Strain Fitness in Dickeya dadantii 3937 around DDA3937_RS04230

Experiment: Upstate

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntDDA3937_RS04225 and DDA3937_RS04230 overlap by 4 nucleotidesDDA3937_RS04230 and DDA3937_RS04235 are separated by 8 nucleotidesDDA3937_RS04235 and DDA3937_RS04240 overlap by 14 nucleotidesDDA3937_RS04240 and DDA3937_RS04245 overlap by 1 nucleotides DDA3937_RS04225: DDA3937_RS04225 - DUF2586 domain-containing protein, at 933,897 to 935,012 _RS04225 DDA3937_RS04230: DDA3937_RS04230 - DUF2597 family protein, at 935,009 to 935,464 _RS04230 DDA3937_RS04235: DDA3937_RS04235 - phage holin family protein, at 935,473 to 935,778 _RS04235 DDA3937_RS04240: DDA3937_RS04240 - M15 family metallopeptidase, at 935,765 to 936,106 _RS04240 DDA3937_RS04245: DDA3937_RS04245 - hypothetical protein, at 936,106 to 936,462 _RS04245 Position (kb) 935 936Strain fitness (log2 ratio) -1 0 1 2 3at 934.023 kb on - strand, within DDA3937_RS04225at 934.252 kb on + strand, within DDA3937_RS04225at 934.252 kb on + strand, within DDA3937_RS04225at 934.252 kb on + strand, within DDA3937_RS04225at 934.341 kb on + strand, within DDA3937_RS04225at 934.341 kb on + strand, within DDA3937_RS04225at 934.342 kb on - strand, within DDA3937_RS04225at 934.345 kb on + strand, within DDA3937_RS04225at 934.359 kb on - strand, within DDA3937_RS04225at 934.359 kb on - strand, within DDA3937_RS04225at 934.568 kb on - strand, within DDA3937_RS04225at 934.590 kb on + strand, within DDA3937_RS04225at 934.617 kb on + strand, within DDA3937_RS04225at 934.617 kb on + strand, within DDA3937_RS04225at 934.626 kb on + strand, within DDA3937_RS04225at 934.627 kb on - strand, within DDA3937_RS04225at 934.629 kb on + strand, within DDA3937_RS04225at 934.630 kb on - strand, within DDA3937_RS04225at 934.630 kb on - strand, within DDA3937_RS04225at 934.630 kb on - strand, within DDA3937_RS04225at 934.671 kb on + strand, within DDA3937_RS04225at 934.797 kb on + strand, within DDA3937_RS04225at 934.797 kb on + strand, within DDA3937_RS04225at 934.798 kb on - strand, within DDA3937_RS04225at 934.798 kb on - strand, within DDA3937_RS04225at 934.944 kb on - strandat 934.947 kb on + strandat 934.947 kb on + strandat 934.947 kb on + strandat 934.948 kb on - strandat 934.948 kb on - strandat 934.948 kb on - strandat 934.988 kb on + strandat 934.988 kb on + strandat 934.989 kb on - strandat 934.989 kb on - strandat 935.178 kb on + strand, within DDA3937_RS04230at 935.178 kb on + strand, within DDA3937_RS04230at 935.178 kb on + strand, within DDA3937_RS04230at 935.178 kb on + strand, within DDA3937_RS04230at 935.178 kb on + strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.179 kb on - strand, within DDA3937_RS04230at 935.183 kb on - strand, within DDA3937_RS04230at 935.265 kb on - strand, within DDA3937_RS04230at 935.377 kb on + strand, within DDA3937_RS04230at 935.378 kb on - strand, within DDA3937_RS04230at 935.378 kb on - strand, within DDA3937_RS04230at 935.483 kb on - strandat 935.504 kb on + strand, within DDA3937_RS04235at 935.535 kb on + strand, within DDA3937_RS04235at 935.733 kb on + strand, within DDA3937_RS04235at 935.734 kb on - strand, within DDA3937_RS04235at 935.736 kb on + strand, within DDA3937_RS04235at 935.736 kb on + strand, within DDA3937_RS04235at 935.736 kb on + strand, within DDA3937_RS04235at 935.736 kb on + strand, within DDA3937_RS04235at 935.736 kb on + strand, within DDA3937_RS04235at 935.737 kb on - strand, within DDA3937_RS04235at 935.737 kb on - strand, within DDA3937_RS04235at 935.737 kb on - strand, within DDA3937_RS04235at 935.737 kb on - strand, within DDA3937_RS04235at 935.772 kb on + strandat 935.772 kb on + strandat 935.773 kb on - strandat 935.773 kb on - strandat 935.790 kb on + strandat 935.790 kb on + strandat 935.791 kb on - strandat 935.791 kb on - strandat 935.864 kb on + strand, within DDA3937_RS04240at 935.865 kb on - strand, within DDA3937_RS04240at 935.929 