Experiment: SMSA with Ralstonia_antibiotic_mix
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_RS03565 and RPSI07_RS03570 are separated by 181 nucleotides RPSI07_RS03570 and RPSI07_RS03575 are separated by 163 nucleotides RPSI07_RS03575 and RPSI07_RS03580 are separated by 317 nucleotides
RPSI07_RS03565: RPSI07_RS03565 - hypothetical protein, at 970,463 to 974,269
_RS03565
RPSI07_RS03570: RPSI07_RS03570 - hypothetical protein, at 974,451 to 978,476
_RS03570
RPSI07_RS03575: RPSI07_RS03575 - hypothetical protein, at 978,640 to 979,017
_RS03575
RPSI07_RS03580: RPSI07_RS03580 - RNA polymerase sigma factor, at 979,335 to 979,844
_RS03580
Position (kb) 974
975
976
977
978
979 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 973.695 kb on + strand, within RPSI07_RS03565 at 973.818 kb on + strand, within RPSI07_RS03565 at 973.818 kb on + strand, within RPSI07_RS03565 at 973.819 kb on - strand, within RPSI07_RS03565 at 973.819 kb on - strand, within RPSI07_RS03565 at 974.067 kb on + strand at 974.067 kb on + strand at 974.067 kb on + strand at 974.068 kb on - strand at 974.068 kb on - strand at 974.068 kb on - strand at 974.298 kb on - strand at 974.322 kb on + strand at 974.322 kb on + strand at 974.323 kb on - strand at 974.323 kb on - strand at 974.323 kb on - strand at 974.323 kb on - strand at 974.403 kb on + strand at 974.404 kb on - strand at 974.432 kb on + strand at 974.453 kb on - strand at 975.321 kb on + strand, within RPSI07_RS03570 at 975.361 kb on + strand, within RPSI07_RS03570 at 975.361 kb on + strand, within RPSI07_RS03570 at 975.367 kb on + strand, within RPSI07_RS03570 at 975.367 kb on + strand, within RPSI07_RS03570 at 975.368 kb on - strand, within RPSI07_RS03570 at 975.371 kb on + strand, within RPSI07_RS03570 at 975.374 kb on + strand, within RPSI07_RS03570 at 975.508 kb on + strand, within RPSI07_RS03570 at 975.526 kb on + strand, within RPSI07_RS03570 at 975.527 kb on - strand, within RPSI07_RS03570 at 975.527 kb on - strand, within RPSI07_RS03570 at 975.541 kb on + strand, within RPSI07_RS03570 at 975.541 kb on + strand, within RPSI07_RS03570 at 975.542 kb on - strand, within RPSI07_RS03570 at 975.542 kb on - strand, within RPSI07_RS03570 at 975.542 kb on - strand, within RPSI07_RS03570 at 975.542 kb on - strand, within RPSI07_RS03570 at 975.542 kb on - strand, within RPSI07_RS03570 at 975.743 kb on - strand, within RPSI07_RS03570 at 975.837 kb on - strand, within RPSI07_RS03570 at 977.068 kb on + strand, within RPSI07_RS03570 at 977.068 kb on + strand, within RPSI07_RS03570 at 977.068 kb on + strand, within RPSI07_RS03570 at 977.068 kb on + strand, within RPSI07_RS03570 at 977.068 kb on + strand, within RPSI07_RS03570 at 977.069 kb on - strand, within RPSI07_RS03570 at 977.069 kb on - strand, within RPSI07_RS03570 at 