Experiment: Upstate
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 DDA3937_RS01540 and DDA3937_RS01545 overlap by 23 nucleotides DDA3937_RS01545 and DDA3937_RS01550 overlap by 4 nucleotides DDA3937_RS01550 and DDA3937_RS01555 are separated by 49 nucleotides
DDA3937_RS01540: DDA3937_RS01540 - lipopolysaccharide ABC transporter substrate-binding protein LptA, at 343,163 to 343,741
_RS01540
DDA3937_RS01545: DDA3937_RS01545 - LPS export ABC transporter periplasmic protein LptC, at 343,719 to 344,288
_RS01545
DDA3937_RS01550: DDA3937_RS01550 - 3-deoxy-manno-octulosonate-8-phosphatase KdsC, at 344,285 to 344,851
_RS01550
DDA3937_RS01555: DDA3937_RS01555 - arabinose-5-phosphate isomerase KdsD, at 344,901 to 345,887
_RS01555
Position (kb) 344
345 Strain fitness (log2 ratio) -3
-2
-1
0
1 at 343.879 kb on - strand, within DDA3937_RS01545 at 344.318 kb on - strand at 344.336 kb on - strand at 344.378 kb on - strand, within DDA3937_RS01550 at 344.519 kb on - strand, within DDA3937_RS01550 at 344.519 kb on - strand, within DDA3937_RS01550 at 344.519 kb on - strand, within DDA3937_RS01550 at 344.519 kb on - strand, within DDA3937_RS01550 at 344.566 kb on - strand, within DDA3937_RS01550 at 344.568 kb on - strand, within DDA3937_RS01550 at 344.568 kb on - strand, within DDA3937_RS01550 at 344.568 kb on - strand, within DDA3937_RS01550 at 344.568 kb on - strand, within DDA3937_RS01550 at 344.630 kb on - strand, within DDA3937_RS01550 at 344.724 kb on + strand, within DDA3937_RS01550 at 344.724 kb on + strand, within DDA3937_RS01550 at 344.724 kb on + strand, within DDA3937_RS01550 at 344.725 kb on - strand, within DDA3937_RS01550 at 344.725 kb on - strand, within DDA3937_RS01550 at 344.744 kb on + strand, within DDA3937_RS01550 at 344.745 kb on - strand, within DDA3937_RS01550 at 344.774 kb on + strand at 344.774 kb on + strand, within DDA3937_RS01550 at 344.774 kb on + strand, within DDA3937_RS01550 at 344.774 kb on + strand, within DDA3937_RS01550 at 344.774 kb on + strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.775 kb on - strand, within DDA3937_RS01550 at 344.777 kb on - strand, within DDA3937_RS01550 at 344.859 kb on + strand at 344.859 kb on + strand at 344.860 kb on - strand at 344.860 kb on - strand at 344.860 kb on - strand at 344.860 kb on - strand at 344.860 kb on - strand at 344.885 kb on + strand at 344.886 kb on - strand at 344.886 kb on - strand at 344.886 kb on - strand at 344.886 kb on - strand at 344.904 kb on + strand at 344.905 kb on - strand at 344.905 kb on - strand at 344.905 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction Upstate remove 343,879 - DDA3937_RS01545 0.28 +0.9 344,318 - +0.6 344,336 - -0.1 344,378 - DDA3937_RS01550 0.16 -1.8 344,519 - DDA3937_RS01550 0.41 -0.6 344,519 - DDA3937_RS01550 0.41 -2.0 344,519 - DDA3937_RS01550 0.41 -3.1 344,519 - DDA3937_RS01550 0.41 -1.4 344,566 - DDA3937_RS01550 0.50 -1.4 344,568 - DDA3937_RS01550 0.50 -0.8 344,568 - DDA3937_RS01550 0.50 -2.7 344,568 - DDA3937_RS01550 0.50 +1.2 344,568 - DDA3937_RS01550 0.50 -1.7 344,630 - DDA3937_RS01550 0.61 -1.2 344,724 + DDA3937_RS01550 0.77 -0.1 344,724 + DDA3937_RS01550 0.77 -0.6 344,724 + DDA3937_RS01550 0.77 -1.1 344,725 - DDA3937_RS01550 0.78 -0.8 344,725 - DDA3937_RS01550 0.78 -0.6 344,744 + DDA3937_RS01550 0.81 -2.1 344,745 - DDA3937_RS01550 0.81 -0.4 344,774 + +0.2 344,774 + DDA3937_RS01550 0.86 -0.4 344,774 + DDA3937_RS01550 0.86 -0.1 344,774 + DDA3937_RS01550 0.86 -1.8 344,774 + DDA3937_RS01550 0.86 -1.1 344,775 - DDA3937_RS01550 0.86 -0.9 344,775 - DDA3937_RS01550 0.86 -1.4 344,775 - DDA3937_RS01550 0.86 -0.9 344,775 - DDA3937_RS01550 0.86 -0.8 344,775 - DDA3937_RS01550 0.86 -1.6 344,775 - DDA3937_RS01550 0.86 -1.8 344,775 - DDA3937_RS01550 0.86 -0.8 344,775 - DDA3937_RS01550 0.86 -0.4 344,775 - DDA3937_RS01550 0.86 -0.4 344,775 - DDA3937_RS01550 0.86 +0.2 344,775 - DDA3937_RS01550 0.86 -1.6 344,777 - DDA3937_RS01550 0.87 -0.6 344,859 + -1.6 344,859 + -1.1 344,860 - -2.5 344,860 - +0.7 344,860 - -0.2 344,860 - +1.0 344,860 - -1.9 344,885 + -1.5 344,886 - +0.4 344,886 - -0.8 344,886 - -0.6 344,886 - +1.0 344,904 + -0.8 344,905 - -0.8 344,905 - -1.7 344,905 - -2.0
Or see this region's nucleotide sequence