Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF113

Experiment: Ying_AminoAcid20 rep C; time point 1

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 ntGFF111 and GFF112 are separated by 8 nucleotidesGFF112 and GFF113 are separated by 1 nucleotidesGFF113 and GFF114 overlap by 1 nucleotidesGFF114 and GFF115 are separated by 46 nucleotides 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 GFF114 - COG0613, Predicted metal-dependent phosphoesterases (PHP family), at 123,383 to 124,240 GFF114 GFF115 - Phosphoenolpyruvate carboxylase (EC 4.1.1.31), at 124,287 to 127,127 GFF115 Position (kb) 122 123 124Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 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 GFF112at 122.644 kb on + strand, within GFF113at 122.644 kb on + strand, within GFF113at 122.645 kb on - strand, within GFF113at 122.818 kb on + strand, within GFF113at 122.884 kb on + strand, within GFF113at 122.884 kb on + strand, within GFF113at 122.885 kb on - strand, within GFF113at 122.885 kb on - strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.091 kb on + strand, within GFF113at 123.092 kb on - strand, within GFF113at 123.092 kb on - strand, within GFF113at 123.092 kb on - strand, within GFF113at 123.092 kb on - strand, within GFF113at 123.092 kb on - strand, within GFF113at 123.280 kb on + strand, within GFF113at 123.280 kb on + strand, within GFF113at 123.280 kb on + strand, within GFF113at 123.281 kb on - strand, within GFF113at 123.281 kb on - strand, within GFF113at 123.281 kb on - strand, within GFF113at 123.281 kb on - strand, within GFF113at 123.537 kb on + strand, within GFF114at 123.537 kb on + strand, within GFF114at 123.538 kb on - strand, within GFF114at 123.546 kb on + strand, within GFF114at 123.648 kb on + strand, within GFF114at 123.739 kb on - strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.762 kb on + strand, within GFF114at 123.763 kb on - strand, within GFF114at 123.763 kb on - strand, within GFF114at 123.763 kb on - strand, within GFF114at 123.813 kb on + strand, within GFF114at 123.814 kb on - strand, within GFF114at 123.814 kb on - strand, within GFF114at 123.858 kb on + strand, within GFF114at 123.858 kb on + strand, within GFF114at 123.858 kb on + strand, within GFF114at 123.859 kb on - strand, within GFF114at 123.859 kb on - strand, within GFF114at 123.859 kb on - strand, within GFF114at 123.876 kb on + strand, within GFF114at 123.876 kb on + strand, within GFF114at 123.876 kb on + strand, within GFF114at 123.877 kb on - strand, within GFF114at 123.877 kb on - strand, within GFF114at 124.056 kb on + strand, within GFF114at 124.251 kb on + strandat 124.252 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Ying_AminoAcid20 rep C; time point 1
remove
121,841 + GFF112 0.24 -0.2
121,841 + GFF112 0.24 +0.3
121,842 - GFF112 0.25 -1.1
121,842 - GFF112 0.25 +0.3
121,842 - GFF112 0.25 -0.3
121,842 - GFF112 0.25 +0.2
121,842 - GFF112 0.25 +0.9
121,842 - GFF112 0.25 -0.0
121,958 + GFF112 0.38 +0.0
121,958 + GFF112 0.38 +0.1
121,959 - GFF112 0.39 +0.4
121,959 - GFF112 0.39 -0.1
121,961 + GFF112 0.39 -0.2
121,961 + GFF112 0.39 +0.5
121,994 + GFF112 0.43 +0.7
121,994 + GFF112 0.43 -0.0
121,994 + GFF112 0.43 +0.4
121,994 + GFF112 0.43 -0.0
121,995 - GFF112 0.43 -0.7
121,995 - GFF112 0.43 +0.6
121,995 - GFF112 0.43 -0.5
121,995 - GFF112 0.43 -0.5
122,261 + GFF112 0.75 -0.2
122,261 + GFF112 0.75 -0.4
122,644 + GFF113 0.19 -0.1
122,644 + GFF113 0.19 -0.9
122,645 - GFF113 0.19 +0.3
122,818 + GFF113 0.38 -0.5
122,884 + GFF113 0.45 +1.8
122,884 + GFF113 0.45 +0.5
122,885 - GFF113 0.45 -0.2
122,885 - GFF113 0.45 -0.2
123,091 + GFF113 0.68 -1.5
123,091 + GFF113 0.68 +0.0
123,091 + GFF113 0.68 +0.7
123,091 + GFF113 0.68 +0.5
123,091 + GFF113 0.68 -0.2
123,091 + GFF113 0.68 +0.8
123,091 + GFF113 0.68 -1.3
123,091 + GFF113 0.68 +0.6
123,091 + GFF113 0.68 +0.2
123,092 - GFF113 0.68 -0.6
123,092 - GFF113 0.68 +0.2
123,092 - GFF113 0.68 +0.2
123,092 - GFF113 0.68 -0.0
123,092 - GFF113 0.68 -1.8
123,280 + GFF113 0.89 -0.1
123,280 + GFF113 0.89 +0.7
123,280 + GFF113 0.89 -0.1
123,281 - GFF113 0.89 +0.3
123,281 - GFF113 0.89 +0.5
123,281 - GFF113 0.89 +0.0
123,281 - GFF113 0.89 +1.1
123,537 + GFF114 0.18 +0.5
123,537 + GFF114 0.18 -2.9
123,538 - GFF114 0.18 -0.6
123,546 + GFF114 0.19 -0.6
123,648 + GFF114 0.31 -1.1
123,739 - GFF114 0.41 -0.8
123,762 + GFF114 0.44 +0.1
123,762 + GFF114 0.44 -0.0
123,762 + GFF114 0.44 -0.7
123,762 + GFF114 0.44 +0.8
123,762 + GFF114 0.44 -0.9
123,762 + GFF114 0.44 -0.9
123,763 - GFF114 0.44 +1.3
123,763 - GFF114 0.44 -0.4
123,763 - GFF114 0.44 -0.0
123,813 + GFF114 0.50 -0.5
123,814 - GFF114 0.50 -0.9
123,814 - GFF114 0.50 +0.1
123,858 + GFF114 0.55 +0.2
123,858 + GFF114 0.55 +0.5
123,858 + GFF114 0.55 +0.5
123,859 - GFF114 0.55 +1.1
123,859 - GFF114 0.55 +0.6
123,859 - GFF114 0.55 +0.3
123,876 + GFF114 0.57 -0.1
123,876 + GFF114 0.57 -1.1
123,876 + GFF114 0.57 +0.6
123,877 - GFF114 0.58 -1.8
123,877 - GFF114 0.58 -0.6
124,056 + GFF114 0.78 -0.7
124,251 + -0.0
124,252 - +1.3

Or see this region's nucleotide sequence