Experiment: Ying_OrganicAcid7 rep B; time point 2
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 potE and speF overlap by 4 nucleotides speF and ybfK are separated by 122 nucleotides ybfK and kdpE are separated by 215 nucleotides
b0692: potE - putrescine/proton symporter: putrescine/ornithine antiporter (NCBI), at 716,169 to 717,488
potE
b0693: speF - ornithine decarboxylase isozyme, inducible (NCBI), at 717,485 to 719,683
speF
b4590: ybfK - hypothetical protein (RefSeq), at 719,806 to 720,063
ybfK
b0694: kdpE - DNA-binding response regulator in two-component regulatory system with KdpD (NCBI), at 720,279 to 720,956
kdpE
Position (kb) 717
718
719
720 Strain fitness (log2 ratio) -2
-1
0
1
2 at 716.522 kb on - strand, within potE at 716.663 kb on - strand, within potE at 716.702 kb on + strand, within potE at 716.710 kb on - strand, within potE at 716.763 kb on + strand, within potE at 716.763 kb on + strand, within potE at 716.788 kb on + strand, within potE at 716.788 kb on + strand, within potE at 716.868 kb on + strand, within potE at 716.982 kb on - strand, within potE at 716.997 kb on - strand, within potE at 717.074 kb on - strand, within potE at 717.096 kb on - strand, within potE at 717.157 kb on - strand, within potE at 717.157 kb on - strand, within potE at 717.225 kb on - strand, within potE at 717.225 kb on - strand, within potE at 717.442 kb on + strand at 717.442 kb on + strand at 717.442 kb on + strand at 717.444 kb on + strand at 717.498 kb on + strand at 717.498 kb on + strand at 717.538 kb on - strand at 717.545 kb on - strand at 717.585 kb on - strand at 717.636 kb on + strand at 717.660 kb on - strand at 717.660 kb on - strand at 717.679 kb on + strand at 717.684 kb on + strand at 717.736 kb on + strand, within speF at 717.736 kb on + strand, within speF at 717.760 kb on + strand, within speF at 717.815 kb on - strand at 717.815 kb on - strand, within speF at 717.872 kb on - strand, within speF at 717.961 kb on + strand, within speF at 718.010 kb on - strand, within speF at 718.010 kb on - strand, within speF at 718.313 kb on - strand, within speF at 718.339 kb on + strand, within speF at 718.408 kb on - strand, within speF at 718.426 kb on + strand, within speF at 718.443 kb on + strand, within speF at 718.473 kb on + strand, within speF at 718.473 kb on + strand, within speF at 718.506 kb on - strand, within speF at 718.553 kb on - strand, within speF at 718.639 kb on + strand, within speF at 718.670 kb on + strand, within speF at 718.716 kb on + strand, within speF at 718.729 kb on - strand, within speF at 718.729 kb on - strand, within speF at 718.733 kb on + strand, within speF at 718.749 kb on - strand, within speF at 718.829 kb on - strand, within speF at 718.852 kb on - strand, within speF at 718.982 kb on - strand, within speF at 718.982 kb on - strand, within speF at 719.054 kb on - strand, within speF at 719.054 kb on - strand, within speF at 719.059 kb on - strand, within speF at 719.059 kb on - strand, within speF at 719.141 kb on + strand, within speF at 719.141 kb on + strand, within speF at 719.154 kb on - strand, within speF at 719.219 kb on + strand, within speF at 719.230 kb on + strand, within speF at 719.261 kb on - strand, within speF at 719.288 kb on + strand, within speF at 719.293 kb on - strand, within speF at 719.293 kb on - strand, within speF at 719.308 kb on - strand, within speF at 719.313 kb on + strand, within speF at 719.313 kb on + strand, within speF at 719.321 kb on - strand, within speF at 719.321 kb on - strand, within speF at 719.321 kb on - strand, within speF at 719.331 kb on + strand, within speF at 719.333 kb on + strand, within speF at 719.341 kb on + strand, within speF at 719.341 kb on - strand, within speF at 719.356 kb on - strand, within speF at 719.370 kb on + strand, within speF at 719.404 kb on - strand, within speF at 719.408 kb on + strand, within speF at 719.432 kb on + strand, within speF at 719.459 kb on + strand, within speF at 719.459 kb on + strand, within speF at 719.470 kb on - strand at 719.470 kb on - strand at 719.471 kb on + strand at 719.480 kb on + strand at 719.511 kb on - strand at 719.554 kb on + strand at 719.592 kb on + strand at 719.632 kb on + strand at 719.632 kb on + strand at 719.636 kb on + strand at 719.636 kb on + strand at 719.815 kb on + strand at 719.829 kb on - strand at 719.829 kb on - strand at 719.911 kb on - strand, within ybfK at 719.913 kb on + strand, within ybfK at 719.915 kb on + strand, within ybfK at 719.920 kb on - strand, within ybfK at 719.921 kb on - strand, within ybfK at 719.923 kb on - strand, within ybfK at 719.926 kb on + strand, within ybfK at 720.247 kb on - strand at 720.247 kb on - strand at 720.298 kb on - strand at 720.305 kb on - strand at 720.321 kb on - strand at 720.323 kb on + strand at 720.323 kb on + strand at 720.330 kb on - strand at 720.330 kb on - strand at 720.331 kb on - strand at 720.332 kb on - strand at 720.332 kb on - strand at 720.336 kb on - strand at 720.358 kb on - strand, within kdpE at 720.391 kb on - strand, within kdpE at 720.403 kb on - strand, within kdpE at 720.420 kb on - strand, within kdpE at 720.441 kb on + strand, within kdpE at 720.441 kb on + strand, within kdpE at 720.449 kb on - strand, within kdpE at 720.481 kb on - strand, within kdpE at 720.512 kb on + strand, within kdpE at 720.512 kb on + strand, within kdpE at 720.627 kb on + strand, within kdpE at 720.678 kb on + strand, within kdpE at 720.678 kb on + strand, within kdpE
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_OrganicAcid7 rep B; time point 2 remove 716,522 - potE b0692 0.27 -0.1 716,663 - potE b0692 0.37 -0.8 716,702 + potE b0692 0.40 +0.3 716,710 - potE b0692 0.41 -1.1 716,763 + potE b0692 0.45 -1.7 716,763 + potE b0692 0.45 +0.5 716,788 + potE b0692 0.47 -1.8 716,788 + potE b0692 0.47 -0.2 716,868 + potE b0692 0.53 -0.3 716,982 - potE b0692 0.62 +0.2 716,997 - potE b0692 0.63 -0.4 717,074 - potE b0692 0.69 -0.1 717,096 - potE b0692 0.70 +0.3 717,157 - potE b0692 0.75 +0.7 717,157 - potE b0692 0.75 +0.1 717,225 - potE b0692 0.80 -1.2 717,225 - potE b0692 0.80 +0.3 717,442 + -1.2 