Experiment: rhizosphere EcoFAB sample 1; outgrowth in LB
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 ABZR87_RS08960 and ABZR87_RS08965 are separated by 69 nucleotides ABZR87_RS08965 and ABZR87_RS08970 overlap by 4 nucleotides ABZR87_RS08970 and ABZR87_RS08975 are separated by 12 nucleotides ABZR87_RS08975 and ABZR87_RS08980 are separated by 37 nucleotides
ABZR87_RS08960: ABZR87_RS08960 - bifunctional NADP-dependent 3-hydroxy acid dehydrogenase/3-hydroxypropionate dehydrogenase YdfG, at 1,902,850 to 1,903,602
_RS08960
ABZR87_RS08965: ABZR87_RS08965 - tol-pal system-associated acyl-CoA thioesterase, at 1,903,672 to 1,904,076
_RS08965
ABZR87_RS08970: ABZR87_RS08970 - protein TolQ, at 1,904,073 to 1,904,765
_RS08970
ABZR87_RS08975: ABZR87_RS08975 - protein TolR, at 1,904,778 to 1,905,212
_RS08975
ABZR87_RS08980: ABZR87_RS08980 - cell envelope integrity protein TolA, at 1,905,250 to 1,906,278
_RS08980
Position (kb) 1904
1905 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 1903.185 kb on + strand, within ABZR87_RS08960 at 1903.185 kb on + strand, within ABZR87_RS08960 at 1903.185 kb on + strand, within ABZR87_RS08960 at 1903.185 kb on + strand, within ABZR87_RS08960 at 1903.186 kb on - strand, within ABZR87_RS08960 at 1903.186 kb on - strand, within ABZR87_RS08960 at 1903.186 kb on - strand, within ABZR87_RS08960 at 1903.199 kb on + strand, within ABZR87_RS08960 at 1903.200 kb on - strand, within ABZR87_RS08960 at 1903.200 kb on - strand, within ABZR87_RS08960 at 1903.200 kb on - strand, within ABZR87_RS08960 at 1903.200 kb on - strand, within ABZR87_RS08960 at 1903.242 kb on + strand, within ABZR87_RS08960 at 1903.243 kb on - strand, within ABZR87_RS08960 at 1903.243 kb on - strand, within ABZR87_RS08960 at 1903.243 kb on - strand, within ABZR87_RS08960 at 1903.243 kb on - strand, within ABZR87_RS08960 at 1903.264 kb on + strand, within ABZR87_RS08960 at 1903.264 kb on + strand, within ABZR87_RS08960 at 1903.264 kb on + strand, within ABZR87_RS08960 at 1903.265 kb on - strand, within ABZR87_RS08960 at 1903.265 kb on - strand, within ABZR87_RS08960 at 1903.288 kb on + strand, within ABZR87_RS08960 at 1903.288 kb on + strand, within ABZR87_RS08960 at 1903.288 kb on + strand, within ABZR87_RS08960 at 1903.289 kb on - strand, within ABZR87_RS08960 at 1903.289 kb on - strand, within ABZR87_RS08960 at 1903.289 kb on - strand, within ABZR87_RS08960 at 1903.289 kb on - strand, within ABZR87_RS08960 at 1903.289 kb on - strand, within ABZR87_RS08960 at 1903.365 kb on - strand, within ABZR87_RS08960 at 1903.450 kb on + strand, within ABZR87_RS08960 at 1903.450 kb on + strand, within ABZR87_RS08960 at 1903.450 kb on + strand, within ABZR87_RS08960 at 1903.450 kb on + strand, within ABZR87_RS08960 at 1903.451 kb on - strand, within ABZR87_RS08960 at 1903.451 kb on - strand, within ABZR87_RS08960 at 1903.482 kb on + strand, within ABZR87_RS08960 at 1903.499 kb on - strand, within ABZR87_RS08960 at 1903.499 kb on - strand, within ABZR87_RS08960 at 1903.499 kb on - strand, within ABZR87_RS08960 at 1903.660 kb on + strand at 1903.666 kb on + strand at 1903.702 kb on + strand at 1903.702 kb on + strand at 1903.703 kb on - strand at 1903.703 kb on - strand at 1903.703 kb on - strand at 1903.713 kb on + strand, within ABZR87_RS08965 at 1903.713 kb on + strand, within ABZR87_RS08965 at 1903.738 kb on + strand, within ABZR87_RS08965 at 1903.739 kb on - strand, within ABZR87_RS08965 at 1903.747 kb on + strand, within ABZR87_RS08965 at 1903.748 kb on - strand, within ABZR87_RS08965 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.190 kb on + strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.191 kb on - strand, within ABZR87_RS08970 at 1904.287 kb on - strand, within ABZR87_RS08970 at 1904.287 kb on - strand, within ABZR87_RS08970 at 1904.429 kb on + strand, within ABZR87_RS08970 at 1904.429 kb on + strand, within ABZR87_RS08970 at 1904.429 kb on + strand, within ABZR87_RS08970 at 1904.430 kb on - strand, within ABZR87_RS08970 at 1904.430 kb on - strand, within ABZR87_RS08970 at 1904.430 kb on - strand, within ABZR87_RS08970 at 1904.430 kb on - strand, within ABZR87_RS08970 at 1904.442 kb on + strand, within ABZR87_RS08970 at 1904.442 kb on + strand, within ABZR87_RS08970 at 1904.443 kb on - strand, within ABZR87_RS08970 at 1904.511 kb on + strand, within ABZR87_RS08970 at 1904.511 kb on + strand, within ABZR87_RS08970 at 1904.511 kb on + strand, within ABZR87_RS08970 at 1904.512 kb on - strand, within ABZR87_RS08970 at 1904.512 kb on - strand, within ABZR87_RS08970 at 1904.512 kb on - strand, within ABZR87_RS08970 at 1904.670 kb on + strand, within ABZR87_RS08970 at 1904.671 kb on - strand, within ABZR87_RS08970 at 1904.671 kb on - strand, within ABZR87_RS08970 at 1904.671 kb on - strand, within ABZR87_RS08970 at 1904.680 kb on - strand, within ABZR87_RS08970 at 1904.783 kb on + strand at 1905.133 kb on - strand, within ABZR87_RS08975 at 1905.256 kb on - strand at 1905.256 kb on - strand at 1905.274 kb on + strand at 1905.274 kb on + strand at 1905.275 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction rhizosphere EcoFAB sample 1; outgrowth in LB remove 1,903,185 + ABZR87_RS08960 0.44 +1.9 1,903,185 + ABZR87_RS08960 0.44 +0.1 1,903,185 + ABZR87_RS08960 0.44 -0.0 1,903,185 + ABZR87_RS08960 0.44 -0.5 1,903,186 - ABZR87_RS08960 0.45 -0.2 1,903,186 - ABZR87_RS08960 0.45 +0.6 1,903,186 - ABZR87_RS08960 0.45 -1.3 1,903,199 + ABZR87_RS08960 0.46 +1.5 1,903,200 - ABZR87_RS08960 0.46 +0.6 1,903,200 - ABZR87_RS08960 0.46 +1.3 1,903,200 - ABZR87_RS08960 0.46 -0.7 1,903,200 - ABZR87_RS08960 0.46 -0.3 1,903,242 + ABZR87_RS08960 0.52 +1.8 1,903,243 - ABZR87_RS08960 0.52 +0.2 1,903,243 - ABZR87_RS08960 0.52 +0.7 1,903,243 - ABZR87_RS08960 0.52 -0.3 1,903,243 - ABZR87_RS08960 0.52 -0.6 1,903,264 + ABZR87_RS08960 0.55 +0.4 1,903,264 + ABZR87_RS08960 0.55 -0.3 1,903,264 + ABZR87_RS08960 0.55 -3.0 1,903,265 - ABZR87_RS08960 0.55 -3.9 1,903,265 - ABZR87_RS08960 0.55 +0.2 1,903,288 + ABZR87_RS08960 0.58 -0.6 1,903,288 + ABZR87_RS08960 0.58 -1.3 1,903,288 + ABZR87_RS08960 0.58 +0.6 1,903,289 - ABZR87_RS08960 0.58 -1.5 1,903,289 - ABZR87_RS08960 0.58 +0.6 1,903,289 - ABZR87_RS08960 0.58 -3.9 1,903,289 - ABZR87_RS08960 0.58 -3.6 1,903,289 - ABZR87_RS08960 0.58 -1.6 1,903,365 - ABZR87_RS08960 0.68 +1.1 1,903,450 + ABZR87_RS08960 0.80 +0.4 1,903,450 + ABZR87_RS08960 0.80 -3.3 1,903,450 + ABZR87_RS08960 0.80 +1.7 1,903,450 + ABZR87_RS08960 0.80 +0.8 1,903,451 - ABZR87_RS08960 0.80 +1.8 1,903,451 - ABZR87_RS08960 0.80 +1.5 1,903,482 + ABZR87_RS08960 0.84 -0.3 1,903,499 - ABZR87_RS08960 0.86 -2.9 1,903,499 - ABZR87_RS08960 0.86 +0.8 1,903,499 - ABZR87_RS08960 0.86 -2.6 1,903,660 + +0.2 1,903,666 + -0.1 1,903,702 + +3.2 1,903,702 + +1.4 1,903,703 - -2.3 1,903,703 - +1.1 1,903,703 - -3.4 1,903,713 + ABZR87_RS08965 0.10 -0.2 1,903,713 + ABZR87_RS08965 0.10 -0.8 1,903,738 + ABZR87_RS08965 0.16 +0.4 1,903,739 - ABZR87_RS08965 0.17 -0.8 1,903,747 + ABZR87_RS08965 0.19 +2.1 1,903,748 - ABZR87_RS08965 0.19 -0.2 1,904,190 + ABZR87_RS08970 0.17 -1.5 1,904,190 + ABZR87_RS08970 0.17 -0.8 1,904,190 + ABZR87_RS08970 0.17 -1.2 1,904,190 + ABZR87_RS08970 0.17 -1.5 1,904,190 + ABZR87_RS08970 0.17 -0.9 1,904,190 + ABZR87_RS08970 0.17 -1.9 1,904,191 - ABZR87_RS08970 0.17 -1.3 1,904,191 - ABZR87_RS08970 0.17 -2.2 1,904,191 - ABZR87_RS08970 0.17 +0.2 1,904,191 - ABZR87_RS08970 0.17 -2.3 1,904,191 - ABZR87_RS08970 0.17 -1.8 1,904,191 - ABZR87_RS08970 0.17 -0.7 1,904,191 - ABZR87_RS08970 0.17 -0.5 1,904,191 - ABZR87_RS08970 0.17 -1.4 1,904,191 - ABZR87_RS08970 0.17 -1.6 1,904,191 - ABZR87_RS08970 0.17 -2.1 1,904,191 - ABZR87_RS08970 0.17 -0.7 1,904,191 - ABZR87_RS08970 0.17 -2.5 1,904,191 - ABZR87_RS08970 0.17 -1.2 1,904,287 - ABZR87_RS08970 0.31 -1.0 1,904,287 - ABZR87_RS08970 0.31 -2.0 1,904,429 + ABZR87_RS08970 0.51 +0.4 1,904,429 + ABZR87_RS08970 0.51 -2.8 1,904,429 + ABZR87_RS08970 0.51 -2.6 1,904,430 - ABZR87_RS08970 0.52 -2.9 1,904,430 - ABZR87_RS08970 0.52 -0.9 1,904,430 - ABZR87_RS08970 0.52 -3.7 1,904,430 - ABZR87_RS08970 0.52 -1.5 1,904,442 + ABZR87_RS08970 0.53 -3.0 1,904,442 + ABZR87_RS08970 0.53 -2.2 1,904,443 - ABZR87_RS08970 0.53 -0.9 1,904,511 + ABZR87_RS08970 0.63 -0.2 1,904,511 + ABZR87_RS08970 0.63 -2.0 1,904,511 + ABZR87_RS08970 0.63 -0.6 1,904,512 - ABZR87_RS08970 0.63 -0.5 1,904,512 - ABZR87_RS08970 0.63 -2.5 1,904,512 - ABZR87_RS08970 0.63 -1.8 1,904,670 + ABZR87_RS08970 0.86 -2.3 1,904,671 - ABZR87_RS08970 0.86 -2.4 1,904,671 - ABZR87_RS08970 0.86 -0.4 1,904,671 - ABZR87_RS08970 0.86 -1.5 1,904,680 - ABZR87_RS08970 0.88 -2.9 1,904,783 + -2.3 1,905,133 - ABZR87_RS08975 0.82 -2.0 1,905,256 - -0.8 1,905,256 - -1.8 1,905,274 + +0.6 1,905,274 + -0.8 1,905,275 - -0.3
Or see this region's nucleotide sequence