Experiment: SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet
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_RS05825 and RALBFv3_RS05830 are separated by 81 nucleotides RALBFv3_RS05830 and RALBFv3_RS05835 are separated by 24 nucleotides RALBFv3_RS05835 and RALBFv3_RS05840 are separated by 39 nucleotides
RALBFv3_RS05825: RALBFv3_RS05825 - glutamate-5-semialdehyde dehydrogenase, at 1,296,475 to 1,297,755
_RS05825
RALBFv3_RS05830: RALBFv3_RS05830 - DNA polymerase III subunit delta, at 1,297,837 to 1,298,913
_RS05830
RALBFv3_RS05835: RALBFv3_RS05835 - hypothetical protein, at 1,298,938 to 1,299,447
_RS05835
RALBFv3_RS05840: RALBFv3_RS05840 - leucine--tRNA ligase, at 1,299,487 to 1,302,120
_RS05840
Position (kb) 1297
1298
1299 Strain fitness (log2 ratio) -1
0
1 at 1296.902 kb on + strand, within RALBFv3_RS05825 at 1296.902 kb on + strand, within RALBFv3_RS05825 at 1297.049 kb on + strand, within RALBFv3_RS05825 at 1297.049 kb on + strand, within RALBFv3_RS05825 at 1297.049 kb on + strand, within RALBFv3_RS05825 at 1297.050 kb on - strand, within RALBFv3_RS05825 at 1297.050 kb on - strand, within RALBFv3_RS05825 at 1297.731 kb on - strand at 1297.731 kb on - strand at 1297.731 kb on - strand at 1297.838 kb on + strand at 1297.839 kb on - strand at 1297.840 kb on + strand at 1297.841 kb on - strand at 1298.940 kb on - strand at 1299.057 kb on - strand at 1299.141 kb on - strand, within RALBFv3_RS05835
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet remove 1,296,902 + RALBFv3_RS05825 0.33 +0.7 1,296,902 + RALBFv3_RS05825 0.33 +0.3 1,297,049 + RALBFv3_RS05825 0.45 -0.4 1,297,049 + RALBFv3_RS05825 0.45 +1.1 1,297,049 + RALBFv3_RS05825 0.45 +0.7 1,297,050 - RALBFv3_RS05825 0.45 +0.2 1,297,050 - RALBFv3_RS05825 0.45 +0.1 1,297,731 - -0.8 1,297,731 - -0.5 1,297,731 - -0.5 1,297,838 + +1.2 1,297,839 - -0.2 1,297,840 + +1.0 1,297,841 - +0.4 1,298,940 - -0.1 1,299,057 - +0.8 1,299,141 - RALBFv3_RS05835 0.40 -0.2
Or see this region's nucleotide sequence