Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol
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.
500 nt RPSI07_RS03270 and RPSI07_RS03275 are separated by 410 nucleotides RPSI07_RS03275 and RPSI07_RS03280 are separated by 77 nucleotides RPSI07_RS03280 and RPSI07_RS03285 are separated by 229 nucleotides
RPSI07_RS03270: RPSI07_RS03270 - M20 peptidase family dipeptidase, at 891,472 to 892,884
_RS03270
RPSI07_RS03275: RPSI07_RS03275 - alpha/beta hydrolase, at 893,295 to 894,167
_RS03275
RPSI07_RS03280: RPSI07_RS03280 - TetR/AcrR family transcriptional regulator, at 894,245 to 894,820
_RS03280
RPSI07_RS03285: RPSI07_RS03285 - MFS transporter, at 895,050 to 896,279
_RS03285
Position (kb) 893
894
895 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 892.366 kb on + strand, within RPSI07_RS03270 at 892.367 kb on - strand, within RPSI07_RS03270 at 892.367 kb on - strand, within RPSI07_RS03270 at 893.185 kb on + strand at 893.186 kb on - strand at 893.186 kb on - strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.337 kb on + strand at 893.338 kb on - strand at 893.338 kb on - strand at 893.338 kb on - strand at 893.338 kb on - strand at 893.338 kb on - strand at 893.377 kb on + strand at 893.377 kb on + strand at 893.378 kb on - strand at 893.539 kb on + strand, within RPSI07_RS03275 at 893.539 kb on + strand, within RPSI07_RS03275 at 893.539 kb on + strand, within RPSI07_RS03275 at 893.540 kb on - strand, within RPSI07_RS03275 at 893.540 kb on - strand, within RPSI07_RS03275 at 893.540 kb on - strand, within RPSI07_RS03275 at 893.540 kb on - strand, within RPSI07_RS03275 at 893.540 kb on - strand, within RPSI07_RS03275 at 893.581 kb on + strand, within RPSI07_RS03275 at 893.581 kb on + strand, within RPSI07_RS03275 at 893.581 kb on + strand, within RPSI07_RS03275 at 893.582 kb on - strand, within RPSI07_RS03275 at 893.668 kb on + strand, within RPSI07_RS03275 at 893.746 kb on + strand, within RPSI07_RS03275 at 893.746 kb on + strand, within RPSI07_RS03275 at 893.746 kb on + strand, within RPSI07_RS03275 at 893.746 kb on + strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.747 kb on - strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.779 kb on + strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 893.780 kb on - strand, within RPSI07_RS03275 at 894.031 kb on + strand, within RPSI07_RS03275 at 894.032 kb on - strand, within RPSI07_RS03275 at 894.032 kb on - strand, within RPSI07_RS03275 at 894.032 kb on - strand, within RPSI07_RS03275 at 894.032 kb on - strand, within RPSI07_RS03275 at 894.101 kb on - strand at 894.101 kb on - strand at 894.121 kb on + strand at 894.121 kb on + strand at 894.121 kb on + strand at 894.121 kb on + strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.122 kb on - strand at 