Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Triphenyltetrazoliumchloride
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_RS08875 and RALBFv3_RS08880 are separated by 107 nucleotides RALBFv3_RS08880 and RALBFv3_RS08885 overlap by 4 nucleotides RALBFv3_RS08885 and RALBFv3_RS08890 are separated by 9 nucleotides
RALBFv3_RS08875: RALBFv3_RS08875 - short chain dehydrogenase, at 1,962,516 to 1,963,121
_RS08875
RALBFv3_RS08880: RALBFv3_RS08880 - LysR family transcriptional regulator, at 1,963,229 to 1,964,122
_RS08880
RALBFv3_RS08885: RALBFv3_RS08885 - hypothetical protein, at 1,964,119 to 1,964,334
_RS08885
RALBFv3_RS08890: RALBFv3_RS08890 - LysR family transcriptional regulator, at 1,964,344 to 1,965,240
_RS08890
Position (kb) 1964
1965 Strain fitness (log2 ratio) -2
-1
0
1 at 1963.334 kb on + strand, within RALBFv3_RS08880 at 1963.424 kb on + strand, within RALBFv3_RS08880 at 1963.425 kb on - strand, within RALBFv3_RS08880 at 1963.425 kb on - strand, within RALBFv3_RS08880 at 1963.456 kb on - strand, within RALBFv3_RS08880 at 1963.456 kb on - strand, within RALBFv3_RS08880 at 1964.039 kb on + strand at 1964.173 kb on + strand, within RALBFv3_RS08885 at 1964.173 kb on + strand, within RALBFv3_RS08885 at 1964.209 kb on + strand, within RALBFv3_RS08885 at 1964.209 kb on + strand, within RALBFv3_RS08885 at 1964.360 kb on + strand at 1964.361 kb on - strand at 1964.361 kb on - strand at 1964.655 kb on - strand, within RALBFv3_RS08890 at 1964.877 kb on - strand, within RALBFv3_RS08890 at 1965.026 kb on + strand, within RALBFv3_RS08890 at 1965.072 kb on - strand, within RALBFv3_RS08890 at 1965.210 kb on - strand at 1965.241 kb on - strand at 1965.251 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Triphenyltetrazoliumchloride remove 1,963,334 + RALBFv3_RS08880 0.12 +1.0 1,963,424 + RALBFv3_RS08880 0.22 -0.2 1,963,425 - RALBFv3_RS08880 0.22 -2.0 1,963,425 - RALBFv3_RS08880 0.22 +0.0 1,963,456 - RALBFv3_RS08880 0.25 +0.1 1,963,456 - RALBFv3_RS08880 0.25 -0.2 1,964,039 + -0.5 1,964,173 + RALBFv3_RS08885 0.25 -0.8 1,964,173 + RALBFv3_RS08885 0.25 -1.1 1,964,209 + RALBFv3_RS08885 0.42 -0.5 1,964,209 + RALBFv3_RS08885 0.42 -0.5 1,964,360 + +1.0 1,964,361 - -0.1 1,964,361 - -1.0 1,964,655 - RALBFv3_RS08890 0.35 -0.1 1,964,877 - RALBFv3_RS08890 0.59 -0.6 1,965,026 + RALBFv3_RS08890 0.76 -0.0 1,965,072 - RALBFv3_RS08890 0.81 +0.0 1,965,210 - -1.0 1,965,241 - +1.0 1,965,251 - -0.1
Or see this region's nucleotide sequence