977.069 kb on - strand, within RPSI07_RS03570 at 977.069 kb on - strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.113 kb on + strand, within RPSI07_RS03570 at 977.114 kb on - strand, within RPSI07_RS03570 at 977.114 kb on - strand, within RPSI07_RS03570 at 977.114 kb on - strand, within RPSI07_RS03570 at 977.122 kb on + strand, within RPSI07_RS03570 at 977.122 kb on + strand, within RPSI07_RS03570 at 977.123 kb on - strand, within RPSI07_RS03570 at 977.580 kb on + strand, within RPSI07_RS03570 at 977.580 kb on + strand, within RPSI07_RS03570 at 977.580 kb on + strand, within RPSI07_RS03570 at 977.581 kb on - strand, within RPSI07_RS03570 at 977.581 kb on - strand, within RPSI07_RS03570 at 977.581 kb on - strand, within RPSI07_RS03570 at 977.602 kb on + strand, within RPSI07_RS03570 at 978.072 kb on + strand, within RPSI07_RS03570 at 978.072 kb on + strand, within RPSI07_RS03570 at 978.072 kb on + strand, within RPSI07_RS03570 at 978.073 kb on - strand, within RPSI07_RS03570 at 978.073 kb on - strand, within RPSI07_RS03570 at 978.073 kb on - strand, within RPSI07_RS03570 at 978.241 kb on + strand at 978.241 kb on + strand at 978.274 kb on + strand at 978.274 kb on + strand at 978.274 kb on + strand at 978.275 kb on - strand at 978.275 kb on - strand at 978.396 kb on + strand at 978.523 kb on + strand at 978.523 kb on + strand at 978.524 kb on - strand at 978.524 kb on - strand at 978.550 kb on + strand at 978.550 kb on + strand at 978.630 kb on + strand at 978.630 kb on + strand at 978.631 kb on - strand at 978.631 kb on - strand at 978.631 kb on - strand at 978.631 kb on - strand at 978.631 kb on - strand at 978.631 kb on - strand at 978.633 kb on + strand at 978.634 kb on - strand at 978.749 kb on + strand, within RPSI07_RS03575 at 978.749 kb on + strand, within RPSI07_RS03575 at 978.749 kb on + strand, within RPSI07_RS03575 at 978.750 kb on - strand, within RPSI07_RS03575 at 978.853 kb on + strand, within RPSI07_RS03575 at 978.853 kb on + strand, within RPSI07_RS03575 at 978.853 kb on + strand, within RPSI07_RS03575 at 978.853 kb on + strand, within RPSI07_RS03575 at 978.854 kb on - strand, within RPSI07_RS03575 at 978.854 kb on - strand, within RPSI07_RS03575 at 978.881 kb on + strand, within RPSI07_RS03575 at 978.881 kb on + strand, within RPSI07_RS03575 at 978.881 kb on + strand, within RPSI07_RS03575 at 978.882 kb on - strand, within RPSI07_RS03575 at 978.906 kb on + strand, within RPSI07_RS03575 at 978.907 kb on - strand, within RPSI07_RS03575 at 978.907 kb on - strand, within RPSI07_RS03575 at 978.907 kb on - strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.908 kb on + strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 978.909 kb on - strand, within RPSI07_RS03575 at 979.071 kb on + strand at 979.071 kb on + strand at 979.071 