Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_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_RS04445 and RALBFv3_RS04450 are separated by 48 nucleotides RALBFv3_RS04450 and RALBFv3_RS04455 overlap by 4 nucleotides RALBFv3_RS04455 and RALBFv3_RS04460 overlap by 4 nucleotides
RALBFv3_RS04445: RALBFv3_RS04445 - cobyric acid synthase, at 999,815 to 1,001,302
_RS04445
RALBFv3_RS04450: RALBFv3_RS04450 - bifunctional adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase, at 1,001,351 to 1,001,932
_RS04450
RALBFv3_RS04455: RALBFv3_RS04455 - cobalamin biosynthesis protein, at 1,001,929 to 1,002,924
_RS04455
RALBFv3_RS04460: RALBFv3_RS04460 - threonine-phosphate decarboxylase, at 1,002,921 to 1,003,973
_RS04460
Position (kb) 1001
1002 Strain fitness (log2 ratio) -1
0
1
2 at 1000.599 kb on + strand, within RALBFv3_RS04445 at 1000.600 kb on - strand, within RALBFv3_RS04445 at 1000.900 kb on - strand, within RALBFv3_RS04445 at 1000.900 kb on - strand, within RALBFv3_RS04445 at 1000.900 kb on - strand, within RALBFv3_RS04445 at 1000.956 kb on + strand, within RALBFv3_RS04445 at 1000.957 kb on - strand, within RALBFv3_RS04445 at 1000.957 kb on - strand, within RALBFv3_RS04445 at 1000.965 kb on + strand, within RALBFv3_RS04445 at 1001.193 kb on + strand at 1001.447 kb on + strand, within RALBFv3_RS04450 at 1001.447 kb on + strand, within RALBFv3_RS04450 at 1001.807 kb on + strand, within RALBFv3_RS04450 at 1001.807 kb on + strand, within RALBFv3_RS04450 at 1001.808 kb on - strand, within RALBFv3_RS04450 at 1002.616 kb on + strand, within RALBFv3_RS04455 at 1002.617 kb on - strand, within RALBFv3_RS04455 at 1002.617 kb on - strand, within RALBFv3_RS04455 at 1002.921 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet remove 1,000,599 + RALBFv3_RS04445 0.53 -1.0 1,000,600 - RALBFv3_RS04445 0.53 +1.6 1,000,900 - RALBFv3_RS04445 0.73 -0.4 1,000,900 - RALBFv3_RS04445 0.73 +0.3 1,000,900 - RALBFv3_RS04445 0.73 +0.0 1,000,956 + RALBFv3_RS04445 0.77 -0.1 1,000,957 - RALBFv3_RS04445 0.77 -0.5 1,000,957 - RALBFv3_RS04445 0.77 +0.1 1,000,965 + RALBFv3_RS04445 0.77 +2.0 1,001,193 + -0.5 1,001,447 + RALBFv3_RS04450 0.16 -1.0 1,001,447 + RALBFv3_RS04450 0.16 -0.2 1,001,807 + RALBFv3_RS04450 0.78 -0.5 1,001,807 + RALBFv3_RS04450 0.78 -0.1 1,001,808 - RALBFv3_RS04450 0.79 +0.6 1,002,616 + RALBFv3_RS04455 0.69 -0.3 1,002,617 - RALBFv3_RS04455 0.69 -0.2 1,002,617 - RALBFv3_RS04455 0.69 -0.1 1,002,921 - -1.3
Or see this region's nucleotide sequence