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 RS_RS04310 and RS_RS04315 overlap by 4 nucleotides RS_RS04315 and RS_RS04320 overlap by 26 nucleotides RS_RS04320 and RS_RS04325 are separated by 42 nucleotides RS_RS04325 and RS_RS04330 are separated by 185 nucleotides
RS_RS04310: RS_RS04310 - hypothetical protein, at 899,447 to 899,836
_RS04310
RS_RS04315: RS_RS04315 - hypothetical protein, at 899,833 to 900,054
_RS04315
RS_RS04320: RS_RS04320 - hypothetical protein, at 900,029 to 900,673
_RS04320
RS_RS04325: RS_RS04325 - DNA-binding protein, at 900,716 to 901,006
_RS04325
RS_RS04330: RS_RS04330 - type III secretion system YopJ family effector PopP2, at 901,192 to 902,658
_RS04330
Position (kb) 900
901
902 Strain fitness (log2 ratio) -1
0
1
2
3 at 899.872 kb on + strand, within RS_RS04315 at 900.269 kb on + strand, within RS_RS04320 at 900.269 kb on + strand, within RS_RS04320 at 900.269 kb on + strand, within RS_RS04320 at 900.270 kb on - strand, within RS_RS04320 at 900.270 kb on - strand, within RS_RS04320 at 900.270 kb on - strand, within RS_RS04320 at 900.270 kb on - strand, within RS_RS04320 at 900.270 kb on - strand, within RS_RS04320 at 900.729 kb on + strand at 900.730 kb on - strand at 900.730 kb on - strand at 900.730 kb on - strand at 900.807 kb on + strand, within RS_RS04325 at 900.807 kb on + strand, within RS_RS04325 at 900.807 kb on + strand, within RS_RS04325 at 900.808 kb on - strand, within RS_RS04325 at 900.889 kb on - strand, within RS_RS04325 at 900.996 kb on + strand at 900.997 kb on - strand at 901.067 kb on - strand at 901.233 kb on + strand at 901.269 kb on - strand at 901.447 kb on + strand, within RS_RS04330 at 901.447 kb on + strand, within RS_RS04330 at 901.448 kb on - strand, within RS_RS04330 at 901.448 kb on - strand, within RS_RS04330 at 901.479 kb on - strand, within RS_RS04330 at 901.518 kb on + strand, within RS_RS04330 at 901.519 kb on - strand, within RS_RS04330 at 901.519 kb on - strand, within RS_RS04330 at 901.864 kb on - strand, within RS_RS04330 at 901.999 kb on - strand, within RS_RS04330 at 901.999 kb on - strand, within RS_RS04330 at 902.004 kb on + strand, within RS_RS04330 at 902.005 kb on - strand, within RS_RS04330
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol_and_CrystalViolet remove 899,872 + RS_RS04315 0.18 +1.6 900,269 + RS_RS04320 0.37 -0.6 900,269 + RS_RS04320 0.37 +1.6 900,269 + RS_RS04320 0.37 -0.6 900,270 - RS_RS04320 0.37 -0.1 900,270 - RS_RS04320 0.37 +0.0 900,270 - RS_RS04320 0.37 +0.6 900,270 - RS_RS04320 0.37 -1.7 900,270 - RS_RS04320 0.37 -0.7 900,729 + +0.0 900,730 - -0.6 900,730 - +2.2 900,730 - -0.0 900,807 + RS_RS04325 0.31 -1.0 900,807 + RS_RS04325 0.31 -1.2 900,807 + RS_RS04325 0.31 -0.4 900,808 - RS_RS04325 0.32 -0.4 900,889 - RS_RS04325 0.59 +0.4 900,996 + +1.9 900,997 - -0.8 901,067 - -1.4 901,233 + -0.7 901,269 - +1.6 901,447 + RS_RS04330 0.17 -0.3 901,447 + RS_RS04330 0.17 +0.0 901,448 - RS_RS04330 0.17 +3.6 901,448 - RS_RS04330 0.17 +0.0 901,479 - RS_RS04330 0.20 -1.0 901,518 + RS_RS04330 0.22 -0.8 901,519 - RS_RS04330 0.22 +0.1 901,519 - RS_RS04330 0.22 +1.6 901,864 - RS_RS04330 0.46 +0.2 901,999 - RS_RS04330 0.55 +0.3 901,999 - RS_RS04330 0.55 -0.1 902,004 + RS_RS04330 0.55 +1.6 902,005 - RS_RS04330 0.55 +0.4
Or see this region's nucleotide sequence