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 RPSI07_RS22300 and RPSI07_RS22305 are separated by 208 nucleotides RPSI07_RS22305 and RPSI07_RS22310 are separated by 63 nucleotides RPSI07_RS22310 and RPSI07_RS22315 are separated by 70 nucleotides
RPSI07_RS22300: RPSI07_RS22300 - GGDEF domain-containing protein, at 3,165,897 to 3,168,821
_RS22300
RPSI07_RS22305: RPSI07_RS22305 - RNA polymerase sigma factor RpoH, at 3,169,030 to 3,169,950
_RS22305
RPSI07_RS22310: RPSI07_RS22310 - SCO family protein, at 3,170,014 to 3,170,616
_RS22310
RPSI07_RS22315: RPSI07_RS22315 - protoheme IX farnesyltransferase, at 3,170,687 to 3,171,619
_RS22315
Position (kb)
3169
3170 Strain fitness (log2 ratio)
-3
-2
-1
0
1
2
3 at 3168.102 kb on + strand, within RPSI07_RS22300 at 3168.102 kb on + strand, within RPSI07_RS22300 at 3168.102 kb on + strand, within RPSI07_RS22300 at 3168.102 kb on + strand, within RPSI07_RS22300 at 3168.103 kb on - strand, within RPSI07_RS22300 at 3168.103 kb on - strand, within RPSI07_RS22300 at 3168.103 kb on - strand, within RPSI07_RS22300 at 3168.103 kb on - strand, within RPSI07_RS22300 at 3168.103 kb on - strand, within RPSI07_RS22300 at 3168.120 kb on + strand, within RPSI07_RS22300 at 3168.120 kb on + strand, within RPSI07_RS22300 at 3168.121 kb on - strand, within RPSI07_RS22300 at 3168.158 kb on + strand, within RPSI07_RS22300 at 3168.177 kb on + strand, within RPSI07_RS22300 at 3168.220 kb on - strand, within RPSI07_RS22300 at 3168.220 kb on - strand, within RPSI07_RS22300 at 3168.277 kb on - strand, within RPSI07_RS22300 at 3168.373 kb on - strand, within RPSI07_RS22300 at 3168.373 kb on - strand, within RPSI07_RS22300 at 3168.381 kb on + strand, within RPSI07_RS22300 at 3168.382 kb on - strand, within RPSI07_RS22300 at 3168.444 kb on + strand, within RPSI07_RS22300 at 3168.445 kb on - strand, within RPSI07_RS22300 at 3168.445 kb on - strand, within RPSI07_RS22300 at 3168.483 kb on + strand, within RPSI07_RS22300 at 3168.483 kb on + strand, within RPSI07_RS22300 at 3168.483 kb on + strand, within RPSI07_RS22300 at 3168.483 kb on + strand, within RPSI07_RS22300 at 3168.484 kb on - strand, within RPSI07_RS22300 at 3168.784 kb on - strand at 3168.857 kb on + strand at 3168.857 kb on + strand at 3168.858 kb on - strand at 3168.858 kb on - strand at 3168.962 kb on - strand at 3168.984 kb on + strand at 3168.984 kb on + strand at 3168.984 kb on + strand at 3170.108 kb on + strand, within RPSI07_RS22310 at 3170.108 kb on + strand, within RPSI07_RS22310 at 3170.109 kb on - strand, within RPSI07_RS22310 at 3170.135 kb on + strand, within RPSI07_RS22310 at 3170.136 kb on - strand, within RPSI07_RS22310 at 3170.139 kb on + strand, within RPSI07_RS22310 at 3170.168 kb on + strand, within RPSI07_RS22310 at 3170.169 kb on - strand, within RPSI07_RS22310 at 3170.258 kb on + strand, within RPSI07_RS22310 at 3170.258 kb on + strand, within RPSI07_RS22310 at 3170.258 kb on + strand, within RPSI07_RS22310 at 3170.258 kb on + strand, within RPSI07_RS22310 