Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol
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_RS06870 and RALBFv3_RS06875 are separated by 234 nucleotides RALBFv3_RS06875 and RALBFv3_RS06880 are separated by 65 nucleotides RALBFv3_RS06880 and RALBFv3_RS06885 are separated by 154 nucleotides RALBFv3_RS06885 and RALBFv3_RS06890 are separated by 3 nucleotides
RALBFv3_RS06870: RALBFv3_RS06870 - ABC transporter ATP-binding protein, at 1,522,956 to 1,523,912
_RS06870
RALBFv3_RS06875: RALBFv3_RS06875 - STAS domain-containing protein, at 1,524,147 to 1,524,461
_RS06875
RALBFv3_RS06880: RALBFv3_RS06880 - hypothetical protein, at 1,524,527 to 1,525,162
_RS06880
RALBFv3_RS06885: RALBFv3_RS06885 - ABC transporter, at 1,525,317 to 1,526,126
_RS06885
RALBFv3_RS06890: RALBFv3_RS06890 - outer membrane lipid asymmetry maintenance protein MlaD, at 1,526,130 to 1,526,648
_RS06890
Position (kb) 1524
1525
1526 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1 at 1523.921 kb on - strand at 1524.214 kb on + strand, within RALBFv3_RS06875 at 1524.214 kb on + strand, within RALBFv3_RS06875 at 1524.634 kb on - strand, within RALBFv3_RS06880 at 1524.997 kb on + strand, within RALBFv3_RS06880 at 1525.163 kb on - strand at 1525.275 kb on - strand at 1525.305 kb on - strand at 1525.484 kb on - strand, within RALBFv3_RS06885 at 1525.484 kb on - strand, within RALBFv3_RS06885 at 1525.594 kb on + strand, within RALBFv3_RS06885 at 1525.678 kb on + strand, within RALBFv3_RS06885 at 1525.678 kb on + strand, within RALBFv3_RS06885 at 1525.933 kb on + strand, within RALBFv3_RS06885 at 1525.933 kb on + strand, within RALBFv3_RS06885 at 1525.934 kb on - strand, within RALBFv3_RS06885 at 1526.131 kb on + strand at 1526.131 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol remove 1,523,921 - -1.0 1,524,214 + RALBFv3_RS06875 0.21 -1.9 1,524,214 + RALBFv3_RS06875 0.21 -2.0 1,524,634 - RALBFv3_RS06880 0.17 -0.8 1,524,997 + RALBFv3_RS06880 0.74 -1.1 1,525,163 - +0.2 1,525,275 - -0.1 1,525,305 - -0.1 1,525,484 - RALBFv3_RS06885 0.21 -4.1 1,525,484 - RALBFv3_RS06885 0.21 +0.2 1,525,594 + RALBFv3_RS06885 0.34 -1.8 1,525,678 + RALBFv3_RS06885 0.45 -2.3 1,525,678 + RALBFv3_RS06885 0.45 -2.9 1,525,933 + RALBFv3_RS06885 0.76 -2.0 1,525,933 + RALBFv3_RS06885 0.76 -0.4 1,525,934 - RALBFv3_RS06885 0.76 -3.7 1,526,131 + -1.4 1,526,131 + -1.6
Or see this region's nucleotide sequence