Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_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_RS03125 and RALBFv3_RS03130 are separated by 142 nucleotides RALBFv3_RS03130 and RALBFv3_RS03135 are separated by 20 nucleotides RALBFv3_RS03135 and RALBFv3_RS03140 are separated by 217 nucleotides
RALBFv3_RS03125: RALBFv3_RS03125 - hypothetical protein, at 683,816 to 684,916
_RS03125
RALBFv3_RS03130: RALBFv3_RS03130 - tungsten ABC transporter substrate-binding protein, at 685,059 to 685,895
_RS03130
RALBFv3_RS03135: RALBFv3_RS03135 - LysR family transcriptional regulator, at 685,916 to 686,860
_RS03135
RALBFv3_RS03140: RALBFv3_RS03140 - xanthine dehydrogenase small subunit, at 687,078 to 688,613
_RS03140
Position (kb) 685
686
687 Strain fitness (log2 ratio) -1
0
1 at 684.939 kb on + strand at 684.940 kb on - strand at 684.978 kb on + strand at 685.026 kb on - strand at 685.026 kb on - strand at 685.026 kb on - strand at 685.089 kb on + strand at 685.089 kb on + strand at 685.089 kb on + strand at 685.090 kb on - strand at 685.171 kb on - strand, within RALBFv3_RS03130 at 685.371 kb on + strand, within RALBFv3_RS03130 at 685.371 kb on + strand, within RALBFv3_RS03130 at 685.372 kb on - strand, within RALBFv3_RS03130 at 685.372 kb on - strand, within RALBFv3_RS03130 at 685.372 kb on - strand, within RALBFv3_RS03130 at 685.556 kb on + strand, within RALBFv3_RS03130 at 685.567 kb on - strand, within RALBFv3_RS03130 at 685.626 kb on + strand, within RALBFv3_RS03130 at 685.627 kb on - strand, within RALBFv3_RS03130 at 685.652 kb on - strand, within RALBFv3_RS03130 at 685.764 kb on + strand, within RALBFv3_RS03130 at 685.764 kb on + strand, within RALBFv3_RS03130 at 685.764 kb on + strand, within RALBFv3_RS03130 at 685.765 kb on - strand, within RALBFv3_RS03130 at 685.765 kb on - strand, within RALBFv3_RS03130 at 685.866 kb on + strand at 685.893 kb on + strand at 685.894 kb on - strand at 685.918 kb on - strand at 686.031 kb on + strand, within RALBFv3_RS03135 at 686.085 kb on + strand, within RALBFv3_RS03135 at 686.085 kb on + strand, within RALBFv3_RS03135 at 686.085 kb on + strand, within RALBFv3_RS03135 at 686.085 kb on + strand, within RALBFv3_RS03135 at 686.086 kb on - strand, within RALBFv3_RS03135 at 686.250 kb on + strand, within RALBFv3_RS03135 at 686.250 kb on + strand, within RALBFv3_RS03135 at 686.251 kb on - strand, within RALBFv3_RS03135 at 686.252 kb on - strand, within RALBFv3_RS03135 at 686.283 kb on + strand, within RALBFv3_RS03135 at 686.815 kb on - strand at 686.832 kb on + strand at 686.832 kb on + strand at 686.833 kb on - strand at 686.833 kb on - strand at 686.926 kb on - strand at 686.926 kb on - strand at 686.926 kb on - strand at 686.926 kb on - strand at 687.038 kb on - strand at 687.048 kb on + strand at 687.162 kb on + strand at 687.163 kb on - strand at 687.456 kb on + strand, within RALBFv3_RS03140 at 687.585 kb on + strand, within RALBFv3_RS03140 at 687.585 kb on + strand, within RALBFv3_RS03140 at 687.586 kb on - strand, within RALBFv3_RS03140 at 687.586 kb on - strand, within RALBFv3_RS03140 at 687.670 kb on - strand, within RALBFv3_RS03140 at 687.705 kb on + strand, within RALBFv3_RS03140 at 687.834 kb on + strand, within RALBFv3_RS03140 at 687.835 kb on - strand, within RALBFv3_RS03140 at 687.835 kb on - strand, within RALBFv3_RS03140 at 687.859 kb on - strand, within RALBFv3_RS03140
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol_and_CrystalViolet remove 684,939 + -0.3 684,940 - +0.8 684,978 + -0.8 685,026 - +0.2 685,026 - +0.5 685,026 - +0.2 685,089 + -1.1 685,089 + -0.3 685,089 + +0.3 685,090 - -0.2 685,171 - RALBFv3_RS03130 0.13 +0.4 685,371 + RALBFv3_RS03130 0.37 +1.4 685,371 + RALBFv3_RS03130 0.37 -0.8 685,372 - RALBFv3_RS03130 0.37 -0.0 685,372 - RALBFv3_RS03130 0.37 +0.1 685,372 - RALBFv3_RS03130 0.37 +0.0 685,556 + RALBFv3_RS03130 0.59 -0.2 685,567 - RALBFv3_RS03130 0.61 +0.6 685,626 + RALBFv3_RS03130 0.68 -0.4 685,627 - RALBFv3_RS03130 0.68 -0.3 685,652 - RALBFv3_RS03130 0.71 -0.3 685,764 + RALBFv3_RS03130 0.84 -0.2 685,764 + RALBFv3_RS03130 0.84 +0.6 685,764 + RALBFv3_RS03130 0.84 +0.5 685,765 - RALBFv3_RS03130 0.84 -0.2 685,765 - RALBFv3_RS03130 0.84 +1.1 685,866 + -0.7 685,893 + -0.0 685,894 - +1.4 685,918 - +0.1 686,031 + RALBFv3_RS03135 0.12 +0.8 686,085 + RALBFv3_RS03135 0.18 +0.1 686,085 + RALBFv3_RS03135 0.18 +1.4 686,085 + RALBFv3_RS03135 0.18 +0.8 686,085 + RALBFv3_RS03135 0.18 +0.2 686,086 - RALBFv3_RS03135 0.18 -0.3 686,250 + RALBFv3_RS03135 0.35 +0.1 686,250 + RALBFv3_RS03135 0.35 -0.7 686,251 - RALBFv3_RS03135 0.35 -0.2 686,252 - RALBFv3_RS03135 0.36 +0.7 686,283 + RALBFv3_RS03135 0.39 +0.1 686,815 - -1.6 686,832 + +1.4 686,832 + +0.4 686,833 - -0.1 686,833 - -0.5 686,926 - -1.0 686,926 - -0.2 686,926 - -0.3 686,926 - +0.8 687,038 - -1.2 687,048 + -0.4 687,162 + -0.3 687,163 - +0.5 687,456 + RALBFv3_RS03140 0.25 -1.2 687,585 + RALBFv3_RS03140 0.33 -0.0 687,585 + RALBFv3_RS03140 0.33 +0.3 687,586 - RALBFv3_RS03140 0.33 -0.7 687,586 - RALBFv3_RS03140 0.33 +0.9 687,670 - RALBFv3_RS03140 0.39 -0.1 687,705 + RALBFv3_RS03140 0.41 +0.3 687,834 + RALBFv3_RS03140 0.49 -0.5 687,835 - RALBFv3_RS03140 0.49 -1.3 687,835 - RALBFv3_RS03140 0.49 -0.9 687,859 - RALBFv3_RS03140 0.51 +0.2
Or see this region's nucleotide sequence