Experiment: SMSA with Ralstonia_antibiotic_mix_minus_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_RS08640 and RPSI07_RS24845 are separated by 345 nucleotides RPSI07_RS24845 and RPSI07_RS08645 overlap by 4 nucleotides RPSI07_RS08645 and RPSI07_RS08650 are separated by 34 nucleotides
RPSI07_RS08640: RPSI07_RS08640 - 2-hydroxy-3-oxopropionate reductase, at 177,104 to 178,015
_RS08640
RPSI07_RS24845: RPSI07_RS24845 - hypothetical protein, at 178,361 to 178,599
_RS24845
RPSI07_RS08645: RPSI07_RS08645 - hydroxypyruvate isomerase, at 178,596 to 179,378
_RS08645
RPSI07_RS08650: RPSI07_RS08650 - glyoxylate carboligase, at 179,413 to 181,188
_RS08650
Position (kb) 178
179 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4
5 at 177.642 kb on + strand, within RPSI07_RS08640 at 177.643 kb on - strand, within RPSI07_RS08640 at 178.104 kb on - strand at 178.104 kb on - strand at 178.104 kb on - strand at 178.104 kb on - strand at 178.104 kb on - strand at 178.491 kb on - strand, within RPSI07_RS24845 at 178.500 kb on + strand, within RPSI07_RS24845 at 178.657 kb on + strand at 178.657 kb on + strand at 178.657 kb on + strand at 178.657 kb on + strand at 178.657 kb on + strand at 178.657 kb on + strand at 178.658 kb on - strand at 178.715 kb on + strand, within RPSI07_RS08645 at 178.717 kb on + strand, within RPSI07_RS08645 at 178.717 kb on + strand, within RPSI07_RS08645 at 178.718 kb on - strand, within RPSI07_RS08645 at 178.718 kb on - strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.840 kb on + strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.841 kb on - strand, within RPSI07_RS08645 at 178.850 kb on - strand, within RPSI07_RS08645 at 178.850 kb on - strand, within RPSI07_RS08645 at 178.850 kb on - strand, within RPSI07_RS08645 at 178.919 kb on - strand, within RPSI07_RS08645 at 178.919 kb on - strand, within RPSI07_RS08645 at 179.101 kb on + strand, within RPSI07_RS08645 at 179.102 kb on - strand, within RPSI07_RS08645 at 179.102 kb on - strand, within RPSI07_RS08645 at 179.266 kb on + strand, within RPSI07_RS08645
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Chloramphenicol_and_CrystalViolet remove 177,642 + RPSI07_RS08640 0.59 -1.3 177,643 - RPSI07_RS08640 0.59 +2.3 178,104 - -0.2 178,104 - -0.4 178,104 - -1.4 178,104 - -1.1 178,104 - -0.2 178,491 - RPSI07_RS24845 0.54 -0.4 178,500 + RPSI07_RS24845 0.58 -2.1 178,657 + +1.4 178,657 + +0.7 178,657 + -0.2 178,657 + +1.4 178,657 + -0.6 178,657 + -1.7 178,658 - +1.3 178,715 + RPSI07_RS08645 0.15 -0.9 178,717 + RPSI07_RS08645 0.15 -0.3 178,717 + RPSI07_RS08645 0.15 -0.6 178,718 - RPSI07_RS08645 0.16 -1.0 178,718 - RPSI07_RS08645 0.16 -1.3 178,840 + RPSI07_RS08645 0.31 -0.4 178,840 + RPSI07_RS08645 0.31 +1.7 178,840 + RPSI07_RS08645 0.31 -1.9 178,840 + RPSI07_RS08645 0.31 +0.4 178,840 + RPSI07_RS08645 0.31 +1.6 178,840 + RPSI07_RS08645 0.31 -1.2 178,840 + RPSI07_RS08645 0.31 +0.4 178,840 + RPSI07_RS08645 0.31 +0.9 178,840 + RPSI07_RS08645 0.31 -0.6 178,840 + RPSI07_RS08645 0.31 -1.2 178,840 + RPSI07_RS08645 0.31 +5.1 178,841 - RPSI07_RS08645 0.31 +0.8 178,841 - RPSI07_RS08645 0.31 -0.7 178,841 - RPSI07_RS08645 0.31 +3.4 178,841 - RPSI07_RS08645 0.31 -0.2 178,841 - RPSI07_RS08645 0.31 +0.6 178,841 - RPSI07_RS08645 0.31 +2.0 178,841 - RPSI07_RS08645 0.31 -1.0 178,841 - RPSI07_RS08645 0.31 +0.5 178,841 - RPSI07_RS08645 0.31 -0.2 178,850 - RPSI07_RS08645 0.32 -1.0 178,850 - RPSI07_RS08645 0.32 -0.6 178,850 - RPSI07_RS08645 0.32 -1.0 178,919 - RPSI07_RS08645 0.41 +0.3 178,919 - RPSI07_RS08645 0.41 +1.4 179,101 + RPSI07_RS08645 0.64 +1.1 179,102 - RPSI07_RS08645 0.65 -0.6 179,102 - RPSI07_RS08645 0.65 -1.8 179,266 + RPSI07_RS08645 0.86 -0.3
Or see this region's nucleotide sequence