Experiment: SMSA with Ralstonia_antibiotic_mix_minus_Bacitracin
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_RS08990 and RALBFv3_RS08995 are separated by 47 nucleotides RALBFv3_RS08995 and RALBFv3_RS09000 are separated by 19 nucleotides RALBFv3_RS09000 and RALBFv3_RS09005 are separated by 57 nucleotides RALBFv3_RS09005 and RALBFv3_RS09010 are separated by 17 nucleotides
RALBFv3_RS08990: RALBFv3_RS08990 - phenylalanine 4-monooxygenase, at 1,983,003 to 1,983,944
_RS08990
RALBFv3_RS08995: RALBFv3_RS08995 - 4a-hydroxytetrahydrobiopterin dehydratase, at 1,983,992 to 1,984,297
_RS08995
RALBFv3_RS09000: RALBFv3_RS09000 - DUF3717 domain-containing protein, at 1,984,317 to 1,984,544
_RS09000
RALBFv3_RS09005: RALBFv3_RS09005 - DNA-binding response regulator, at 1,984,602 to 1,985,312
_RS09005
RALBFv3_RS09010: RALBFv3_RS09010 - sensor histidine kinase, at 1,985,330 to 1,987,018
_RS09010
Position (kb) 1984
1985
1986 Strain fitness (log2 ratio) -1
0
1 at 1983.639 kb on + strand, within RALBFv3_RS08990 at 1983.640 kb on - strand, within RALBFv3_RS08990 at 1983.678 kb on + strand, within RALBFv3_RS08990 at 1983.679 kb on - strand, within RALBFv3_RS08990 at 1983.771 kb on + strand, within RALBFv3_RS08990 at 1983.772 kb on - strand, within RALBFv3_RS08990 at 1983.772 kb on - strand, within RALBFv3_RS08990 at 1983.772 kb on - strand, within RALBFv3_RS08990 at 1983.835 kb on - strand, within RALBFv3_RS08990 at 1983.835 kb on - strand, within RALBFv3_RS08990 at 1983.890 kb on + strand at 1983.891 kb on - strand at 1983.953 kb on + strand at 1983.954 kb on - strand at 1983.955 kb on + strand at 1983.955 kb on + strand at 1984.295 kb on + strand at 1984.295 kb on + strand at 1984.296 kb on - strand at 1984.404 kb on + strand, within RALBFv3_RS09000 at 1984.404 kb on + strand, within RALBFv3_RS09000 at 1984.404 kb on + strand, within RALBFv3_RS09000 at 1984.404 kb on + strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.405 kb on - strand, within RALBFv3_RS09000 at 1984.421 kb on - strand, within RALBFv3_RS09000 at 1984.495 kb on + strand, within RALBFv3_RS09000 at 1984.496 kb on - strand, within RALBFv3_RS09000 at 1984.893 kb on + strand, within RALBFv3_RS09005 at 1985.214 kb on + strand, within RALBFv3_RS09005 at 1985.214 kb on + strand, within RALBFv3_RS09005 at 1985.311 kb on - strand at 1985.311 kb on - strand at 1985.468 kb on + strand at 1985.642 kb on + strand, within RALBFv3_RS09010 at 1985.643 kb on - strand, within RALBFv3_RS09010 at 1985.741 kb on + strand, within RALBFv3_RS09010 at 1985.742 kb on - strand, within RALBFv3_RS09010 at 1985.742 kb on - strand, within RALBFv3_RS09010 at 1985.742 kb on - strand, within RALBFv3_RS09010 at 1986.099 kb on + strand, within RALBFv3_RS09010 at 1986.100 kb on - strand, within RALBFv3_RS09010
Per-strain Table
Position Strand Gene LocusTag Fraction SMSA with Ralstonia_antibiotic_mix_minus_Bacitracin remove 1,983,639 + RALBFv3_RS08990 0.68 -0.5 1,983,640 - RALBFv3_RS08990 0.68 +0.4 1,983,678 + RALBFv3_RS08990 0.72 +0.1 1,983,679 - RALBFv3_RS08990 0.72 +0.2 1,983,771 + RALBFv3_RS08990 0.82 -0.4 1,983,772 - RALBFv3_RS08990 0.82 +0.2 1,983,772 - RALBFv3_RS08990 0.82 +0.3 1,983,772 - RALBFv3_RS08990 0.82 -0.5 1,983,835 - RALBFv3_RS08990 0.88 -0.5 1,983,835 - RALBFv3_RS08990 0.88 +1.0 1,983,890 + -0.2 1,983,891 - -0.1 1,983,953 + -0.1 1,983,954 - -0.4 1,983,955 + +0.2 1,983,955 + -0.3 1,984,295 + +0.2 1,984,295 + -1.1 1,984,296 - +0.1 1,984,404 + RALBFv3_RS09000 0.38 +0.4 1,984,404 + RALBFv3_RS09000 0.38 -0.1 1,984,404 + RALBFv3_RS09000 0.38 -0.1 1,984,404 + RALBFv3_RS09000 0.38 -0.0 1,984,405 - RALBFv3_RS09000 0.39 +0.1 1,984,405 - RALBFv3_RS09000 0.39 -0.3 1,984,405 - RALBFv3_RS09000 0.39 -0.5 1,984,405 - RALBFv3_RS09000 0.39 -0.5 1,984,405 - RALBFv3_RS09000 0.39 +0.3 1,984,405 - RALBFv3_RS09000 0.39 -0.9 1,984,421 - RALBFv3_RS09000 0.46 -0.7 1,984,495 + RALBFv3_RS09000 0.78 -0.1 1,984,496 - RALBFv3_RS09000 0.79 -0.2 1,984,893 + RALBFv3_RS09005 0.41 -1.7 1,985,214 + RALBFv3_RS09005 0.86 -1.4 1,985,214 + RALBFv3_RS09005 0.86 +0.4 1,985,311 - -0.3 1,985,311 - -0.0 1,985,468 + +1.6 1,985,642 + RALBFv3_RS09010 0.18 -0.4 1,985,643 - RALBFv3_RS09010 0.19 +0.1 1,985,741 + RALBFv3_RS09010 0.24 +0.2 1,985,742 - RALBFv3_RS09010 0.24 -0.6 1,985,742 - RALBFv3_RS09010 0.24 -0.1 1,985,742 - RALBFv3_RS09010 0.24 -1.0 1,986,099 + RALBFv3_RS09010 0.46 -0.1 1,986,100 - RALBFv3_RS09010 0.46 -0.1
Or see this region's nucleotide sequence