Experiment: Ying_Nucleobase14 rep A; 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 ksgA and pdxA overlap by 4 nucleotides pdxA and surA overlap by 1 nucleotides surA and imp are separated by 52 nucleotides
b0051: ksgA - dimethyladenosine transferase (NCBI), at 51,609 to 52,430
ksgA
b0052: pdxA - 4-hydroxythreonine-4-phosphate dehydrogenase (NCBI), at 52,427 to 53,416
pdxA
b0053: surA - peptidyl-prolyl cis-trans isomerase (PPIase) (NCBI), at 53,416 to 54,702
surA
b0054: imp - organic solvent tolerance protein precursor (NCBI), at 54,755 to 57,109
imp
Position (kb) 53
54
55 Strain fitness (log2 ratio) -2
-1
0
1
2 at 52.420 kb on - strand at 52.490 kb on + strand at 52.490 kb on + strand at 52.502 kb on + strand at 52.502 kb on + strand at 52.518 kb on - strand at 52.518 kb on - strand at 52.626 kb on + strand, within pdxA at 52.688 kb on - strand, within pdxA at 52.735 kb on + strand, within pdxA at 52.735 kb on + strand, within pdxA at 52.740 kb on - strand, within pdxA at 52.766 kb on - strand, within pdxA at 52.780 kb on - strand, within pdxA at 52.797 kb on - strand, within pdxA at 52.879 kb on - strand, within pdxA at 52.914 kb on + strand, within pdxA at 52.982 kb on - strand, within pdxA at 52.982 kb on - strand, within pdxA at 52.983 kb on + strand, within pdxA at 53.061 kb on - strand, within pdxA at 53.062 kb on - strand, within pdxA at 53.062 kb on - strand at 53.064 kb on + strand, within pdxA at 53.067 kb on - strand, within pdxA at 53.163 kb on - strand, within pdxA at 53.163 kb on - strand, within pdxA at 53.181 kb on - strand, within pdxA at 53.181 kb on - strand, within pdxA at 53.202 kb on - strand, within pdxA at 53.221 kb on + strand, within pdxA at 53.221 kb on + strand, within pdxA at 53.226 kb on - strand, within pdxA at 53.246 kb on - strand, within pdxA at 53.291 kb on + strand, within pdxA at 53.328 kb on + strand at 53.328 kb on + strand at 53.338 kb on + strand at 53.338 kb on + strand at 53.338 kb on + strand at 53.338 kb on + strand at 53.346 kb on - strand at 53.346 kb on - strand at 53.346 kb on - strand at 53.460 kb on - strand at 53.460 kb on - strand at 53.468 kb on - strand at 53.524 kb on - strand at 53.552 kb on + strand, within surA at 53.554 kb on - strand, within surA at 53.565 kb on - strand, within surA at 53.565 kb on - strand, within surA at 53.591 kb on + strand, within surA at 53.603 kb on + strand, within surA at 53.616 kb on - strand, within surA at 53.633 kb on - strand, within surA at 53.633 kb on - strand, within surA at 53.667 kb on + strand, within surA at 53.695 kb on - strand, within surA at 53.702 kb on - strand, within surA at 53.702 kb on - strand, within surA at 53.704 kb on + strand, within surA at 53.736 kb on + strand, within surA at 53.766 kb on - strand, within surA at 53.766 kb on - strand, within surA at 53.776 kb on - strand, within surA at 53.797 kb on - strand, within surA at 53.802 kb on + strand, within surA at 53.807 kb on - strand, within surA at 53.910 kb on + strand, within surA at 53.991 kb on + strand, within surA at 53.997 kb on - strand, within surA at 54.015 kb on - strand, within surA at 54.015 kb on - strand, within surA at 54.015 kb on - strand, within surA at 54.035 kb