894.169 kb on + strand at 894.169 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.170 kb on + strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.171 kb on - strand at 894.181 kb on - strand at 894.203 kb on + strand at 894.204 kb on - strand at 894.238 kb on - strand at 894.238 kb on - strand at 894.238 kb on - strand at 894.377 kb on + strand, within RPSI07_RS03280 at 894.377 kb on + strand, within RPSI07_RS03280 at 894.378 kb on - strand, within RPSI07_RS03280 at 894.378 kb on - strand, within RPSI07_RS03280 at 894.378 kb on - strand, within RPSI07_RS03280 at 894.378 kb on - strand, within RPSI07_RS03280 at 894.835 kb on + strand at 894.836 kb on - strand at 894.892 kb on + strand at 894.893 kb on - strand at 894.925 kb on + strand at 894.925 kb on + strand at 894.925 kb on + strand at 894.925 kb on + strand at 894.925 kb on + strand at 894.926 kb on - strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.927 kb on + strand at 894.928 kb on - strand at 894.928 kb on - strand at 894.928 kb on - strand at 894.928 kb on - strand at 894.928 kb on - strand at 894.928 kb on - strand at 895.025 kb on + strand at 895.026 kb on - strand at 895.026 kb on - strand at 895.026 kb on - strand at 895.026 kb on - strand at 895.043 kb on + strand at 895.044 kb on - strand at 895.044 kb on - strand at 895.044 kb on - strand at 895.044 kb on - strand at 895.088 kb on + strand at 895.088 kb on + strand at 895.088 kb on + strand at 895.088 kb on + strand at 895.089 kb on - strand at 895.089 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol remove 892,366 + RPSI07_RS03270 0.63 -0.8 892,367 - RPSI07_RS03270 0.63 +0.5 892,367 - RPSI07_RS03270 0.63 -1.1 893,185 + +0.5 893,186 - +0.6 893,186 - +3.1 893,337 + +0.5 893,337 + +0.4 893,337 + -2.3 893,337 + +1.0 893,337 + -0.9 893,337 + +2.5 893,337 + -0.5 893,337 + -0.4 893,338 - -0.1 893,338 - -0.8 893,338 - -0.5 893,338 - -1.0 893,338 - -0.6 893,377 + +1.0 893,377 + +0.1 893,378 - +1.7 893,539 + RPSI07_RS03275 0.28 +0.5 893,539 + RPSI07_RS03275 0.28 -2.5 893,539 + RPSI07_RS03275 0.28 -0.0 893,540 - RPSI07_RS03275 0.28 +0.1 893,540 - RPSI07_RS03275 0.28 +0.4 893,540 - RPSI07_RS03275 0.28 -0.5 893,540 - RPSI07_RS03275 0.28 -2.1 893,540 - RPSI07_RS03275 0.28 -0.2 893,581 + RPSI07_RS03275 0.33 +1.0 893,581 + RPSI07_RS03275 0.33 +1.1 893,581 + RPSI07_RS03275 0.33 -0.9 893,582 - RPSI07_RS03275 0.33 +0.3 893,668 + RPSI07_RS03275 0.43 +1.1 893,746 + RPSI07_RS03275 0.52 +2.5 893,746 + RPSI07_RS03275 0.52 +0.0 893,746 + RPSI07_RS03275 0.52 -1.4 893,746 + RPSI07_RS03275 0.52 -1.4 893,747 - RPSI07_RS03275 0.52 -0.6 893,747 - RPSI07_RS03275 0.52 +1.0 893,747 - RPSI07_RS03275 0.52 -0.5 893,747 - RPSI07_RS03275 0.52 +1.7 893,747 - RPSI07_RS03275 0.52 -0.6 893,747 - RPSI07_RS03275 0.52 +0.1 893,747 - RPSI07_RS03275 