Strain Fitness in Ralstonia solanacearum GMI1000 around RS_RS00945

Experiment: SMSA with Ralstonia_antibiotic_mix

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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 ntRS_RS00940 and RS_RS00945 are separated by 258 nucleotidesRS_RS00945 and RS_RS00950 are separated by 2 nucleotidesRS_RS00950 and RS_RS00955 are separated by 103 nucleotides RS_RS00940: RS_RS00940 - Crp/Fnr family transcriptional regulator, at 211,194 to 211,994 _RS00940 RS_RS00945: RS_RS00945 - PAS domain S-box protein, at 212,253 to 213,629 _RS00945 RS_RS00950: RS_RS00950 - DNA-binding response regulator, at 213,632 to 214,279 _RS00950 RS_RS00955: RS_RS00955 - hypothetical protein, at 214,383 to 214,877 _RS00955 Position (kb) 212 213 214Strain fitness (log2 ratio) -2 -1 0 1 2 3at 211.315 kb on + strand, within RS_RS00940at 211.315 kb on + strand, within RS_RS00940at 211.316 kb on - strand, within RS_RS00940at 211.316 kb on - strand, within RS_RS00940at 211.316 kb on - strand, within RS_RS00940at 211.366 kb on + strand, within RS_RS00940at 211.367 kb on - strand, within RS_RS00940at 211.560 kb on + strand, within RS_RS00940at 211.560 kb on + strand, within RS_RS00940at 211.560 kb on + strand, within RS_RS00940at 211.560 kb on + strand, within RS_RS00940at 211.561 kb on - strand, within RS_RS00940at 211.561 kb on - strand, within RS_RS00940at 211.595 kb on + strand, within RS_RS00940at 211.596 kb on - strand, within RS_RS00940at 211.596 kb on - strand, within RS_RS00940at 211.718 kb on - strand, within RS_RS00940at 211.781 kb on + strand, within RS_RS00940at 211.782 kb on - strand, within RS_RS00940at 211.782 kb on - strand, within RS_RS00940at 211.782 kb on - strand, within RS_RS00940at 211.782 kb on - strand, within RS_RS00940at 211.887 kb on + strand, within RS_RS00940at 211.888 kb on - strand, within RS_RS00940at 212.092 kb on - strandat 212.252 kb on + strandat 212.252 kb on + strandat 212.341 kb on + strandat 212.341 kb on + strandat 212.420 kb on + strand, within RS_RS00945at 212.420 kb on + strand, within RS_RS00945at 212.421 kb on - strand, within RS_RS00945at 212.452 kb on + strand, within RS_RS00945at 212.453 kb on - strand, within RS_RS00945at 212.471 kb on + strand, within RS_RS00945at 212.472 kb on - strand, within RS_RS00945at 212.499 kb on + strand, within RS_RS00945at 212.500 kb on - strand, within RS_RS00945at 212.500 kb on - strand, within RS_RS00945at 212.652 kb on - strand, within RS_RS00945at 213.071 kb on + strand, within RS_RS00945at 213.071 kb on + strand, within RS_RS00945at 213.072 kb on - strand, within RS_RS00945at 213.072 kb on - strand, within RS_RS00945at 213.423 kb on - strand, within RS_RS00945at 213.689 kb on - strandat 213.747 kb on + strand, within RS_RS00950at 213.837 kb on + strand, within RS_RS00950at 213.838 kb on - strand, within RS_RS00950at 213.838 kb on - strand, within RS_RS00950at 213.838 kb on - strand, within RS_RS00950at 213.896 kb on + strand, within RS_RS00950at 213.897 kb on - strand, within RS_RS00950at 213.897 kb on - strand, within RS_RS00950at 213.933 kb on - strand, within RS_RS00950at 213.933 kb on - strand, within RS_RS00950at 213.998 kb on - strand, within RS_RS00950at 213.998 kb on - strand, within RS_RS00950at 214.001 kb on + strand, within RS_RS00950at 214.001 kb on + strand, within RS_RS00950at 214.001 kb on + strand, within RS_RS00950at 214.001 kb on + strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.002 kb on - strand, within RS_RS00950at 214.101 kb on - strand, within RS_RS00950at 214.171 kb on + strand, within RS_RS00950at 214.171 kb on + strand, within RS_RS00950at 214.178 kb on + strand, within RS_RS00950at 214.178 kb on + strand, within RS_RS00950at 214.213 kb on + strand, within RS_RS00950at 214.236 kb on - strandat 214.351 kb on + strandat 214.352 kb on - strandat 214.352 kb on - strandat 214.381 kb on + strandat 214.589 kb on - strand, within RS_RS00955

