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 RPSI07_RS04940 and RPSI07_RS24420 are separated by 227 nucleotides RPSI07_RS24420 and RPSI07_RS24425 overlap by 4 nucleotides RPSI07_RS24425 and RPSI07_RS04945 are separated by 153 nucleotides RPSI07_RS04945 and RPSI07_RS04950 are separated by 138 nucleotides RPSI07_RS04950 and RPSI07_RS04955 are separated by 20 nucleotides
RPSI07_RS04940: RPSI07_RS04940 - LacI family transcriptional regulator, at 1,345,769 to 1,346,788
_RS04940
RPSI07_RS24420: RPSI07_RS24420 - hypothetical protein, at 1,347,016 to 1,347,279
_RS24420
RPSI07_RS24425: RPSI07_RS24425 - hypothetical protein, at 1,347,276 to 1,347,614
_RS24425
RPSI07_RS04945: RPSI07_RS04945 - hypothetical protein, at 1,347,768 to 1,348,136
_RS04945
RPSI07_RS04950: RPSI07_RS04950 - hypothetical protein, at 1,348,275 to 1,348,487
_RS04950
RPSI07_RS04955: RPSI07_RS04955 - hypothetical protein, at 1,348,508 to 1,349,248
_RS04955
Position (kb) 1347
1348 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 1346.445 kb on + strand, within RPSI07_RS04940 at 1346.445 kb on + strand, within RPSI07_RS04940 at 1346.445 kb on + strand, within RPSI07_RS04940 at 1346.446 kb on - strand, within RPSI07_RS04940 at 1346.446 kb on - strand, within RPSI07_RS04940 at 1346.500 kb on - strand, within RPSI07_RS04940 at 1346.554 kb on - strand, within RPSI07_RS04940 at 1346.554 kb on - strand, within RPSI07_RS04940 at 1346.634 kb on + strand, within RPSI07_RS04940 at 1346.634 kb on + strand, within RPSI07_RS04940 at 1346.634 kb on + strand, within RPSI07_RS04940 at 1346.635 kb on - strand, within RPSI07_RS04940 at 1346.635 kb on - strand, within RPSI07_RS04940 at 1346.635 kb on - strand, within RPSI07_RS04940 at 1346.689 kb on - strand at 1346.800 kb on + strand at 1346.800 kb on + strand at 1346.801 kb on - strand at 1346.801 kb on - strand at 1346.822 kb on - strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.856 kb on + strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.857 kb on - strand at 1346.981 kb on + strand at 1346.981 kb on + strand at 1346.981 kb on + strand at 1346.982 kb on - strand at 1346.982 kb on - strand at 1346.982 kb on - strand at 1346.982 kb on - strand at 1346.982 kb on - strand at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.098 kb on - strand, within RPSI07_RS24420 at 1347.255 kb on + strand at 1347.303 kb on + strand at 1347.304 kb on - strand at 1347.537 kb on + strand, within RPSI07_RS24425 at 1347.538 kb on - strand, within RPSI07_RS24425 at 1347.558 kb on + strand, within RPSI07_RS24425 at 1347.558 kb on + strand, within RPSI07_RS24425 at 1347.558 kb on + strand, within RPSI07_RS24425 at 1347.558 kb on + strand, within RPSI07_RS24425 at 1347.559 kb on - strand, within RPSI07_RS24425 at 1347.574 kb on - strand, within RPSI07_RS24425 at 1347.585 kb on - strand at 1347.609 kb on - strand at 1347.614 kb on + strand at 1347.614 kb on + strand at 1347.615 