Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF111

Experiment: Ying_OrganicAcid7 rep B; time point 2

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 ntGFF109 and GFF110 are separated by 64 nucleotidesGFF110 and GFF111 are separated by 143 nucleotidesGFF111 and GFF112 are separated by 8 nucleotidesGFF112 and GFF113 are separated by 1 nucleotides GFF109 - FIG004556: membrane metalloprotease, at 117,612 to 118,280 GFF109 GFF110 - Hypothetical YciO protein, TsaC/YrdC paralog, at 118,345 to 118,980 GFF110 GFF111 - ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD, at 119,124 to 121,628 GFF111 GFF112 - Ku domain protein, at 121,637 to 122,470 GFF112 GFF113 - Membrane protein, putative, at 122,472 to 123,383 GFF113 Position (kb) 119 120 121 122Strain fitness (log2 ratio) -1 0 1at 118.178 kb on - strand, within GFF109at 118.192 kb on + strand, within GFF109at 118.305 kb on + strandat 118.691 kb on + strand, within GFF110at 118.691 kb on + strand, within GFF110at 118.692 kb on - strand, within GFF110at 118.692 kb on - strand, within GFF110at 118.724 kb on + strand, within GFF110at 118.725 kb on - strand, within GFF110at 118.748 kb on + strand, within GFF110at 118.748 kb on + strand, within GFF110at 118.868 kb on + strand, within GFF110at 118.868 kb on + strand, within GFF110at 118.868 kb on + strand, within GFF110at 118.869 kb on - strand, within GFF110at 118.869 kb on - strand, within GFF110at 118.970 kb on + strandat 118.970 kb on + strandat 118.970 kb on + strandat 118.970 kb on + strandat 119.160 kb on + strandat 119.160 kb on + strandat 119.161 kb on - strandat 119.161 kb on - strandat 119.271 kb on + strandat 119.271 kb on + strandat 119.271 kb on + strandat 119.272 kb on - strandat 119.424 kb on + strand, within GFF111at 119.808 kb on + strand, within GFF111at 119.809 kb on - strand, within GFF111at 119.956 kb on - strand, within GFF111at 120.054 kb on + strand, within GFF111at 120.054 kb on + strand, within GFF111at 120.054 kb on + strand, within GFF111at 120.055 kb on - strand, within GFF111at 120.072 kb on + strand, within GFF111at 120.072 kb on + strand, within GFF111at 120.072 kb on + strand, within GFF111at 120.072 kb on + strand, within GFF111at 120.073 kb on - strand, within GFF111at 120.073 kb on - strand, within GFF111at 120.945 kb on + strand, within GFF111at 121.841 kb on + strand, within GFF112at 121.841 kb on + strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.842 kb on - strand, within GFF112at 121.958 kb on + strand, within GFF112at 121.958 kb on + strand, within GFF112at 121.959 kb on - strand, within GFF112at 121.959 kb on - strand, within GFF112at 121.961 kb on + strand, within GFF112at 121.961 kb on + strand, within GFF112at 121.994 kb on + strand, within GFF112at 121.994 kb on + strand, within GFF112at 121.994 kb on + strand, within GFF112at 121.994 kb on + strand, within GFF112at 121.995 kb on - strand, within GFF112at 121.995 kb on - strand, within GFF112at 121.995 kb on - strand, within GFF112at 121.995 kb on - strand, within GFF112at 122.261 kb on + strand, within GFF112at 122.261 kb on + strand, within GFF112

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Ying_OrganicAcid7 rep B; time point 2
remove
118,178 - GFF109 0.85 -0.1
118,192 + GFF109 0.87 -0.4
118,305 + +0.2
118,691 + GFF110 0.54 -0.3
118,691 + GFF110 0.54 -0.9
118,692 - GFF110 0.55 +0.3
118,692 - GFF110 0.55 +0.2
118,724 + GFF110 0.60 +0.3
118,725 - GFF110 0.60 +1.6
118,748 + GFF110 0.63 -1.1
118,748 + GFF110 0.63 +0.1
118,868 + GFF110 0.82 -0.1
118,868 + GFF110 0.82 +0.1
118,868 + GFF110 0.82 -0.3
118,869 - GFF110 0.82 -0.8
118,869 - GFF110 0.82 +0.1
118,970 + +0.0
118,970 + -0.5
118,970 + +0.7
118,970 + +0.6
119,160 + -1.1
119,160 + -0.1
119,161 - +0.0
119,161 - +0.1
119,271 + -0.4
119,271 + +0.1
119,271 + -0.5
119,272 - +1.1
119,424 + GFF111 0.12 +0.6
119,808 + GFF111 0.27 +0.1
119,809 - GFF111 0.27 -0.5
119,956 - GFF111 0.33 -0.6
120,054 + GFF111 0.37 +1.0
120,054 + GFF111 0.37 -0.6
120,054 + GFF111 0.37 -1.7
120,055 - GFF111 0.37 +0.3
120,072 + GFF111 0.38 -0.5
120,072 + GFF111 0.38 -0.1
120,072 + GFF111 0.38 -0.3
120,072 + GFF111 0.38 -0.6
120,073 - GFF111 0.38 -0.3
120,073 - GFF111 0.38 -0.0
120,945 + GFF111 0.73 -0.1
121,841 + GFF112 0.24 -0.4
121,841 + GFF112 0.24 +0.2
121,842 - GFF112 0.25 -0.5
121,842 - GFF112 0.25 +0.2
121,842 - GFF112 0.25 -0.3
121,842 - GFF112 0.25 -0.0
121,842 - GFF112 0.25 +0.3
121,842 - GFF112 0.25 -0.3
121,958 + GFF112 0.38 -0.0
121,958 + GFF112 0.38 +0.7
121,959 - GFF112 0.39 +1.2
121,959 - GFF112 0.39 +0.3
121,961 + GFF112 0.39 -0.8
121,961 + GFF112 0.39 +0.0
121,994 + GFF112 0.43 +0.2
121,994 + GFF112 0.43 -0.9
121,994 + GFF112 0.43 -0.1
121,994 + GFF112 0.43 -0.0
121,995 - GFF112 0.43 -0.8
121,995 - GFF112 0.43 -0.1
121,995 - GFF112 0.43 -0.1
121,995 - GFF112 0.43 -1.0
122,261 + GFF112 0.75 -0.4
122,261 + GFF112 0.75 -1.0

Or see this region's nucleotide sequence