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Per-strain Table

Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix
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211,315 + RS_RS00940 0.15 +0.2
211,315 + RS_RS00940 0.15 -0.6
211,316 - RS_RS00940 0.15 -0.2
211,316 - RS_RS00940 0.15 -0.3
211,316 - RS_RS00940 0.15 -2.4
211,366 + RS_RS00940 0.21 -0.3
211,367 - RS_RS00940 0.22 -0.3
211,560 + RS_RS00940 0.46 +0.4
211,560 + RS_RS00940 0.46 -0.0
211,560 + RS_RS00940 0.46 -0.1
211,560 + RS_RS00940 0.46 -0.2
211,561 - RS_RS00940 0.46 +0.3
211,561 - RS_RS00940 0.46 -0.0
211,595 + RS_RS00940 0.50 +0.9
211,596 - RS_RS00940 0.50 +0.4
211,596 - RS_RS00940 0.50 +0.5
211,718 - RS_RS00940 0.65 -0.4
211,781 + RS_RS00940 0.73 +0.8
211,782 - RS_RS00940 0.73 -0.3
211,782 - RS_RS00940 0.73 -0.4
211,782 - RS_RS00940 0.73 -0.7
211,782 - RS_RS00940 0.73 +1.7
211,887 + RS_RS00940 0.87 -0.2
211,888 - RS_RS00940 0.87 +0.4
212,092 - -0.5
212,252 + +0.2
212,252 + +0.0
212,341 + -0.2
212,341 + +0.1
212,420 + RS_RS00945 0.12 -1.7
212,420 + RS_RS00945 0.12 -0.5
212,421 - RS_RS00945 0.12 +0.1
212,452 + RS_RS00945 0.14 +0.7
212,453 - RS_RS00945 0.15 -0.3
212,471 + RS_RS00945 0.16 +0.4
212,472 - RS_RS00945 0.16 -1.6
212,499 + RS_RS00945 0.18 -0.3
212,500 - RS_RS00945 0.18 +1.3
212,500 - RS_RS00945 0.18 +0.0
212,652 - RS_RS00945 0.29 -0.3
213,071 + RS_RS00945 0.59 -0.1
213,071 + RS_RS00945 0.59 +1.6
213,072 - RS_RS00945 0.59 -0.2
213,072 - RS_RS00945 0.59 -0.6
213,423 - RS_RS00945 0.85 +0.2
213,689 - -0.0
213,747 + RS_RS00950 0.18 +0.0
213,837 + RS_RS00950 0.32 -0.3
213,838 - RS_RS00950 0.32 -1.6
213,838 - RS_RS00950 0.32 +0.4
213,838 - RS_RS00950 0.32 +0.8
213,896 + RS_RS00950 0.41 +0.8
213,897 - RS_RS00950 0.41 -0.2
213,897 - RS_RS00950 0.41 +0.2
213,933 - RS_RS00950 0.46 +0.1
213,933 - RS_RS00950 0.46 -0.1
213,998 - RS_RS00950 0.56 +0.3
213,998 - RS_RS00950 0.56 +0.3
214,001 + RS_RS00950 0.57 -1.0
214,001 + RS_RS00950 0.57 -0.6
214,001 + RS_RS00950 0.57 +0.2
214,001 + RS_RS00950 0.57 +2.9
214,002 - RS_RS00950 0.57 -0.1
214,002 - RS_RS00950 0.57 -0.4
214,002 - RS_RS00950 0.57 -0.9
214,002 - RS_RS00950 0.57 -0.1
214,002 - RS_RS00950 0.57 +0.2
214,002 - RS_RS00950 0.57 +0.4
214,101 - RS_RS00950 0.72 +0.8
214,171 + RS_RS00950 0.83 -1.6
214,171 + RS_RS00950 0.83 -0.4
214,178 + RS_RS00950 0.84 +0.1
214,178 + RS_RS00950 0.84 +1.4
214,213 + RS_RS00950 0.90 -0.2
214,236 - -0.0
214,351 + -0.1
214,352 - -0.1
214,352 - +1.4
214,381 + -0.1
214,589 - RS_RS00955 0.42 +0.8

Or see this region's nucleotide sequence