.2
1,769,682 - RPSI07_RS16100 0.43 -1.8
1,769,774 + RPSI07_RS16100 0.46 -0.1
1,769,817 + RPSI07_RS16100 0.47 +0.8
1,769,850 - RPSI07_RS16100 0.48 -0.2
1,769,967 - RPSI07_RS16100 0.52 -2.0
1,770,029 + RPSI07_RS16100 0.54 -0.8
1,770,029 + RPSI07_RS16100 0.54 -0.2
1,771,412 + -1.4
1,771,413 - -0.8
1,771,766 + -0.2
1,771,860 + RPSI07_RS16110 0.34 -0.1
1,771,860 + RPSI07_RS16110 0.34 +1.0
1,771,964 + RPSI07_RS16110 0.88 +0.8
1,771,986 - -0.2
1,772,199 + RPSI07_RS25105 0.36 +0.9
1,772,216 + RPSI07_RS25105 0.41 -0.4
1,772,216 + RPSI07_RS25105 0.41 -1.4
1,772,217 - RPSI07_RS25105 0.41 +0.8
1,772,453 - +0.8

Or see this region's nucleotide sequence