Experiment: SMSA with Ralstonia_antibiotic_mix_minus_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 RALBFv3_RS08545 and RALBFv3_RS08550 are separated by 31 nucleotides RALBFv3_RS08550 and RALBFv3_RS08555 are separated by 7 nucleotides RALBFv3_RS08555 and RALBFv3_RS08560 are separated by 34 nucleotides RALBFv3_RS08560 and RALBFv3_RS08565 overlap by 23 nucleotides RALBFv3_RS08565 and RALBFv3_RS08570 are separated by 115 nucleotides
RALBFv3_RS08545: RALBFv3_RS08545 - C4-dicarboxylate transporter DctA, at 1,880,426 to 1,881,766
_RS08545
RALBFv3_RS08550: RALBFv3_RS08550 - GntR family transcriptional regulator, at 1,881,798 to 1,882,487
_RS08550
RALBFv3_RS08555: RALBFv3_RS08555 - DUF1949 domain-containing protein, at 1,882,495 to 1,883,082
_RS08555
RALBFv3_RS08560: RALBFv3_RS08560 - XRE family transcriptional regulator, at 1,883,117 to 1,883,449
_RS08560
RALBFv3_RS08565: RALBFv3_RS08565 - type II toxin-antitoxin system RelE/ParE family toxin, at 1,883,427 to 1,883,699
_RS08565
RALBFv3_RS08570: RALBFv3_RS08570 - LysR family transcriptional regulator, at 1,883,815 to 1,884,726
_RS08570
Position (kb) 1882
1883
1884 Strain fitness (log2 ratio) -1
0
1 at 1882.299 kb on + strand, within RALBFv3_RS08550 at 1882.299 kb on + strand, within RALBFv3_RS08550 at 1882.299 kb on + strand, within RALBFv3_RS08550 at 1882.299 kb on + strand at 1882.300 kb on - strand, within RALBFv3_RS08550 at 1882.300 kb on - strand, within RALBFv3_RS08550 at 1882.300 kb on - strand, within RALBFv3_RS08550 at 1882.311 kb on + strand, within RALBFv3_RS08550 at 1882.311 kb on + strand, within RALBFv3_RS08550 at 1882.311 kb on + strand, within RALBFv3_RS08550 at 1882.311 kb on + strand, within RALBFv3_RS08550 at 1882.311 kb on + strand, within RALBFv3_RS08550 at 1882.312 kb on - strand, within RALBFv3_RS08550 at 1882.504 kb on + strand at 1882.504 kb on + strand at 1882.504 kb on + strand at 1882.505 kb on - strand at 1882.505 kb on - strand at 1882.780 kb on + strand, within RALBFv3_RS08555 at 1882.780 kb on + strand, within RALBFv3_RS08555 at 1882.781 kb on - strand, within RALBFv3_RS08555 at 1882.910 kb on - strand, within RALBFv3_RS08555 at 1882.954 kb on + strand, within RALBFv3_RS08555 at 1882.954 kb on + strand, within RALBFv3_RS08555 at 1882.954 kb on + strand, within RALBFv3_RS08555 at 1882.955 kb on - strand, within RALBFv3_RS08555 at 1883.364 kb on + strand, within RALBFv3_RS08560 at 1883.364 kb on + strand, within RALBFv3_RS08560 at 1883.365 kb on - strand, within RALBFv3_RS08560 at 1883.428 kb on + strand at 1883.428 kb on + strand at 1883.428 kb on + strand at 1883.429 kb on - strand at 1883.429 kb on - strand at 1883.429 kb on - strand at 1883.429 kb on - strand at 1883.437 kb on + strand at 1883.438 kb on - strand at 1883.438 kb on - strand at 1883.475 kb on + strand, within RALBFv3_RS08565 at 1883.685 kb on + strand at 1883.685 kb on + strand at 1883.686 kb on - strand at 1883.849 kb on + strand at 1883.850 kb on - strand at 1883.850 kb on - strand at 1883.850 kb on - strand at 1883.871 kb on + strand at 1883.931 kb on - strand, within RALBFv3_RS08570
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_CrystalViolet remove 1,882,299 + RALBFv3_RS08550 0.73 +0.1 1,882,299 + RALBFv3_RS08550 0.73 -0.1 1,882,299 + RALBFv3_RS08550 0.73 -0.5 1,882,299 + -0.3 1,882,300 - RALBFv3_RS08550 0.73 -0.8 1,882,300 - RALBFv3_RS08550 0.73 +0.0 1,882,300 - RALBFv3_RS08550 0.73 +0.3 1,882,311 + RALBFv3_RS08550 0.74 -0.6 1,882,311 + RALBFv3_RS08550 0.74 -0.2 1,882,311 + RALBFv3_RS08550 0.74 -0.6 1,882,311 + RALBFv3_RS08550 0.74 -0.4 1,882,311 + RALBFv3_RS08550 0.74 -0.4 1,882,312 - RALBFv3_RS08550 0.74 -0.3 1,882,504 + +0.1 1,882,504 + +1.2 1,882,504 + +0.4 1,882,505 - +0.2 1,882,505 - +1.2 1,882,780 + RALBFv3_RS08555 0.48 -0.5 1,882,780 + RALBFv3_RS08555 0.48 +1.0 1,882,781 - RALBFv3_RS08555 0.49 -0.4 1,882,910 - RALBFv3_RS08555 0.71 +1.2 1,882,954 + RALBFv3_RS08555 0.78 -0.3 1,882,954 + RALBFv3_RS08555 0.78 -0.4 1,882,954 + RALBFv3_RS08555 0.78 +1.0 1,882,955 - RALBFv3_RS08555 0.78 +0.0 1,883,364 + RALBFv3_RS08560 0.74 -0.7 1,883,364 + RALBFv3_RS08560 0.74 +0.2 1,883,365 - RALBFv3_RS08560 0.74 +0.2 1,883,428 + +1.2 1,883,428 + +0.0 1,883,428 + +0.3 1,883,429 - +0.2 1,883,429 - -0.8 1,883,429 - +0.2 1,883,429 - -0.4 1,883,437 + -0.3 1,883,438 - +1.2 1,883,438 - +1.2 1,883,475 + RALBFv3_RS08565 0.18 +0.3 1,883,685 + +0.2 1,883,685 + -0.2 1,883,686 - +0.2 1,883,849 + +0.4 1,883,850 - +0.2 1,883,850 - +0.2 1,883,850 - +0.2 1,883,871 + -0.2 1,883,931 - RALBFv3_RS08570 0.13 -0.0
Or see this region's nucleotide sequence