Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS00165

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_RS00160 and RPSI07_RS00165 are separated by 138 nucleotidesRPSI07_RS00165 and RPSI07_RS00170 are separated by 195 nucleotides RPSI07_RS00160: RPSI07_RS00160 - efflux RND transporter periplasmic adaptor subunit, at 39,198 to 40,412 _RS00160 RPSI07_RS00165: RPSI07_RS00165 - histidine kinase, at 40,551 to 42,080 _RS00165 RPSI07_RS00170: RPSI07_RS00170 - GALA protein, at 42,276 to 44,048 _RS00170 Position (kb) 40 41 42 43Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 39.868 kb on + strand, within RPSI07_RS00160at 39.868 kb on + strand, within RPSI07_RS00160at 40.087 kb on + strand, within RPSI07_RS00160at 40.088 kb on - strand, within RPSI07_RS00160at 40.112 kb on - strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.216 kb on + strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.217 kb on - strand, within RPSI07_RS00160at 40.218 kb on - strand, within RPSI07_RS00160at 40.297 kb on + strandat 40.297 kb on + strandat 40.298 kb on - strandat 40.474 kb on + strandat 40.474 kb on + strandat 40.474 kb on + strandat 40.474 kb on + strandat 40.475 kb on - strandat 40.475 kb on - strandat 40.550 kb on + strandat 40.559 kb on + strandat 40.560 kb on - strandat 40.560 kb on - strandat 40.692 kb on + strandat 40.920 kb on + strand, within RPSI07_RS00165at 40.920 kb on + strand, within RPSI07_RS00165at 40.921 kb on - strand, within RPSI07_RS00165at 40.921 kb on - strand, within RPSI07_RS00165at 40.921 kb on - strand, within RPSI07_RS00165at 40.944 kb on + strand, within RPSI07_RS00165at 40.944 kb on + strand, within RPSI07_RS00165at 40.944 kb on + strand, within RPSI07_RS00165at 40.944 kb on + strand, within RPSI07_RS00165at 40.945 kb on - strand, within RPSI07_RS00165at 40.945 kb on - strand, within RPSI07_RS00165at 40.945 kb on - strand, within RPSI07_RS00165at 40.945 kb on - strand, within RPSI07_RS00165at 41.014 kb on - strand, within RPSI07_RS00165at 41.014 kb on - strand, within RPSI07_RS00165at 41.014 kb on - strand, within RPSI07_RS00165at 41.015 kb on - strand, within RPSI07_RS00165at 41.025 kb on - strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.046 kb on + strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.047 kb on - strand, within RPSI07_RS00165at 41.048 kb on + strand, within RPSI07_RS00165at 41.049 kb on - strand, within RPSI07_RS00165at 41.049 kb on - strand, within RPSI07_RS00165at 41.115 kb on + strand, within RPSI07_RS00165at 41.136 kb on + strand, within RPSI07_RS00165at 41.136 kb on + strand, within RPSI07_RS00165at 41.363 kb on - strand, within RPSI07_RS00165at 41.792 kb on + strand, within RPSI07_RS00165at 41.901 kb on + strand, within RPSI07_RS00165at 41.902 kb on - strand, within RPSI07_RS00165at 41.940 kb on + strandat 41.940 kb on + strandat 41.941 kb on - strandat 42.183 kb on + strandat 42.184 kb on - strandat 42.234 kb on + strandat 42.235 kb on - strandat 42.235 kb on - strandat 42.284 kb on + strandat 42.285 kb on + strandat 42.286 kb on - strandat 42.286 kb on - strandat 42.359 kb on + strandat 42.359 kb on + strandat 42.547 kb on + strand, within RPSI07_RS00170at 42.547 kb on + strand, within RPSI07_RS00170at 42.548 kb on + strand, within RPSI07_RS00170at 42.548 kb on - strand, within RPSI07_RS00170at 42.624 kb on + strand, within RPSI07_RS00170at 42.625 kb on - strand, within RPSI07_RS00170at 42.625 kb on - strand, within RPSI07_RS00170at 42.625 kb on - strand, within RPSI07_RS00170at 42.790 kb on - strand, within RPSI07_RS00170at 42.790 kb on - strand, within RPSI07_RS00170at 42.790 kb on - strand, within RPSI07_RS00170at 42.947 kb on + strand, within RPSI07_RS00170at 42.947 kb on + strand, within RPSI07_RS00170at 42.947 kb on + strand, within RPSI07_RS00170at 42.948 kb on - strand, within RPSI07_RS00170at 43.019 kb on + strand, within RPSI07_RS00170at 43.020 kb on - strand, within RPSI07_RS00170at 43.056 kb on + strand, within RPSI07_RS00170at 43.057 kb on - strand, within RPSI07_RS00170at 43.057 kb on - strand, within RPSI07_RS00170at 43.057 kb on - strand, within RPSI07_RS00170

