Experiment: SMSA with Ralstonia_antibiotic_mix
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_RS08405 and RPSI07_RS08410 are separated by 240 nucleotides RPSI07_RS08410 and RPSI07_RS08415 overlap by 1 nucleotides RPSI07_RS08415 and RPSI07_RS08420 are separated by 40 nucleotides
RPSI07_RS08405: RPSI07_RS08405 - branched-chain amino acid ABC transporter substrate-binding protein, at 119,510 to 120,658
_RS08405
RPSI07_RS08410: RPSI07_RS08410 - tRNA uridine-5-carboxymethylaminomethyl(34) synthesis enzyme MnmG, at 120,899 to 122,842
_RS08410
RPSI07_RS08415: RPSI07_RS08415 - 16S rRNA (guanine(527)-N(7))-methyltransferase RsmG, at 122,842 to 123,513
_RS08415
RPSI07_RS08420: RPSI07_RS08420 - ParA family protein, at 123,554 to 124,339
_RS08420
Position (kb) 120
121
122
123 Strain fitness (log2 ratio) -1
0
1
2 at 120.012 kb on - strand, within RPSI07_RS08405 at 120.012 kb on - strand, within RPSI07_RS08405 at 120.215 kb on + strand, within RPSI07_RS08405 at 120.215 kb on + strand, within RPSI07_RS08405 at 120.215 kb on + strand, within RPSI07_RS08405 at 120.292 kb on + strand, within RPSI07_RS08405 at 120.293 kb on - strand, within RPSI07_RS08405 at 120.293 kb on - strand, within RPSI07_RS08405 at 120.293 kb on - strand, within RPSI07_RS08405 at 120.293 kb on - strand, within RPSI07_RS08405 at 120.372 kb on - strand, within RPSI07_RS08405 at 120.383 kb on + strand, within RPSI07_RS08405 at 120.538 kb on + strand, within RPSI07_RS08405 at 120.835 kb on + strand at 120.848 kb on + strand at 120.848 kb on + strand at 120.849 kb on - strand at 120.849 kb on - strand at 120.850 kb on + strand at 122.850 kb on + strand at 122.944 kb on + strand, within RPSI07_RS08415 at 122.977 kb on + strand, within RPSI07_RS08415
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix remove 120,012 - RPSI07_RS08405 0.44 -0.5 120,012 - RPSI07_RS08405 0.44 +0.1 120,215 + RPSI07_RS08405 0.61 -0.4 120,215 + RPSI07_RS08405 0.61 -0.6 120,215 + RPSI07_RS08405 0.61 +2.0 120,292 + RPSI07_RS08405 0.68 +0.3 120,293 - RPSI07_RS08405 0.68 -1.0 120,293 - RPSI07_RS08405 0.68 +1.0 120,293 - RPSI07_RS08405 0.68 -0.2 120,293 - RPSI07_RS08405 0.68 -0.7 120,372 - RPSI07_RS08405 0.75 -0.3 120,383 + RPSI07_RS08405 0.76 +0.4 120,538 + RPSI07_RS08405 0.89 -0.7 120,835 + -0.9 120,848 + +1.0 120,848 + -1.3 120,849 - -1.0 120,849 - -0.7 120,850 + +1.0 122,850 + +0.3 122,944 + RPSI07_RS08415 0.15 -1.3 122,977 + RPSI07_RS08415 0.20 +0.0
Or see this region's nucleotide sequence