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_RS12335 and RPSI07_RS12340 are separated by 660 nucleotides RPSI07_RS12340 and RPSI07_RS12345 are separated by 94 nucleotides RPSI07_RS12345 and RPSI07_RS12350 overlap by 4 nucleotides
RPSI07_RS12335: RPSI07_RS12335 - type II toxin-antitoxin system HipA family toxin, at 961,606 to 962,931
_RS12335
RPSI07_RS12340: RPSI07_RS12340 - EamA/RhaT family transporter, at 963,592 to 964,524
_RS12340
RPSI07_RS12345: RPSI07_RS12345 - methylated-DNA--[protein]-cysteine S-methyltransferase, at 964,619 to 965,176
_RS12345
RPSI07_RS12350: RPSI07_RS12350 - DNA-3-methyladenine glycosylase 2 family protein, at 965,173 to 966,645
_RS12350
Position (kb) 963
964
965 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 962.646 kb on + strand, within RPSI07_RS12335 at 962.647 kb on - strand, within RPSI07_RS12335 at 962.647 kb on - strand, within RPSI07_RS12335 at 962.741 kb on + strand, within RPSI07_RS12335 at 962.741 kb on + strand, within RPSI07_RS12335 at 962.742 kb on - strand, within RPSI07_RS12335 at 962.779 kb on - strand, within RPSI07_RS12335 at 962.779 kb on - strand, within RPSI07_RS12335 at 962.858 kb on + strand at 962.859 kb on - strand at 962.918 kb on + strand at 962.918 kb on + strand at 962.918 kb on + strand at 962.919 kb on - strand at 962.919 kb on - strand at 963.066 kb on - strand at 963.084 kb on - strand at 963.084 kb on - strand at 963.180 kb on + strand at 963.202 kb on + strand at 963.203 kb on - strand at 963.346 kb on + strand at 963.346 kb on + strand at 963.347 kb on - strand at 963.347 kb on - strand at 963.388 kb on + strand at 963.389 kb on - strand at 963.389 kb on - strand at 963.402 kb on + strand at 963.403 kb on - strand at 963.631 kb on - strand at 963.631 kb on - strand at 963.851 kb on + strand, within RPSI07_RS12340 at 963.851 kb on + strand, within RPSI07_RS12340 at 963.851 kb on + strand, within RPSI07_RS12340 at 963.851 kb on + strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 963.852 kb on - strand, within RPSI07_RS12340 at 964.023 kb on + strand, within RPSI07_RS12340 at 964.023 kb on + strand, within RPSI07_RS12340 at 964.024 kb on - strand, within RPSI07_RS12340 at 964.024 kb on - strand, within RPSI07_RS12340 at 964.024 kb on - strand, within RPSI07_RS12340 at 964.024 kb on - strand, within RPSI07_RS12340 at 964.024 kb on - strand, within RPSI07_RS12340 at 964.026 kb on - strand, within RPSI07_RS12340 at 964.026 kb on - strand, within RPSI07_RS12340 at 964.043 kb on + strand, within RPSI07_RS12340 at 964.043 kb on + strand, within RPSI07_RS12340 at 964.043 kb on + strand, within RPSI07_RS12340 at 964.044 kb on - strand, within RPSI07_RS12340 at 964.044 kb on - strand, within RPSI07_RS12340 at 964.044 kb on - strand, within RPSI07_RS12340 at 964.044 kb on - strand, within RPSI07_RS12340 at 964.274 kb on + strand, within RPSI07_RS12340 at 964.274 kb on + strand, within RPSI07_RS12340 at 964.275 kb on - strand, within RPSI07_RS12340 at 964.498 kb on + strand at 964.499 kb on - strand at 964.537 kb on + strand at 964.878 kb on + strand, within RPSI07_RS12345 at 964.878 kb on + strand, within RPSI07_RS12345 at 964.879 kb on - strand, within RPSI07_RS12345 at 964.879 kb on - strand, within RPSI07_RS12345 at 964.879 kb on - strand, within RPSI07_RS12345 at 964.992 kb on + strand, within RPSI07_RS12345 at 964.992 kb on + strand, within