kb on + strand at 979.071 kb on + strand at 979.129 kb on + strand at 979.129 kb on + strand at 979.129 kb on + strand at 979.129 kb on + strand at 979.130 kb on - strand at 979.130 kb on - strand at 979.130 kb on - strand at 979.234 kb on + strand at 979.234 kb on + strand at 979.234 kb on + strand at 979.234 kb on + strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.235 kb on - strand at 979.283 kb on + strand at 979.283 kb on + strand at 979.392 kb on + strand, within RPSI07_RS03580 at 979.392 kb on + strand, within RPSI07_RS03580 at 979.392 kb on + strand, within RPSI07_RS03580 at 979.392 kb on + strand, within RPSI07_RS03580 at 979.392 kb on + strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580 at 979.393 kb on - strand, within RPSI07_RS03580
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 973,695 + RPSI07_RS03565 0.85 +0.3 973,818 + RPSI07_RS03565 0.88 +2.7 973,818 + RPSI07_RS03565 0.88 +1.4 973,819 - RPSI07_RS03565 0.88 -0.3 973,819 - RPSI07_RS03565 0.88 -0.5 974,067 + +2.4 974,067 + +0.1 974,067 + +0.2 974,068 - -0.2 974,068 - -0.8 974,068 - +0.1 974,298 - +0.0 974,322 + -0.3 974,322 + -1.7 974,323 - -1.6 974,323 - -1.7 974,323 - +1.1 974,323 - +0.6 974,403 + -1.5 974,404 - -1.0 974,432 + -1.2 974,453 - -0.4 975,321 + RPSI07_RS03570 0.22 +0.7 975,361 + RPSI07_RS03570 0.23 +0.4 975,361 + RPSI07_RS03570 0.23 -0.1 975,367 + RPSI07_RS03570 0.23 +0.1 975,367 + RPSI07_RS03570 0.23 -0.6 975,368 - RPSI07_RS03570 0.23 -0.3 975,371 + RPSI07_RS03570 0.23 +1.2 975,374 + RPSI07_RS03570 0.23 +0.7 975,508 + RPSI07_RS03570 0.26 -1.8 975,526 + RPSI07_RS03570 0.27 +2.0 975,527 - RPSI07_RS03570 0.27 +0.7 975,527 - RPSI07_RS03570 0.27 +2.5 975,541 + RPSI07_RS03570 0.27 -2.5 975,541 + RPSI07_RS03570 0.27 +2.2 975,542 - RPSI07_RS03570 0.27 +2.1 975,542 - RPSI07_RS03570 0.27 +0.2 975,542 - RPSI07_RS03570 0.27 +0.5 975,542 - RPSI07_RS03570 0.27 +1.4 975,542 - RPSI07_RS03570 0.27 -1.6 975,743 - RPSI07_RS03570 0.32 +0.1 975,837 - RPSI07_RS03570 0.34 -0.2 977,068 + RPSI07_RS03570 0.65 +1.2 977,068 + RPSI07_RS03570 0.65 +0.9 977,068 + RPSI07_RS03570 0.65 +0.4 977,068 + RPSI07_RS03570 0.65 -1.1 977,068 + RPSI07_RS03570 0.65 +0.7 977,069 - RPSI07_RS03570 0.65 -0.0 977,069 - RPSI07_RS03570 0.65 -0.8 977,069 - RPSI07_RS03570 0.65 +0.7 977,069 - RPSI07_RS03570 0.65 -0.5 977,113 + RPSI07_RS03570 0.66 +1.7 977,113 + RPSI07_RS03570 0.66 -0.3 977,113 + RPSI07_RS03570 0.66 +0.7 977,113 + RPSI07_RS03570 0.66 -3.0 977,113 + RPSI07_RS03570 0.66 +0.7 977,113 + RPSI07_RS03570 0.66 -2.1 977,114 - RPSI07_RS03570 0.66 +0.1 977,114 - RPSI07_RS03570 0.66 +0.1 977,114 - RPSI07_RS03570 0.66 -0.4 977,122 + RPSI07_RS03570 0.66 +1.1 977,122 + RPSI07_RS03570 0.66 +1.5 977,123 - RPSI07_RS03570 0.66 -0.8 977,580 + RPSI07_RS03570 0.78 -1.8 977,580 + RPSI07_RS03570 0.78 -0.6 