Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS08390

Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet

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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_RS08380 and RPSI07_RS08385 are separated by 9 nucleotidesRPSI07_RS08385 and RPSI07_RS08390 overlap by 4 nucleotidesRPSI07_RS08390 and RPSI07_RS08395 are separated by 101 nucleotides RPSI07_RS08380: RPSI07_RS08380 - LysR family transcriptional regulator, at 115,956 to 116,852 _RS08380 RPSI07_RS08385: RPSI07_RS08385 - hypothetical protein, at 116,862 to 117,077 _RS08385 RPSI07_RS08390: RPSI07_RS08390 - hypothetical protein, at 117,074 to 117,492 _RS08390 RPSI07_RS08395: RPSI07_RS08395 - LysR family transcriptional regulator, at 117,594 to 118,490 _RS08395 Position (kb) 117 118Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 116.169 kb on + strand, within RPSI07_RS08380at 116.542 kb on - strand, within RPSI07_RS08380at 116.835 kb on + strandat 116.836 kb on - strandat 116.836 kb on - strandat 116.986 kb on + strand, within RPSI07_RS08385at 116.986 kb on + strand, within RPSI07_RS08385at 116.987 kb on - strand, within RPSI07_RS08385at 117.022 kb on + strand, within RPSI07_RS08385at 117.022 kb on + strand, within RPSI07_RS08385at 117.022 kb on + strand, within RPSI07_RS08385at 117.022 kb on + strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.023 kb on - strand, within RPSI07_RS08385at 117.281 kb on + strand, within RPSI07_RS08390at 117.287 kb on + strand, within RPSI07_RS08390at 117.287 kb on + strand, within RPSI07_RS08390at 117.287 kb on + strand, within RPSI07_RS08390at 117.288 kb on - strand, within RPSI07_RS08390at 117.292 kb on + strand, within RPSI07_RS08390at 117.293 kb on - strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.318 kb on + strand, within RPSI07_RS08390at 117.319 kb on - strand, within RPSI07_RS08390at 117.319 kb on - strand, within RPSI07_RS08390at 117.364 kb on + strand, within RPSI07_RS08390at 117.364 kb on + strand, within RPSI07_RS08390at 117.365 kb on - strand, within RPSI07_RS08390at 117.556 kb on + strandat 117.712 kb on + strand, within RPSI07_RS08395at 117.980 kb on - strand, within RPSI07_RS08395at 118.263 kb on + strand, within RPSI07_RS08395at 118.263 kb on + strand, within RPSI07_RS08395at 118.263 kb on + strand, within RPSI07_RS08395at 118.264 kb on - strand, within RPSI07_RS08395at 118.294 kb on + strand, within RPSI07_RS08395at 118.294 kb on + strand, within RPSI07_RS08395at 118.294 kb on + strand, within RPSI07_RS08395at 118.384 kb on + strand, within RPSI07_RS08395at 118.384 kb on + strand, within RPSI07_RS08395at 118.384 kb on + strand, within RPSI07_RS08395at 118.384 kb on + strand, within RPSI07_RS08395at 118.385 kb on - strand, within RPSI07_RS08395at 118.491 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet
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116,169 + RPSI07_RS08380 0.24 +0.1
116,542 - RPSI07_RS08380 0.65 +0.8
116,835 + -0.3
116,836 - +2.4
116,836 - -0.9
116,986 + RPSI07_RS08385 0.57 +1.5
116,986 + RPSI07_RS08385 0.57 -1.7
116,987 - RPSI07_RS08385 0.58 +1.6
117,022 + RPSI07_RS08385 0.74 -0.8
117,022 + RPSI07_RS08385 0.74 -0.3
117,022 + RPSI07_RS08385 0.74 +2.0
117,022 + RPSI07_RS08385 0.74 -0.5
117,023 - RPSI07_RS08385 0.75 -0.4
117,023 - RPSI07_RS08385 0.75 +0.5
117,023 - RPSI07_RS08385 0.75 -0.0
117,023 - RPSI07_RS08385 0.75 +4.6
117,023 - RPSI07_RS08385 0.75 +0.2
117,023 - RPSI07_RS08385 0.75 +0.8
117,023 - RPSI07_RS08385 0.75 -1.3
117,281 + RPSI07_RS08390 0.49 -0.4
117,287 + RPSI07_RS08390 0.51 +1.0
117,287 + RPSI07_RS08390 0.51 -0.4
117,287 + RPSI07_RS08390 0.51 -0.6
117,288 - RPSI07_RS08390 0.51 -1.5
117,292 + RPSI07_RS08390 0.52 -0.9
117,293 - RPSI07_RS08390 0.52 -0.5
117,318 + RPSI07_RS08390 0.58 -1.5
117,318 + RPSI07_RS08390 0.58 +0.1
117,318 + RPSI07_RS08390 0.58 -0.9
117,318 + RPSI07_RS08390 0.58 +0.3
117,318 + RPSI07_RS08390 0.58 -0.6
117,318 + RPSI07_RS08390 0.58 +0.4
117,318 + RPSI07_RS08390 0.58 +2.6
117,319 - RPSI07_RS08390 0.58 -1.8
117,319 - RPSI07_RS08390 0.58 +1.2
117,364 + RPSI07_RS08390 0.69 -0.4
117,364 + RPSI07_RS08390 0.69 -0.8
117,365 - RPSI07_RS08390 0.69 +1.8
117,556 + +0.2
117,712 + RPSI07_RS08395 0.13 -0.9
117,980 - RPSI07_RS08395 0.43 +0.3
118,263 + RPSI07_RS08395 0.75 -0.3
118,263 + RPSI07_RS08395 0.75 -0.1
118,263 + RPSI07_RS08395 0.75 +0.8
118,264 - RPSI07_RS08395 0.75 -0.5
118,294 + RPSI07_RS08395 0.78 -2.6
118,294 + RPSI07_RS08395 0.78 -0.2
118,294 + RPSI07_RS08395 0.78 -1.7
118,384 + RPSI07_RS08395 0.88 -1.4
118,384 + RPSI07_RS08395 0.88 -0.6
118,384 + RPSI07_RS08395 0.88 +0.8
118,384 + RPSI07_RS08395 0.88 -0.1
118,385 - RPSI07_RS08395 0.88 -1.2
118,491 - -0.9

Or see this region's nucleotide sequence