Strain Fitness in Ralstonia solanacearum PSI07 around RPSI07_RS13080

Experiment: SMSA with Ralstonia_antibiotic_mix

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 ntRPSI07_RS13070 and RPSI07_RS13075 are separated by 3 nucleotidesRPSI07_RS13075 and RPSI07_RS13080 are separated by 110 nucleotidesRPSI07_RS13080 and RPSI07_RS13085 are separated by 108 nucleotidesRPSI07_RS13085 and RPSI07_RS13090 overlap by 1 nucleotides RPSI07_RS13070: RPSI07_RS13070 - hypothetical protein, at 1,119,835 to 1,120,110 _RS13070 RPSI07_RS13075: RPSI07_RS13075 - hypothetical protein, at 1,120,114 to 1,120,380 _RS13075 RPSI07_RS13080: RPSI07_RS13080 - argininosuccinate lyase, at 1,120,491 to 1,121,906 _RS13080 RPSI07_RS13085: RPSI07_RS13085 - membrane protein, at 1,122,015 to 1,122,734 _RS13085 RPSI07_RS13090: RPSI07_RS13090 - DNA-directed RNA polymerase sigma-70 factor, at 1,122,734 to 1,123,375 _RS13090 Position (kb) 1120 1121 1122Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5at 1119.543 kb on + strandat 1119.543 kb on + strandat 1119.544 kb on - strandat 1119.549 kb on + strandat 1119.549 kb on + strandat 1119.643 kb on + strandat 1119.643 kb on + strandat 1119.643 kb on + strandat 1119.644 kb on - strandat 1119.747 kb on + strandat 1119.748 kb on - strandat 1119.748 kb on - strandat 1119.748 kb on - strandat 1119.856 kb on + strandat 1119.856 kb on + strandat 1119.893 kb on + strand, within RPSI07_RS13070at 1119.894 kb on - strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1119.988 kb on + strand, within RPSI07_RS13070at 1120.021 kb on + strand, within RPSI07_RS13070at 1120.021 kb on + strand, within RPSI07_RS13070at 1120.021 kb on + strand, within RPSI07_RS13070at 1120.022 kb on - strand, within RPSI07_RS13070at 1120.022 kb on - strand, within RPSI07_RS13070at 1120.022 kb on - strand, within RPSI07_RS13070at 1120.022 kb on - strand, within RPSI07_RS13070at 1120.022 kb on - strand, within RPSI07_RS13070at 1120.032 kb on + strand, within RPSI07_RS13070at 1120.175 kb on - strand, within RPSI07_RS13075at 1120.224 kb on + strand, within RPSI07_RS13075at 1120.224 kb on + strand, within RPSI07_RS13075at 1120.224 kb on + strand, within RPSI07_RS13075at 1120.224 kb on + strand, within RPSI07_RS13075at 1120.307 kb on - strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.339 kb on + strand, within RPSI07_RS13075at 1120.340 kb on - strand, within RPSI07_RS13075at 1120.340 kb on - strand, within RPSI07_RS13075at 1120.340 kb on - strand, within RPSI07_RS13075at 1120.371 kb on + strandat 1120.371 kb on + strandat 1120.372 kb on - strandat 1120.422 kb on + strandat 1121.972 kb on + strandat 1121.972 kb on + strandat 1121.972 kb on + strandat 1121.973 kb on - strandat 1121.973 kb on - strandat 1122.145 kb on - strand, within RPSI07_RS13085at 1122.586 kb on + strand, within RPSI07_RS13085at 1122.685 kb on + strandat 1122.852 kb on + strand, within RPSI07_RS13090at 1122.853 kb on - strand, within RPSI07_RS13090at 1122.853 kb on - strand, within RPSI07_RS13090

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix
remove
1,119,543 + +0.2
1,119,543 + +0.7
1,119,544 - +0.4
1,119,549 + -0.9
1,119,549 + +1.3
1,119,643 + +1.3
1,119,643 + -1.5
1,119,643 + -0.0
1,119,644 - -1.6
1,119,747 + -1.3
1,119,748 - -0.8
1,119,748 - +0.5
1,119,748 - -0.7
1,119,856 + +1.4
1,119,856 + -0.2
1,119,893 + RPSI07_RS13070 0.21 +0.8
1,119,894 - RPSI07_RS13070 0.21 +0.3
1,119,988 + RPSI07_RS13070 0.55 -1.7
1,119,988 + RPSI07_RS13070 0.55 -1.1
1,119,988 + RPSI07_RS13070 0.55 +1.4
1,119,988 + RPSI07_RS13070 0.55 -0.3
1,119,988 + RPSI07_RS13070 0.55 -0.2
1,119,988 + RPSI07_RS13070 0.55 +0.4
1,119,988 + RPSI07_RS13070 0.55 -0.1
1,119,988 + RPSI07_RS13070 0.55 -1.1
1,119,988 + RPSI07_RS13070 0.55 -0.1
1,120,021 + RPSI07_RS13070 0.67 -0.8
1,120,021 + RPSI07_RS13070 0.67 +4.2
1,120,021 + RPSI07_RS13070 0.67 -0.9
1,120,022 - RPSI07_RS13070 0.68 -0.0
1,120,022 - RPSI07_RS13070 0.68 +1.7
1,120,022 - RPSI07_RS13070 0.68 +1.2
1,120,022 - RPSI07_RS13070 0.68 +0.3
1,120,022 - RPSI07_RS13070 0.68 -0.4
1,120,032 + RPSI07_RS13070 0.71 +0.7
1,120,175 - RPSI07_RS13075 0.23 -0.4
1,120,224 + RPSI07_RS13075 0.41 +0.2
1,120,224 + RPSI07_RS13075 0.41 +1.0
1,120,224 + RPSI07_RS13075 0.41 -0.1
1,120,224 + RPSI07_RS13075 0.41 +0.2
1,120,307 - RPSI07_RS13075 0.72 -0.4
1,120,339 + RPSI07_RS13075 0.84 +0.9
1,120,339 + RPSI07_RS13075 0.84 -1.6
1,120,339 + RPSI07_RS13075 0.84 +0.0
1,120,339 + RPSI07_RS13075 0.84 +5.0
1,120,339 + RPSI07_RS13075 0.84 +3.4
1,120,339 + RPSI07_RS13075 0.84 +0.2
1,120,339 + RPSI07_RS13075 0.84 -1.9
1,120,339 + RPSI07_RS13075 0.84 +1.9
1,120,340 - RPSI07_RS13075 0.85 +3.7
1,120,340 - RPSI07_RS13075 0.85 +0.2
1,120,340 - RPSI07_RS13075 0.85 -0.3
1,120,371 + -0.4
1,120,371 + -0.3
1,120,372 - +0.5
1,120,422 + +0.3
1,121,972 + -0.3
1,121,972 + -1.5
1,121,972 + +1.2
1,121,973 - -0.1
1,121,973 - -0.0
1,122,145 - RPSI07_RS13085 0.18 +0.5
1,122,586 + RPSI07_RS13085 0.79 +0.6
1,122,685 + -0.7
1,122,852 + RPSI07_RS13090 0.18 +0.0
1,122,853 - RPSI07_RS13090 0.19 -1.9
1,122,853 - RPSI07_RS13090 0.19 +0.2

Or see this region's nucleotide sequence