977,580 + RPSI07_RS03570 0.78 -0.5 977,581 - RPSI07_RS03570 0.78 +1.2 977,581 - RPSI07_RS03570 0.78 +1.7 977,581 - RPSI07_RS03570 0.78 +0.4 977,602 + RPSI07_RS03570 0.78 -0.9 978,072 + RPSI07_RS03570 0.90 +0.4 978,072 + RPSI07_RS03570 0.90 +2.2 978,072 + RPSI07_RS03570 0.90 +0.7 978,073 - RPSI07_RS03570 0.90 -1.9 978,073 - RPSI07_RS03570 0.90 +0.7 978,073 - RPSI07_RS03570 0.90 +2.8 978,241 + +1.1 978,241 + -0.2 978,274 + +0.1 978,274 + -3.0 978,274 + +0.1 978,275 - +0.8 978,275 - +0.1 978,396 + -0.1 978,523 + +0.2 978,523 + -1.5 978,524 - +1.8 978,524 - -1.2 978,550 + +0.5 978,550 + -0.5 978,630 + -0.7 978,630 + +0.0 978,631 - -2.8 978,631 - -0.2 978,631 - +0.7 978,631 - -3.1 978,631 - -1.5 978,631 - -0.6 978,633 + +0.2 978,634 - -0.3 978,749 + RPSI07_RS03575 0.29 +1.0 978,749 + RPSI07_RS03575 0.29 +1.5 978,749 + RPSI07_RS03575 0.29 +0.2 978,750 - RPSI07_RS03575 0.29 -0.1 978,853 + RPSI07_RS03575 0.56 -0.1 978,853 + RPSI07_RS03575 0.56 -0.2 978,853 + RPSI07_RS03575 0.56 +0.6 978,853 + RPSI07_RS03575 0.56 +1.8 978,854 - RPSI07_RS03575 0.57 -1.0 978,854 - RPSI07_RS03575 0.57 -0.6 978,881 + RPSI07_RS03575 0.64 +1.1 978,881 + RPSI07_RS03575 0.64 +0.7 978,881 + RPSI07_RS03575 0.64 +1.7 978,882 - RPSI07_RS03575 0.64 -1.0 978,906 + RPSI07_RS03575 0.70 -1.1 978,907 - RPSI07_RS03575 0.71 +0.9 978,907 - RPSI07_RS03575 0.71 -1.1 978,907 - RPSI07_RS03575 0.71 -0.1 978,908 + RPSI07_RS03575 0.71 +2.2 978,908 + RPSI07_RS03575 0.71 +1.0 978,908 + RPSI07_RS03575 0.71 -0.4 978,908 + RPSI07_RS03575 0.71 +0.7 978,908 + RPSI07_RS03575 0.71 +1.1 978,908 + RPSI07_RS03575 0.71 +2.8 978,908 + RPSI07_RS03575 0.71 +0.6 978,909 - RPSI07_RS03575 0.71 +0.0 978,909 - RPSI07_RS03575 0.71 +0.8 978,909 - RPSI07_RS03575 0.71 +0.7 978,909 - RPSI07_RS03575 0.71 -0.7 978,909 - RPSI07_RS03575 0.71 +2.1 978,909 - RPSI07_RS03575 0.71 -0.6 978,909 - RPSI07_RS03575 0.71 +3.0 978,909 - RPSI07_RS03575 0.71 -1.2 979,071 + -0.1 979,071 + -0.3 979,071 + +1.2 979,071 + +0.4 979,129 + -3.1 979,129 + +0.2 979,129 + +0.2 979,129 + +1.9 979,130 - +0.0 979,130 - -0.0 979,130 - -0.7 979,234 + +1.0 979,234 + +0.3 979,234 + +0.7 979,234 + +0.1 979,235 - +0.1 979,235 - -1.2 979,235 - -1.2 979,235 - -0.3 979,235 - +0.1 979,235 - -0.4 979,235 - -0.7 979,235 - -1.7 979,283 + +0.5 979,283 + +0.0 979,392 + RPSI07_RS03580 0.11 +0.0 979,392 + RPSI07_RS03580 0.11 -0.0 979,392 + RPSI07_RS03580 0.11 -1.4 979,392 + RPSI07_RS03580 0.11 -0.2 979,392 + RPSI07_RS03580 0.11 -1.7 979,393 - RPSI07_RS03580 0.11 -0.5 979,393 - RPSI07_RS03580 0.11 -0.3 979,393 - RPSI07_RS03580 0.11 -3.6 979,393 - RPSI07_RS03580 0.11 +0.5 979,393 - RPSI07_RS03580 0.11 -1.2 979,393 - RPSI07_RS03580 0.11 +2.7 979,393 - RPSI07_RS03580 0.11 -0.9 979,393 - RPSI07_RS03580 0.11 +1.4 979,393 - RPSI07_RS03580 0.11 +0.2
Or see this region's nucleotide sequence