at 3170.259 kb on - strand, within RPSI07_RS22310 at 3170.259 kb on - strand, within RPSI07_RS22310 at 3170.259 kb on - strand, within RPSI07_RS22310 at 3170.281 kb on - strand, within RPSI07_RS22310 at 3170.311 kb on + strand, within RPSI07_RS22310 at 3170.311 kb on + strand, within RPSI07_RS22310 at 3170.311 kb on + strand, within RPSI07_RS22310 at 3170.428 kb on - strand, within RPSI07_RS22310 at 3170.535 kb on + strand, within RPSI07_RS22310 at 3170.649 kb on + strand at 3170.721 kb on + strand at 3170.721 kb on + strand at 3170.722 kb on - strand at 3170.760 kb on + strand at 3170.761 kb on - strand at 3170.815 kb on - strand, within RPSI07_RS22315 at 3170.871 kb on + strand, within RPSI07_RS22315
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol remove 3,168,102 + RPSI07_RS22300 0.75 +1.3 3,168,102 + RPSI07_RS22300 0.75 -0.2 3,168,102 + RPSI07_RS22300 0.75 +3.4 3,168,102 + RPSI07_RS22300 0.75 -0.9 3,168,103 - RPSI07_RS22300 0.75 +0.3 3,168,103 - RPSI07_RS22300 0.75 -1.0 3,168,103 - RPSI07_RS22300 0.75 +1.1 3,168,103 - RPSI07_RS22300 0.75 +0.5 3,168,103 - RPSI07_RS22300 0.75 +1.1 3,168,120 + RPSI07_RS22300 0.76 +0.1 3,168,120 + RPSI07_RS22300 0.76 +0.4 3,168,121 - RPSI07_RS22300 0.76 -0.0 3,168,158 + RPSI07_RS22300 0.77 +0.3 3,168,177 + RPSI07_RS22300 0.78 -0.4 3,168,220 - RPSI07_RS22300 0.79 -0.9 3,168,220 - RPSI07_RS22300 0.79 -0.1 3,168,277 - RPSI07_RS22300 0.81 -0.3 3,168,373 - RPSI07_RS22300 0.85 -0.5 3,168,373 - RPSI07_RS22300 0.85 -1.1 3,168,381 + RPSI07_RS22300 0.85 -0.0 3,168,382 - RPSI07_RS22300 0.85 -0.5 3,168,444 + RPSI07_RS22300 0.87 +1.0 3,168,445 - RPSI07_RS22300 0.87 +0.7 3,168,445 - RPSI07_RS22300 0.87 -0.8 3,168,483 + RPSI07_RS22300 0.88 +1.3 3,168,483 + RPSI07_RS22300 0.88 -0.7 3,168,483 + RPSI07_RS22300 0.88 -1.4 3,168,483 + RPSI07_RS22300 0.88 +2.9 3,168,484 - RPSI07_RS22300 0.88 -0.8 3,168,784 - -3.5 3,168,857 + -0.1 3,168,857 + -0.7 3,168,858 - +0.8 3,168,858 - +0.3 3,168,962 - -1.1 3,168,984 + -0.2 3,168,984 + -1.1 3,168,984 + -0.7 3,170,108 + RPSI07_RS22310 0.16 -0.7 3,170,108 + RPSI07_RS22310 0.16 +0.3 3,170,109 - RPSI07_RS22310 0.16 +1.1 3,170,135 + RPSI07_RS22310 0.20 -0.9 3,170,136 - RPSI07_RS22310 0.20 +1.3 3,170,139 + RPSI07_RS22310 0.21 -1.9 3,170,168 + RPSI07_RS22310 0.26 +1.0 3,170,169 - RPSI07_RS22310 0.26 -0.7 3,170,258 + RPSI07_RS22310 0.40 -1.1 3,170,258 + RPSI07_RS22310 0.40 -1.1 3,170,258 + RPSI07_RS22310 0.40 -1.9 3,170,258 + RPSI07_RS22310 0.40 -0.5 3,170,259 - RPSI07_RS22310 0.41 +1.3 3,170,259 - RPSI07_RS22310 0.41 -1.2 3,170,259 - RPSI07_RS22310 0.41 +1.1 3,170,281 - RPSI07_RS22310 0.44 -2.1 3,170,311 + RPSI07_RS22310 0.49 +0.7 3,170,311 + RPSI07_RS22310 0.49 -0.9 3,170,311 + RPSI07_RS22310 0.49 +0.6 3,170,428 - RPSI07_RS22310 0.69 -0.2 3,170,535 + RPSI07_RS22310 0.86 +1.4 3,170,649 + -1.2 3,170,721 + -3.3 3,170,721 + +1.1 3,170,722 - +0.3 3,170,760 + -0.7 3,170,761 - -1.7 3,170,815 - RPSI07_RS22315 0.14 -1.0 3,170,871 + RPSI07_RS22315 0.20 +2.3
Or see this region's nucleotide sequence