717,442 + +0.4 717,442 + -0.1 717,444 + -0.2 717,498 + -1.0 717,498 + -0.3 717,538 - +0.0 717,545 - -0.4 717,585 - -0.1 717,636 + +0.9 717,660 - +0.7 717,660 - +0.3 717,679 + +0.2 717,684 + -0.0 717,736 + speF b0693 0.11 +0.8 717,736 + speF b0693 0.11 +0.1 717,760 + speF b0693 0.13 -0.3 717,815 - -0.3 717,815 - speF b0693 0.15 +0.0 717,872 - speF b0693 0.18 +0.3 717,961 + speF b0693 0.22 +0.1 718,010 - speF b0693 0.24 +0.0 718,010 - speF b0693 0.24 -1.0 718,313 - speF b0693 0.38 -0.9 718,339 + speF b0693 0.39 -0.3 718,408 - speF b0693 0.42 -0.6 718,426 + speF b0693 0.43 +0.1 718,443 + speF b0693 0.44 +0.1 718,473 + speF b0693 0.45 -0.2 718,473 + speF b0693 0.45 -0.4 718,506 - speF b0693 0.46 +0.2 718,553 - speF b0693 0.49 -0.1 718,639 + speF b0693 0.52 -0.3 718,670 + speF b0693 0.54 +0.2 718,716 + speF b0693 0.56 +0.0 718,729 - speF b0693 0.57 -0.3 718,729 - speF b0693 0.57 +0.5 718,733 + speF b0693 0.57 -0.1 718,749 - speF b0693 0.57 +0.2 718,829 - speF b0693 0.61 -0.1 718,852 - speF b0693 0.62 +0.0 718,982 - speF b0693 0.68 +0.0 718,982 - speF b0693 0.68 +0.1 719,054 - speF b0693 0.71 +0.3 719,054 - speF b0693 0.71 -0.1 719,059 - speF b0693 0.72 -0.6 719,059 - speF b0693 0.72 +0.2 719,141 + speF b0693 0.75 -0.6 719,141 + speF b0693 0.75 +0.1 719,154 - speF b0693 0.76 +0.1 719,219 + speF b0693 0.79 +0.6 719,230 + speF b0693 0.79 +0.9 719,261 - speF b0693 0.81 -0.2 719,288 + speF b0693 0.82 -0.6 719,293 - speF b0693 0.82 +0.9 719,293 - speF b0693 0.82 +0.3 719,308 - speF b0693 0.83 +0.6 719,313 + speF b0693 0.83 -0.1 719,313 + speF b0693 0.83 -1.1 719,321 - speF b0693 0.83 +0.7 719,321 - speF b0693 0.83 +0.8 719,321 - speF b0693 0.83 -0.6 719,331 + speF b0693 0.84 +1.2 719,333 + speF b0693 0.84 +0.6 719,341 + speF b0693 0.84 +0.3 719,341 - speF b0693 0.84 -0.7 719,356 - speF b0693 0.85 -1.0 719,370 + speF b0693 0.86 -0.0 719,404 - speF b0693 0.87 -0.6 719,408 + speF b0693 0.87 +1.7 719,432 + speF b0693 0.89 -0.7 719,459 + speF b0693 0.90 +0.6 719,459 + speF b0693 0.90 +1.6 719,470 - +1.6 719,470 - +0.5 719,471 + -0.4 719,480 + +0.5 719,511 - +0.0 719,554 + +0.4 719,592 + -0.4 719,632 + +0.0 719,632 + +1.1 719,636 + +2.0 719,636 + +0.1 719,815 + +0.4 719,829 - +0.4 719,829 - -0.0 719,911 - ybfK b4590 0.41 +2.4 719,913 + ybfK b4590 0.41 +2.4 719,915 + ybfK b4590 0.42 +1.4 719,920 - ybfK b4590 0.44 -1.4 719,921 - ybfK b4590 0.45 +1.4 719,923 - ybfK b4590 0.45 +1.4 719,926 + ybfK b4590 0.47 +2.4 720,247 - +0.4 720,247 - +0.4 720,298 - +0.4 720,305 - +0.4 720,321 - -0.2 720,323 + +2.3 720,323 + +1.3 720,330 - -0.0 720,330 - +1.0 720,331 - -0.5 720,332 - -0.8 720,332 - +2.0 720,336 - -0.9 720,358 - kdpE b0694 0.12 -0.2 720,391 - kdpE b0694 0.17 -0.9 720,403 - kdpE b0694 0.18 -0.3 720,420 - kdpE b0694 0.21 +0.2 720,441 + kdpE b0694 0.24 +0.7 720,441 + kdpE b0694 0.24 +0.1 720,449 - kdpE b0694 0.25 +0.2 720,481 - kdpE b0694 0.30 +0.5 720,512 + kdpE b0694 0.34 -0.2 720,512 + kdpE b0694 0.34 +0.1 720,627 + kdpE b0694 0.51 +0.2 720,678 + kdpE b0694 0.59 -0.5 720,678 + kdpE b0694 0.59 +0.5
Or see this region's nucleotide sequence