on - strand, within surA at 54.048 kb on + strand, within surA at 54.148 kb on + strand, within surA at 54.166 kb on - strand, within surA at 54.166 kb on - strand, within surA at 54.178 kb on + strand, within surA at 54.196 kb on - strand, within surA at 54.205 kb on + strand, within surA at 54.285 kb on - strand, within surA at 54.285 kb on - strand, within surA at 54.406 kb on + strand, within surA at 54.487 kb on - strand, within surA at 54.495 kb on - strand, within surA at 54.507 kb on + strand, within surA at 54.568 kb on - strand, within surA at 54.612 kb on - strand at 54.612 kb on - strand at 54.612 kb on - strand at 54.637 kb on - strand at 54.826 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep A; time point 2 remove 52,420 - -1.5 52,490 + +0.6 52,490 + -0.8 52,502 + +1.1 52,502 + -0.9 52,518 - -0.8 52,518 - -0.0 52,626 + pdxA b0052 0.20 -0.8 52,688 - pdxA b0052 0.26 -0.7 52,735 + pdxA b0052 0.31 +0.0 52,735 + pdxA b0052 0.31 +0.4 52,740 - pdxA b0052 0.32 +0.4 52,766 - pdxA b0052 0.34 +0.5 52,780 - pdxA b0052 0.36 -0.3 52,797 - pdxA b0052 0.37 -0.1 52,879 - pdxA b0052 0.46 -0.0 52,914 + pdxA b0052 0.49 -0.7 52,982 - pdxA b0052 0.56 -0.1 52,982 - pdxA b0052 0.56 +0.2 52,983 + pdxA b0052 0.56 -0.3 53,061 - pdxA b0052 0.64 -0.2 53,062 - pdxA b0052 0.64 -0.4 53,062 - -0.4 53,064 + pdxA b0052 0.64 -0.2 53,067 - pdxA b0052 0.65 -1.2 53,163 - pdxA b0052 0.74 -0.5 53,163 - pdxA b0052 0.74 -0.6 53,181 - pdxA b0052 0.76 -0.3 53,181 - pdxA b0052 0.76 -0.0 53,202 - pdxA b0052 0.78 -0.0 53,221 + pdxA b0052 0.80 -0.4 53,221 + pdxA b0052 0.80 -0.4 53,226 - pdxA b0052 0.81 -0.2 53,246 - pdxA b0052 0.83 -0.7 53,291 + pdxA b0052 0.87 -0.8 53,328 + -0.3 53,328 + -0.1 53,338 + -0.1 53,338 + -0.2 53,338 + +0.0 53,338 + +0.2 53,346 - -0.6 53,346 - -0.5 53,346 - +0.3 53,460 - +1.0 53,460 - -0.2 53,468 - +0.7 53,524 - +1.8 53,552 + surA b0053 0.11 +1.5 53,554 - surA b0053 0.11 +1.2 53,565 - surA b0053 0.12 -1.8 53,565 - surA b0053 0.12 +1.8 53,591 + surA b0053 0.14 +1.0 53,603 + surA b0053 0.15 +1.0 53,616 - surA b0053 0.16 +0.8 53,633 - surA b0053 0.17 +1.2 53,633 - surA b0053 0.17 +0.6 53,667 + surA b0053 0.20 +1.1 53,695 - surA b0053 0.22 +1.5 53,702 - surA b0053 0.22 +1.3 53,702 - surA b0053 0.22 +1.2 53,704 + surA b0053 0.22 +1.5 53,736 + surA b0053 0.25 +0.9 53,766 - surA b0053 0.27 +1.1 53,766 - surA b0053 0.27 +1.2 53,776 - surA b0053 0.28 +1.8 53,797 - surA b0053 0.30 +2.4 53,802 + surA b0053 0.30 +1.2 53,807 - surA b0053 0.30 +1.2 53,910 + surA b0053 0.38 +0.3 53,991 + surA b0053 0.45 +0.4 53,997 - surA b0053 0.45 +1.5 54,015 - surA b0053 0.47 +0.4 54,015 - surA b0053 0.47 +0.7 54,015 - surA b0053 0.47 -0.0 54,035 - surA b0053 0.48 +1.1 54,048 + surA b0053 0.49 -0.1 54,148 + surA b0053 0.57 +0.9 54,166 - surA b0053 0.58 +2.0 54,166 - surA b0053 0.58 +0.5 54,178 + surA b0053 0.59 +1.1 54,196 - surA b0053 0.61 +1.1 54,205 + surA b0053 0.61 +1.0 54,285 - surA b0053 0.68 +0.8 54,285 - surA b0053 0.68 +0.2 54,406 + surA b0053 0.77 +0.0 54,487 - surA b0053 0.83 +0.9 54,495 - surA b0053 0.84 -0.1 54,507 + surA b0053 0.85 +1.7 54,568 - surA b0053 0.90 +1.1 54,612 - +1.1 54,612 - +0.8 54,612 - +0.3 54,637 - +0.6 54,826 - +0.1
Or see this region's nucleotide sequence