kb on - strand at 1347.639 kb on - strand at 1347.639 kb on - strand at 1347.648 kb on - strand at 1347.653 kb on + strand at 1347.674 kb on - strand at 1347.782 kb on + strand at 1347.782 kb on + strand at 1347.782 kb on + strand at 1347.782 kb on + strand at 1347.794 kb on + strand at 1347.794 kb on + strand at 1347.794 kb on + strand at 1347.795 kb on - strand at 1347.795 kb on - strand at 1347.795 kb on - strand at 1347.795 kb on - strand at 1347.795 kb on - strand at 1347.795 kb on - strand at 1347.839 kb on + strand, within RPSI07_RS04945 at 1347.839 kb on + strand, within RPSI07_RS04945 at 1347.839 kb on + strand, within RPSI07_RS04945 at 1347.898 kb on - strand, within RPSI07_RS04945 at 1347.898 kb on - strand, within RPSI07_RS04945 at 1347.975 kb on - strand, within RPSI07_RS04945 at 1347.975 kb on - strand, within RPSI07_RS04945 at 1348.058 kb on + strand, within RPSI07_RS04945 at 1348.058 kb on + strand, within RPSI07_RS04945 at 1348.070 kb on + strand, within RPSI07_RS04945 at 1348.070 kb on + strand, within RPSI07_RS04945 at 1348.070 kb on + strand, within RPSI07_RS04945 at 1348.176 kb on + strand at 1348.259 kb on + strand at 1348.259 kb on + strand at 1348.259 kb on + strand at 1348.259 kb on + strand at 1348.260 kb on - strand at 1348.276 kb on + strand at 1348.276 kb on + strand at 1348.276 kb on + strand at 1348.276 kb on + strand at 1348.299 kb on - strand, within RPSI07_RS04950 at 1348.313 kb on + strand, within RPSI07_RS04950 at 1348.314 kb on - strand, within RPSI07_RS04950 at 1348.314 kb on - strand, within RPSI07_RS04950 at 1348.314 kb on - strand, within RPSI07_RS04950 at 1348.314 kb on - strand, within RPSI07_RS04950 at 1348.314 kb on - strand, within RPSI07_RS04950 at 1348.341 kb on - strand, within RPSI07_RS04950 at 1348.358 kb on + strand, within RPSI07_RS04950 at 1348.358 kb on + strand, within RPSI07_RS04950 at 1348.359 kb on - strand, within RPSI07_RS04950 at 1348.359 kb on - strand, within RPSI07_RS04950 at 1348.364 kb on + strand, within RPSI07_RS04950 at 1348.377 kb on + strand, within RPSI07_RS04950 at 1348.401 kb on + strand, within RPSI07_RS04950 at 1348.498 kb on + strand at 1348.498 kb on + strand at 1348.499 kb on - strand at 1348.499 kb on - strand at 1348.499 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Polymyxin_and_Chloramphenicol_and_CrystalViolet remove 1,346,445 + RPSI07_RS04940 0.66 -0.2 1,346,445 + RPSI07_RS04940 0.66 +0.7 1,346,445 + RPSI07_RS04940 0.66 +0.8 1,346,446 - RPSI07_RS04940 0.66 -1.4 1,346,446 - RPSI07_RS04940 0.66 +0.9 1,346,500 - RPSI07_RS04940 0.72 +1.3 1,346,554 - RPSI07_RS04940 0.77 -1.1 1,346,554 - RPSI07_RS04940 0.77 +1.1 1,346,634 + RPSI07_RS04940 0.85 -0.7 1,346,634 + RPSI07_RS04940 0.85 +0.2 1,346,634 + RPSI07_RS04940 0.85 +3.4 1,346,635 - RPSI07_RS04940 0.85 -0.7 1,346,635 - RPSI07_RS04940 0.85 -0.7 1,346,635 - RPSI07_RS04940 0.85 +1.6 1,346,689 - -0.3 1,346,800 + +2.1 1,346,800 + +1.4 