Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_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 RS_RS04330 and RS_RS25365 are separated by 610 nucleotides RS_RS25365 and RS_RS04340 are separated by 71 nucleotides RS_RS04340 and RS_RS04345 overlap by 4 nucleotides RS_RS04345 and RS_RS04350 are separated by 79 nucleotides
RS_RS04330: RS_RS04330 - type III secretion system YopJ family effector PopP2, at 901,192 to 902,658
_RS04330
RS_RS25365: RS_RS25365 - DNA cytosine methyltransferase, at 903,269 to 904,396
_RS25365
RS_RS04340: RS_RS04340 - PIN domain-containing protein, at 904,468 to 904,881
_RS04340
RS_RS04345: RS_RS04345 - type II toxin-antitoxin system Phd/YefM family antitoxin, at 904,878 to 905,129
_RS04345
RS_RS04350: RS_RS04350 - membrane protein, at 905,209 to 909,309
_RS04350
Position (kb) 903
904
905 Strain fitness (log2 ratio) -1
0
1
2 at 902.342 kb on + strand, within RS_RS04330 at 902.343 kb on - strand, within RS_RS04330 at 902.404 kb on + strand, within RS_RS04330 at 902.404 kb on + strand, within RS_RS04330 at 902.428 kb on - strand, within RS_RS04330 at 902.605 kb on - strand at 902.659 kb on - strand at 902.681 kb on - strand at 902.687 kb on + strand at 902.728 kb on + strand at 902.728 kb on + strand at 902.728 kb on + strand at 902.728 kb on + strand at 902.729 kb on - strand at 902.753 kb on + strand at 902.753 kb on + strand at 902.813 kb on - strand at 902.813 kb on - strand at 902.861 kb on + strand at 903.082 kb on - strand at 903.171 kb on + strand at 903.196 kb on + strand at 903.197 kb on - strand at 903.197 kb on - strand at 903.197 kb on - strand at 903.197 kb on - strand at 903.197 kb on - strand at 903.260 kb on - strand at 903.281 kb on + strand at 903.282 kb on - strand at 903.282 kb on - strand at 903.282 kb on - strand at 903.299 kb on + strand at 903.358 kb on - strand at 903.792 kb on - strand, within RS_RS25365 at 904.380 kb on + strand at 904.381 kb on - strand at 904.635 kb on + strand, within RS_RS04340 at 904.635 kb on + strand, within RS_RS04340 at 904.635 kb on + strand, within RS_RS04340 at 904.635 kb on + strand, within RS_RS04340 at 904.635 kb on + strand, within RS_RS04340 at 904.636 kb on - strand, within RS_RS04340 at 904.636 kb on - strand, within RS_RS04340 at 904.670 kb on + strand, within RS_RS04340 at 904.671 kb on - strand, within RS_RS04340 at 904.671 kb on - strand, within RS_RS04340 at 904.717 kb on + strand, within RS_RS04340 at 904.778 kb on + strand, within RS_RS04340 at 904.778 kb on + strand, within RS_RS04340 at 904.779 kb on - strand, within RS_RS04340 at 904.875 kb on - strand at 905.160 kb on - strand at 905.190 kb on - strand at 905.192 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol remove 902,342 + RS_RS04330 0.78 +0.2 902,343 - RS_RS04330 0.78 -0.1 902,404 + RS_RS04330 0.83 +0.1 902,404 + RS_RS04330 0.83 -0.4 902,428 - RS_RS04330 0.84 -0.2 902,605 - -0.7 902,659 - +0.0 902,681 - -1.0 902,687 + -0.6 902,728 + -0.3 902,728 + +0.6 902,728 + -0.0 902,728 + -0.6 902,729 - -0.5 902,753 + -0.6 902,753 + +0.1 902,813 - -0.5 902,813 - -1.0 902,861 + +0.1 903,082 - +0.4 903,171 + +0.1 903,196 + -0.3 903,197 - +0.2 903,197 - -1.0 903,197 - +0.2 903,197 - +2.4 903,197 - -0.2 903,260 - +0.2 903,281 + -0.1 903,282 - -1.3 903,282 - +0.2 903,282 - +1.4 903,299 + +0.4 903,358 - -0.2 903,792 - RS_RS25365 0.46 -0.1 904,380 + +0.2 904,381 - -0.4 904,635 + RS_RS04340 0.40 +0.7 904,635 + RS_RS04340 0.40 +0.8 904,635 + RS_RS04340 0.40 +0.4 904,635 + RS_RS04340 0.40 +0.7 904,635 + RS_RS04340 0.40 +0.4 904,636 - RS_RS04340 0.41 -0.1 904,636 - RS_RS04340 0.41 +1.1 904,670 + RS_RS04340 0.49 +0.0 904,671 - RS_RS04340 0.49 +0.3 904,671 - RS_RS04340 0.49 +0.3 904,717 + RS_RS04340 0.60 +0.3 904,778 + RS_RS04340 0.75 -0.6 904,778 + RS_RS04340 0.75 +0.4 904,779 - RS_RS04340 0.75 +1.4 904,875 - +1.4 905,160 - -0.7 905,190 - -0.4 905,192 - -0.4
Or see this region's nucleotide sequence