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 RALBFv3_RS19945 and RALBFv3_RS19950 are separated by 234 nucleotides RALBFv3_RS19950 and RALBFv3_RS24475 are separated by 34 nucleotides RALBFv3_RS24475 and RALBFv3_RS24480 are separated by 56 nucleotides RALBFv3_RS24480 and RALBFv3_RS19955 are separated by 226 nucleotides
RALBFv3_RS19945: RALBFv3_RS19945 - hypothetical protein, at 1,162,813 to 1,163,322
_RS19945
RALBFv3_RS19950: RALBFv3_RS19950 - hypothetical protein, at 1,163,557 to 1,163,878
_RS19950
RALBFv3_RS24475: RALBFv3_RS24475 - hypothetical protein, at 1,163,913 to 1,164,194
_RS24475
RALBFv3_RS24480: RALBFv3_RS24480 - hypothetical protein, at 1,164,251 to 1,164,619
_RS24480
RALBFv3_RS19955: RALBFv3_RS19955 - type VI secretion protein, at 1,164,846 to 1,167,626
_RS19955
Position (kb) 1164
1165 Strain fitness (log2 ratio) -2
-1
0
1 at 1163.670 kb on + strand, within RALBFv3_RS19950 at 1163.774 kb on - strand, within RALBFv3_RS19950 at 1163.915 kb on - strand at 1164.156 kb on + strand, within RALBFv3_RS24475 at 1164.157 kb on - strand, within RALBFv3_RS24475 at 1164.157 kb on - strand, within RALBFv3_RS24475 at 1164.157 kb on - strand, within RALBFv3_RS24475 at 1164.205 kb on + strand at 1164.205 kb on + strand at 1164.209 kb on + strand at 1164.209 kb on + strand at 1164.209 kb on + strand at 1164.210 kb on - strand at 1164.210 kb on - strand at 1164.210 kb on - strand at 1164.213 kb on + strand at 1164.224 kb on - strand at 1164.463 kb on - strand, within RALBFv3_RS24480 at 1164.682 kb on + strand at 1164.683 kb on - strand at 1164.877 kb on + strand at 1164.877 kb on + strand at 1164.877 kb on + strand at 1164.877 kb on + strand at 1164.878 kb on - strand at 1164.878 kb on - strand at 1164.878 kb on - strand at 1164.878 kb on - strand at 1164.881 kb on + strand at 1164.881 kb on + strand at 1164.881 kb on + strand at 1164.881 kb on + strand at 1164.882 kb on - strand at 1164.905 kb on + strand at 1164.906 kb on - strand at 1165.568 kb on + strand, within RALBFv3_RS19955 at 1165.568 kb on + strand, within RALBFv3_RS19955 at 1165.568 kb on + strand, within RALBFv3_RS19955 at 1165.568 kb on + strand, within RALBFv3_RS19955 at 1165.568 kb on + strand, within RALBFv3_RS19955
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 1,163,670 + RALBFv3_RS19950 0.35 -0.5 1,163,774 - RALBFv3_RS19950 0.67 +0.2 1,163,915 - -0.5 1,164,156 + RALBFv3_RS24475 0.86 -0.2 1,164,157 - RALBFv3_RS24475 0.87 -0.7 1,164,157 - RALBFv3_RS24475 0.87 -0.8 1,164,157 - RALBFv3_RS24475 0.87 +0.8 1,164,205 + +0.2 1,164,205 + -0.0 1,164,209 + -1.3 1,164,209 + +0.0 1,164,209 + +1.1 1,164,210 - +0.0 1,164,210 - +0.1 1,164,210 - +0.5 1,164,213 + -0.5 1,164,224 - +0.1 1,164,463 - RALBFv3_RS24480 0.57 -0.1 1,164,682 + +1.4 1,164,683 - -0.4 1,164,877 + +0.0 1,164,877 + +0.1 1,164,877 + -0.0 1,164,877 + -0.1 1,164,878 - -0.0 1,164,878 - -0.5 1,164,878 - -1.4 1,164,878 - +1.1 1,164,881 + +0.3 1,164,881 + -1.9 1,164,881 + -0.5 1,164,881 + -1.9 1,164,882 - -0.2 1,164,905 + +0.4 1,164,906 - -0.2 1,165,568 + RALBFv3_RS19955 0.26 +0.0 1,165,568 + RALBFv3_RS19955 0.26 +0.2 1,165,568 + RALBFv3_RS19955 0.26 +0.1 1,165,568 + RALBFv3_RS19955 0.26 +0.5 1,165,568 + RALBFv3_RS19955 0.26 -0.1
Or see this region's nucleotide sequence