1,346,801 - +0.3 1,346,801 - -0.5 1,346,822 - -1.0 1,346,856 + +0.5 1,346,856 + -1.5 1,346,856 + -1.1 1,346,856 + +0.2 1,346,856 + +0.5 1,346,856 + +0.4 1,346,856 + -1.2 1,346,856 + -2.4 1,346,856 + +0.1 1,346,856 + -0.2 1,346,856 + +0.4 1,346,857 - -1.5 1,346,857 - -1.0 1,346,857 - +0.2 1,346,857 - -1.2 1,346,857 - -2.8 1,346,857 - +0.7 1,346,857 - +0.3 1,346,857 - -0.9 1,346,857 - -0.9 1,346,857 - -0.8 1,346,857 - -0.7 1,346,981 + -0.2 1,346,981 + +1.4 1,346,981 + -0.3 1,346,982 - -0.2 1,346,982 - -1.2 1,346,982 - -1.0 1,346,982 - -1.8 1,346,982 - -0.1 1,347,098 - RPSI07_RS24420 0.31 -0.5 1,347,098 - RPSI07_RS24420 0.31 -0.2 1,347,098 - RPSI07_RS24420 0.31 +0.2 1,347,098 - RPSI07_RS24420 0.31 -0.2 1,347,098 - RPSI07_RS24420 0.31 -0.3 1,347,098 - RPSI07_RS24420 0.31 +0.3 1,347,098 - RPSI07_RS24420 0.31 -0.6 1,347,098 - RPSI07_RS24420 0.31 +0.1 1,347,098 - RPSI07_RS24420 0.31 -1.1 1,347,255 + -0.1 1,347,303 + -1.0 1,347,304 - -0.2 1,347,537 + RPSI07_RS24425 0.77 -0.5 1,347,538 - RPSI07_RS24425 0.77 -0.9 1,347,558 + RPSI07_RS24425 0.83 +0.1 1,347,558 + RPSI07_RS24425 0.83 -1.1 1,347,558 + RPSI07_RS24425 0.83 -0.5 1,347,558 + RPSI07_RS24425 0.83 -0.2 1,347,559 - RPSI07_RS24425 0.83 -1.1 1,347,574 - RPSI07_RS24425 0.88 -0.8 1,347,585 - -0.6 1,347,609 - -0.5 1,347,614 + -0.7 1,347,614 + +1.3 1,347,615 - -0.2 1,347,639 - -1.0 1,347,639 - -0.3 1,347,648 - -1.1 1,347,653 + +0.2 1,347,674 - +0.5 1,347,782 + -1.7 1,347,782 + -0.5 1,347,782 + -0.6 1,347,782 + +0.7 1,347,794 + +1.1 1,347,794 + -0.6 1,347,794 + +0.2 1,347,795 - -0.6 1,347,795 - +2.1 1,347,795 - -0.2 1,347,795 - -0.4 1,347,795 - -1.0 1,347,795 - -0.1 1,347,839 + RPSI07_RS04945 0.19 -0.5 1,347,839 + RPSI07_RS04945 0.19 -0.6 1,347,839 + RPSI07_RS04945 0.19 -0.2 1,347,898 - RPSI07_RS04945 0.35 +0.4 1,347,898 - RPSI07_RS04945 0.35 +1.0 1,347,975 - RPSI07_RS04945 0.56 +0.2 1,347,975 - RPSI07_RS04945 0.56 -1.7 1,348,058 + RPSI07_RS04945 0.79 +2.1 1,348,058 + RPSI07_RS04945 0.79 -0.6 1,348,070 + RPSI07_RS04945 0.82 -1.4 1,348,070 + RPSI07_RS04945 0.82 +1.9 1,348,070 + RPSI07_RS04945 0.82 +1.8 1,348,176 + -1.2 1,348,259 + -1.5 1,348,259 + -0.5 1,348,259 + -0.6 1,348,259 + -0.7 1,348,260 - -2.2 1,348,276 + +1.5 1,348,276 + -2.4 1,348,276 + -0.9 1,348,276 + -2.9 1,348,299 - RPSI07_RS04950 0.11 +0.6 1,348,313 + RPSI07_RS04950 0.18 +1.1 1,348,314 - RPSI07_RS04950 0.18 +1.9 1,348,314 - RPSI07_RS04950 0.18 +0.2 1,348,314 - RPSI07_RS04950 0.18 +0.0 1,348,314 - RPSI07_RS04950 0.18 +0.1 1,348,314 - RPSI07_RS04950 0.18 -1.3 1,348,341 - RPSI07_RS04950 0.31 -0.8 1,348,358 + RPSI07_RS04950 0.39 +0.8 1,348,358 + RPSI07_RS04950 0.39 -0.2 1,348,359 - RPSI07_RS04950 0.39 +0.2 1,348,359 - RPSI07_RS04950 0.39 -0.0 1,348,364 + RPSI07_RS04950 0.42 -1.1 1,348,377 + RPSI07_RS04950 0.48 -0.4 1,348,401 + RPSI07_RS04950 0.59 -0.1 1,348,498 + -1.0 1,348,498 + -0.1 1,348,499 - -0.6 1,348,499 - -0.4 1,348,499 - -1.1
Or see this region's nucleotide sequence