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_RS00470 and RALBFv3_RS00475 are separated by 200 nucleotides RALBFv3_RS00475 and RALBFv3_RS00480 are separated by 147 nucleotides RALBFv3_RS00480 and RALBFv3_RS00485 are separated by 24 nucleotides
RALBFv3_RS00470: RALBFv3_RS00470 - kinase/pyrophosphorylase, at 109,372 to 110,211
_RS00470
RALBFv3_RS00475: RALBFv3_RS00475 - phosphoenolpyruvate synthase, at 110,412 to 112,799
_RS00475
RALBFv3_RS00480: RALBFv3_RS00480 - NfeD family protein, at 112,947 to 113,375
_RS00480
RALBFv3_RS00485: RALBFv3_RS00485 - SPFH/Band 7/PHB domain protein, at 113,400 to 114,326
_RS00485
Position (kb) 110
111
112
113 Strain fitness (log2 ratio) -1
0
1 at 109.830 kb on - strand, within RALBFv3_RS00470 at 110.265 kb on - strand at 110.265 kb on - strand at 110.397 kb on + strand at 110.398 kb on - strand at 110.398 kb on - strand at 110.400 kb on + strand at 110.400 kb on + strand at 111.174 kb on + strand, within RALBFv3_RS00475 at 111.351 kb on + strand, within RALBFv3_RS00475 at 112.666 kb on - strand at 113.022 kb on + strand, within RALBFv3_RS00480 at 113.400 kb on - strand at 113.547 kb on - strand, within RALBFv3_RS00485 at 113.577 kb on + strand, within RALBFv3_RS00485 at 113.579 kb on + strand, within RALBFv3_RS00485 at 113.579 kb on + strand, within RALBFv3_RS00485 at 113.579 kb on + strand, within RALBFv3_RS00485
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet remove 109,830 - RALBFv3_RS00470 0.55 -0.8 110,265 - -1.1 110,265 - +0.2 110,397 + -0.0 110,398 - -0.4 110,398 - -0.6 110,400 + -0.1 110,400 + +0.0 111,174 + RALBFv3_RS00475 0.32 +0.9 111,351 + RALBFv3_RS00475 0.39 +0.9 112,666 - -0.5 113,022 + RALBFv3_RS00480 0.17 +0.9 113,400 - -0.5 113,547 - RALBFv3_RS00485 0.16 -0.3 113,577 + RALBFv3_RS00485 0.19 -1.0 113,579 + RALBFv3_RS00485 0.19 -0.2 113,579 + RALBFv3_RS00485 0.19 -0.7 113,579 + RALBFv3_RS00485 0.19 -0.6
Or see this region's nucleotide sequence