kb on + strand, within DDA3937_RS04240at 935.975 kb on + strand, within DDA3937_RS04240at 935.996 kb on + strand, within DDA3937_RS04240at 935.996 kb on + strand, within DDA3937_RS04240at 935.996 kb on + strand, within DDA3937_RS04240at 935.997 kb on - strand, within DDA3937_RS04240at 936.249 kb on - strand, within DDA3937_RS04245at 936.249 kb on - strand, within DDA3937_RS04245at 936.302 kb on + strand, within DDA3937_RS04245at 936.303 kb on - strand, within DDA3937_RS04245at 936.355 kb on - strand, within DDA3937_RS04245at 936.355 kb on - strand, within DDA3937_RS04245at 936.358 kb on - strand, within DDA3937_RS04245at 936.392 kb on - strand, within DDA3937_RS04245at 936.392 kb on - strand, within DDA3937_RS04245at 936.425 kb on + strand, within DDA3937_RS04245at 936.461 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Upstate
remove
934,023 - DDA3937_RS04225 0.11 -0.6
934,252 + DDA3937_RS04225 0.32 +0.7
934,252 + DDA3937_RS04225 0.32 -0.7
934,252 + DDA3937_RS04225 0.32 +0.9
934,341 + DDA3937_RS04225 0.40 -0.1
934,341 + DDA3937_RS04225 0.40 +1.2
934,342 - DDA3937_RS04225 0.40 +1.0
934,345 + DDA3937_RS04225 0.40 +1.0
934,359 - DDA3937_RS04225 0.41 -0.7
934,359 - DDA3937_RS04225 0.41 -0.5
934,568 - DDA3937_RS04225 0.60 -0.5
934,590 + DDA3937_RS04225 0.62 +0.6
934,617 + DDA3937_RS04225 0.65 +1.1
934,617 + DDA3937_RS04225 0.65 +2.4
934,626 + DDA3937_RS04225 0.65 +0.5
934,627 - DDA3937_RS04225 0.65 -1.7
934,629 + DDA3937_RS04225 0.66 +0.1
934,630 - DDA3937_RS04225 0.66 +1.0
934,630 - DDA3937_RS04225 0.66 +0.4
934,630 - DDA3937_RS04225 0.66 +1.9
934,671 + DDA3937_RS04225 0.69 +2.1
934,797 + DDA3937_RS04225 0.81 +1.0
934,797 + DDA3937_RS04225 0.81 +0.8
934,798 - DDA3937_RS04225 0.81 +0.0
934,798 - DDA3937_RS04225 0.81 +2.6
934,944 - +1.1
934,947 + +2.5
934,947 + +1.9
934,947 + +0.9
934,948 - +0.6
934,948 - -0.5
934,948 - -0.5
934,988 + +0.7
934,988 + +1.7
934,989 - -1.3
934,989 - +0.5
935,178 + DDA3937_RS04230 0.37 +0.8
935,178 + DDA3937_RS04230 0.37 +2.1
935,178 + DDA3937_RS04230 0.37 +0.3
935,178 + DDA3937_RS04230 0.37 +0.5
935,178 + DDA3937_RS04230 0.37 +2.2
935,179 - DDA3937_RS04230 0.37 -1.7
935,179 - DDA3937_RS04230 0.37 -0.7
935,179 - DDA3937_RS04230 0.37 +2.0
935,179 - DDA3937_RS04230 0.37 -0.1
935,179 - DDA3937_RS04230 0.37 -1.1
935,179 - DDA3937_RS04230 0.37 -0.7
935,179 - DDA3937_RS04230 0.37 +0.4
935,179 - DDA3937_RS04230 0.37 +0.3
935,179 - DDA3937_RS04230 0.37 -0.3
935,179 - DDA3937_RS04230 0.37 +0.9
935,183 - DDA3937_RS04230 0.38 +0.2
935,265 - DDA3937_RS04230 0.56 -0.2
935,377 + DDA3937_RS04230 0.81 +1.0
935,378 - DDA3937_RS04230 0.81 -1.1
935,378 - DDA3937_RS04230 0.81 -0.3
935,483 - -0.3
935,504 + DDA3937_RS04235 0.10 +1.8
935,535 + DDA3937_RS04235 0.20 +3.1
935,733 + DDA3937_RS04235 0.85 +1.1
935,734 - DDA3937_RS04235 0.85 -0.1
935,736 + DDA3937_RS04235 0.86 +3.0
935,736 + DDA3937_RS04235 0.86 -0.3
935,736 + DDA3937_RS04235 0.86 +1.7
935,736 + DDA3937_RS04235 0.86 +2.2
935,736 + DDA3937_RS04235 0.86 +1.9
935,737 - DDA3937_RS04235 0.86 +0.3
935,737 - DDA3937_RS04235 0.86 +0.3
935,737 - DDA3937_RS04235 0.86 +0.1
935,737 - DDA3937_RS04235 0.86 -0.1
935,772 + -0.6
935,772 + -0.9
935,773 - +0.7
935,773 - +1.4
935,790 + -1.1
935,790 + +0.1
935,791 - -0.6
935,791 - -0.1
935,864 + DDA3937_RS04240 0.29 -1.1
935,865 - DDA3937_RS04240 0.29 -0.3
935,929 + DDA3937_RS04240 0.48 +0.5
935,975 + DDA3937_RS04240 0.61 +0.1
935,996 + DDA3937_RS04240 0.68 -1.2
935,996 + DDA3937_RS04240 0.68 -0.5
935,996 + DDA3937_RS04240 0.68 -0.4
935,997 - DDA3937_RS04240 0.68 -0.6
936,249 - DDA3937_RS04245 0.40 -0.6
936,249 - DDA3937_RS04245 0.40 -0.6
936,302 + DDA3937_RS04245 0.55 +0.4
936,303 - DDA3937_RS04245 0.55 +0.1
936,355 - DDA3937_RS04245 0.70 -0.1
936,355 - DDA3937_RS04245 0.70 -0.1
936,358 - DDA3937_RS04245 0.71 +0.6
936,392 - DDA3937_RS04245 0.80 -0.1
936,392 - DDA3937_RS04245 0.80 -0.4
936,425 + DDA3937_RS04245 0.89 -1.2
936,461 - -0.1

Or see this region's nucleotide sequence