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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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39,868 + RPSI07_RS00160 0.55 +1.2
39,868 + RPSI07_RS00160 0.55 +2.9
40,087 + RPSI07_RS00160 0.73 -0.3
40,088 - RPSI07_RS00160 0.73 -0.7
40,112 - RPSI07_RS00160 0.75 +1.8
40,216 + RPSI07_RS00160 0.84 +0.6
40,216 + RPSI07_RS00160 0.84 -0.7
40,216 + RPSI07_RS00160 0.84 -1.0
40,216 + RPSI07_RS00160 0.84 +0.7
40,216 + RPSI07_RS00160 0.84 +0.2
40,216 + RPSI07_RS00160 0.84 -1.7
40,216 + RPSI07_RS00160 0.84 -1.4
40,216 + RPSI07_RS00160 0.84 +0.9
40,216 + RPSI07_RS00160 0.84 -1.0
40,217 - RPSI07_RS00160 0.84 +0.9
40,217 - RPSI07_RS00160 0.84 -0.8
40,217 - RPSI07_RS00160 0.84 -0.0
40,217 - RPSI07_RS00160 0.84 -1.2
40,217 - RPSI07_RS00160 0.84 -0.0
40,217 - RPSI07_RS00160 0.84 -0.7
40,218 - RPSI07_RS00160 0.84 +0.8
40,297 + -0.3
40,297 + -0.8
40,298 - -1.2
40,474 + +0.4
40,474 + +0.2
40,474 + +4.2
40,474 + -0.5
40,475 - +1.2
40,475 - +0.9
40,550 + +0.7
40,559 + +0.2
40,560 - -0.6
40,560 - -0.3
40,692 + +0.7
40,920 + RPSI07_RS00165 0.24 +0.0
40,920 + RPSI07_RS00165 0.24 +1.8
40,921 - RPSI07_RS00165 0.24 -0.8
40,921 - RPSI07_RS00165 0.24 +0.5
40,921 - RPSI07_RS00165 0.24 -0.5
40,944 + RPSI07_RS00165 0.26 -0.5
40,944 + RPSI07_RS00165 0.26 -0.3
40,944 + RPSI07_RS00165 0.26 -0.9
40,944 + RPSI07_RS00165 0.26 -0.6
40,945 - RPSI07_RS00165 0.26 -1.7
40,945 - RPSI07_RS00165 0.26 +0.2
40,945 - RPSI07_RS00165 0.26 -0.9
40,945 - RPSI07_RS00165 0.26 -0.0
41,014 - RPSI07_RS00165 0.30 +0.5
41,014 - RPSI07_RS00165 0.30 -1.9
41,014 - RPSI07_RS00165 0.30 -0.3
41,015 - RPSI07_RS00165 0.30 +0.2
41,025 - RPSI07_RS00165 0.31 -0.4
41,046 + RPSI07_RS00165 0.32 -0.7
41,046 + RPSI07_RS00165 0.32 -0.7
41,046 + RPSI07_RS00165 0.32 -0.6
41,046 + RPSI07_RS00165 0.32 -0.4
41,046 + RPSI07_RS00165 0.32 -1.2
41,046 + RPSI07_RS00165 0.32 -0.4
41,047 - RPSI07_RS00165 0.32 -0.5
41,047 - RPSI07_RS00165 0.32 +0.3
41,047 - RPSI07_RS00165 0.32 +1.2
41,047 - RPSI07_RS00165 0.32 -0.4
41,047 - RPSI07_RS00165 0.32 +0.2
41,047 - RPSI07_RS00165 0.32 -0.2
41,047 - RPSI07_RS00165 0.32 -0.5
41,047 - RPSI07_RS00165 0.32 -0.5
41,048 + RPSI07_RS00165 0.32 -2.2
41,049 - RPSI07_RS00165 0.33 -0.6
41,049 - RPSI07_RS00165 0.33 -0.1
41,115 + RPSI07_RS00165 0.37 -1.0
41,136 + RPSI07_RS00165 0.38 -2.8
41,136 + RPSI07_RS00165 0.38 +2.1
41,363 - RPSI07_RS00165 0.53 -2.0
41,792 + RPSI07_RS00165 0.81 -1.5
41,901 + RPSI07_RS00165 0.88 +0.8
41,902 - RPSI07_RS00165 0.88 -0.2
41,940 + -0.0
41,940 + +0.2
41,941 - +2.4
42,183 + -1.0
42,184 - -0.0
42,234 + -0.6
42,235 - -0.9
42,235 - +0.2
42,284 + -0.7
42,285 + +0.2
42,286 - +0.7
42,286 - +0.9
42,359 + +0.7
42,359 + +0.2
42,547 + RPSI07_RS00170 0.15 +1.2
42,547 + RPSI07_RS00170 0.15 -1.1
42,548 + RPSI07_RS00170 0.15 +0.4
42,548 - RPSI07_RS00170 0.15 +0.2
42,624 + RPSI07_RS00170 0.20 -0.4
42,625 - RPSI07_RS00170 0.20 +1.2
42,625 - RPSI07_RS00170 0.20 +0.2
42,625 - RPSI07_RS00170 0.20 -0.4
42,790 - RPSI07_RS00170 0.29 -0.7
42,790 - RPSI07_RS00170 0.29 +0.0
42,790 - RPSI07_RS00170 0.29 +0.7
42,947 + RPSI07_RS00170 0.38 -0.1
42,947 + RPSI07_RS00170 0.38 -1.4
42,947 + RPSI07_RS00170 0.38 -1.9
42,948 - RPSI07_RS00170 0.38 -1.9
43,019 + RPSI07_RS00170 0.42 +1.0
43,020 - RPSI07_RS00170 0.42 -0.2
43,056 + RPSI07_RS00170 0.44 -1.5
43,057 - RPSI07_RS00170 0.44 -0.1
43,057 - RPSI07_RS00170 0.44 -0.6
43,057 - RPSI07_RS00170 0.44 -0.2

Or see this region's nucleotide sequence