RPSI07_RS12345 at 964.992 kb on + strand, within RPSI07_RS12345 at 964.993 kb on - strand, within RPSI07_RS12345 at 965.044 kb on + strand, within RPSI07_RS12345 at 965.044 kb on + strand, within RPSI07_RS12345 at 965.321 kb on + strand, within RPSI07_RS12350 at 965.321 kb on + strand, within RPSI07_RS12350 at 965.322 kb on - strand, within RPSI07_RS12350 at 965.322 kb on - strand, within RPSI07_RS12350 at 965.322 kb on - strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.372 kb on + strand, within RPSI07_RS12350 at 965.373 kb on - strand, within RPSI07_RS12350 at 965.373 kb on - strand, within RPSI07_RS12350 at 965.373 kb on - strand, within RPSI07_RS12350
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol remove 962,646 + RPSI07_RS12335 0.78 +2.1 962,647 - RPSI07_RS12335 0.79 +1.4 962,647 - RPSI07_RS12335 0.79 +2.0 962,741 + RPSI07_RS12335 0.86 +1.4 962,741 + RPSI07_RS12335 0.86 +1.5 962,742 - RPSI07_RS12335 0.86 +1.1 962,779 - RPSI07_RS12335 0.88 +1.2 962,779 - RPSI07_RS12335 0.88 +2.7 962,858 + +2.1 962,859 - +1.0 962,918 + +1.2 962,918 + +1.9 962,918 + +2.2 962,919 - +1.2 962,919 - +1.7 963,066 - +3.2 963,084 - +1.2 963,084 - +0.8 963,180 + +0.7 963,202 + +1.0 963,203 - -0.3 963,346 + +1.4 963,346 + +1.0 963,347 - +1.2 963,347 - +0.6 963,388 + +1.4 963,389 - +1.6 963,389 - -0.4 963,402 + +1.7 963,403 - +1.2 963,631 - +0.4 963,631 - +1.0 963,851 + RPSI07_RS12340 0.28 -0.6 963,851 + RPSI07_RS12340 0.28 -0.0 963,851 + RPSI07_RS12340 0.28 +1.1 963,851 + RPSI07_RS12340 0.28 -0.5 963,852 - RPSI07_RS12340 0.28 +2.9 963,852 - RPSI07_RS12340 0.28 +0.3 963,852 - RPSI07_RS12340 0.28 -1.3 963,852 - RPSI07_RS12340 0.28 +1.9 963,852 - RPSI07_RS12340 0.28 +0.6 963,852 - RPSI07_RS12340 0.28 +0.7 963,852 - RPSI07_RS12340 0.28 +0.6 964,023 + RPSI07_RS12340 0.46 -0.1 964,023 + RPSI07_RS12340 0.46 -1.6 964,024 - RPSI07_RS12340 0.46 -1.6 964,024 - RPSI07_RS12340 0.46 +0.1 964,024 - RPSI07_RS12340 0.46 +1.8 964,024 - RPSI07_RS12340 0.46 -0.5 964,024 - RPSI07_RS12340 0.46 -0.3 964,026 - RPSI07_RS12340 0.47 -1.0 964,026 - RPSI07_RS12340 0.47 +1.2 964,043 + RPSI07_RS12340 0.48 +1.4 964,043 + RPSI07_RS12340 0.48 +0.4 964,043 + RPSI07_RS12340 0.48 +0.4 964,044 - RPSI07_RS12340 0.48 -2.3 964,044 - RPSI07_RS12340 0.48 -0.6 964,044 - RPSI07_RS12340 0.48 +0.7 964,044 - RPSI07_RS12340 0.48 +1.2 964,274 + RPSI07_RS12340 0.73 +0.6 964,274 + RPSI07_RS12340 0.73 -0.6 964,275 - RPSI07_RS12340 0.73 -2.3 964,498 + +0.6 964,499 - +2.8 964,537 + +0.7 964,878 + RPSI07_RS12345 0.46 +0.3 964,878 + RPSI07_RS12345 0.46 -0.1 964,879 - RPSI07_RS12345 0.47 -0.9 964,879 - RPSI07_RS12345 0.47 -1.2 964,879 - RPSI07_RS12345 0.47 -0.0 964,992 + RPSI07_RS12345 0.67 +2.8 964,992 + RPSI07_RS12345 0.67 +1.8 964,992 + RPSI07_RS12345 0.67 +0.5 964,993 - RPSI07_RS12345 0.67 -2.0 965,044 + RPSI07_RS12345 0.76 +0.5 965,044 + RPSI07_RS12345 0.76 -1.0 965,321 + RPSI07_RS12350 0.10 -0.7 965,321 + RPSI07_RS12350 0.10 -0.6 965,322 - RPSI07_RS12350 0.10 +1.2 965,322 - RPSI07_RS12350 0.10 +0.5 965,322 - RPSI07_RS12350 0.10 -0.2 965,372 + RPSI07_RS12350 0.14 +0.4 965,372 + RPSI07_RS12350 0.14 +0.6 965,372 + RPSI07_RS12350 0.14 +1.5 965,372 + RPSI07_RS12350 0.14 +1.1 965,372 + RPSI07_RS12350 0.14 +0.6 965,372 + RPSI07_RS12350 0.14 +2.2 965,373 - RPSI07_RS12350 0.14 -0.9 965,373 - RPSI07_RS12350 0.14 +0.4 965,373 - RPSI07_RS12350 0.14 -2.8
Or see this region's nucleotide sequence