0.52 +0.7 893,747 - RPSI07_RS03275 0.52 -0.5 893,779 + RPSI07_RS03275 0.55 -0.9 893,779 + RPSI07_RS03275 0.55 -1.0 893,779 + RPSI07_RS03275 0.55 -1.5 893,779 + RPSI07_RS03275 0.55 -1.4 893,779 + RPSI07_RS03275 0.55 +0.5 893,779 + RPSI07_RS03275 0.55 -0.7 893,779 + RPSI07_RS03275 0.55 -0.5 893,779 + RPSI07_RS03275 0.55 +0.1 893,779 + RPSI07_RS03275 0.55 +0.7 893,779 + RPSI07_RS03275 0.55 -1.3 893,779 + RPSI07_RS03275 0.55 +0.7 893,779 + RPSI07_RS03275 0.55 -0.8 893,779 + RPSI07_RS03275 0.55 +1.9 893,779 + RPSI07_RS03275 0.55 +0.1 893,779 + RPSI07_RS03275 0.55 -0.3 893,779 + RPSI07_RS03275 0.55 +0.4 893,779 + RPSI07_RS03275 0.55 +0.5 893,780 - RPSI07_RS03275 0.56 -0.1 893,780 - RPSI07_RS03275 0.56 +2.1 893,780 - RPSI07_RS03275 0.56 -1.0 893,780 - RPSI07_RS03275 0.56 -1.6 893,780 - RPSI07_RS03275 0.56 +0.5 893,780 - RPSI07_RS03275 0.56 +0.7 893,780 - RPSI07_RS03275 0.56 +0.2 893,780 - RPSI07_RS03275 0.56 +1.5 893,780 - RPSI07_RS03275 0.56 +1.7 893,780 - RPSI07_RS03275 0.56 +0.1 893,780 - RPSI07_RS03275 0.56 +0.7 893,780 - RPSI07_RS03275 0.56 -2.6 893,780 - RPSI07_RS03275 0.56 -0.1 893,780 - RPSI07_RS03275 0.56 +0.1 893,780 - RPSI07_RS03275 0.56 -0.1 894,031 + RPSI07_RS03275 0.84 +2.3 894,032 - RPSI07_RS03275 0.84 -0.6 894,032 - RPSI07_RS03275 0.84 -2.0 894,032 - RPSI07_RS03275 0.84 -0.9 894,032 - RPSI07_RS03275 0.84 -2.3 894,101 - -1.1 894,101 - +0.0 894,121 + -0.8 894,121 + +0.2 894,121 + +1.2 894,121 + -0.5 894,122 - -0.5 894,122 - -0.0 894,122 - +0.5 894,122 - -1.1 894,122 - -0.4 894,122 - -0.7 894,122 - -0.0 894,169 + -0.5 894,169 + -2.8 894,170 + -0.7 894,170 + +0.9 894,170 + +1.5 894,170 + +1.4 894,170 + -0.0 894,170 + -0.3 894,170 + +0.3 894,170 + +0.2 894,170 + +0.8 894,170 + -0.4 894,171 - +1.3 894,171 - +1.5 894,171 - -1.1 894,171 - -0.3 894,171 - -2.3 894,171 - -2.5 894,171 - +0.3 894,171 - -0.5 894,171 - +1.1 894,181 - -1.4 894,203 + -0.7 894,204 - +1.3 894,238 - -0.2 894,238 - +0.0 894,238 - -1.0 894,377 + RPSI07_RS03280 0.23 -1.3 894,377 + RPSI07_RS03280 0.23 -1.2 894,378 - RPSI07_RS03280 0.23 -1.4 894,378 - RPSI07_RS03280 0.23 +0.3 894,378 - RPSI07_RS03280 0.23 +1.7 894,378 - RPSI07_RS03280 0.23 -0.2 894,835 + -0.5 894,836 - +1.2 894,892 + +1.5 894,893 - -1.1 894,925 + -0.9 894,925 + -1.7 894,925 + +0.3 894,925 + -0.5 894,925 + -0.8 894,926 - -0.6 894,927 + -0.0 894,927 + -3.2 894,927 + +2.1 894,927 + +0.7 894,927 + +0.5 894,927 + -0.4 894,927 + +0.9 894,927 + +1.4 894,928 - +1.5 894,928 - -0.9 894,928 - -0.8 894,928 - -1.1 894,928 - +0.1 894,928 - +0.3 895,025 + +1.2 895,026 - +0.1 895,026 - +0.2 895,026 - -0.8 895,026 - -0.3 895,043 + -1.6 895,044 - -0.5 895,044 - -0.1 895,044 - -1.0 895,044 - +1.5 895,088 + +0.0 895,088 + +0.4 895,088 + -1.2 895,088 + -2.0 895,089 - +0.4 895,089 - +1.5
Or see this region's nucleotide sequence