Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF1188

Experiment: Ying_Others16 rep B; time point 3

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 ntGFF1186 and GFF1187 are separated by 12 nucleotidesGFF1187 and GFF1188 overlap by 4 nucleotidesGFF1188 and GFF1189 are separated by 69 nucleotidesGFF1189 and GFF1190 are separated by 27 nucleotides GFF1186 - General secretion pathway protein N, at 45,264 to 46,040 GFF1186 GFF1187 - Hypothetical protein DUF454, at 46,053 to 46,442 GFF1187 GFF1188 - Formate dehydrogenase chain D (EC 1.2.1.2), at 46,439 to 47,293 GFF1188 GFF1189 - putative exported protein, at 47,363 to 47,749 GFF1189 GFF1190 - Formate dehydrogenase -O, gamma subunit (EC 1.2.1.2), at 47,777 to 49,012 GFF1190 Position (kb) 46 47 48Strain fitness (log2 ratio) -2 -1 0 1 2at 45.819 kb on + strand, within GFF1186at 45.820 kb on - strand, within GFF1186at 45.820 kb on - strand, within GFF1186at 45.820 kb on - strand, within GFF1186at 46.440 kb on + strandat 46.441 kb on - strandat 46.441 kb on - strandat 46.512 kb on + strandat 46.513 kb on - strandat 46.513 kb on - strandat 46.513 kb on - strandat 46.591 kb on + strand, within GFF1188at 46.592 kb on - strand, within GFF1188at 46.675 kb on - strand, within GFF1188at 46.732 kb on + strand, within GFF1188at 46.733 kb on - strand, within GFF1188at 46.789 kb on - strand, within GFF1188at 46.789 kb on - strand, within GFF1188at 46.827 kb on + strand, within GFF1188at 46.827 kb on + strand, within GFF1188at 46.827 kb on + strand, within GFF1188at 46.827 kb on + strand, within GFF1188at 46.828 kb on - strand, within GFF1188at 46.828 kb on - strand, within GFF1188at 46.828 kb on - strand, within GFF1188at 46.828 kb on - strand, within GFF1188at 46.866 kb on + strand, within GFF1188at 46.866 kb on + strand, within GFF1188at 46.866 kb on + strand, within GFF1188at 46.866 kb on + strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 46.867 kb on - strand, within GFF1188at 47.103 kb on + strand, within GFF1188at 47.103 kb on + strand, within GFF1188at 47.103 kb on + strand, within GFF1188at 47.172 kb on + strand, within GFF1188at 47.304 kb on + strandat 47.304 kb on + strandat 47.364 kb on + strandat 47.364 kb on + strandat 47.364 kb on + strandat 47.365 kb on - strandat 47.365 kb on - strandat 47.365 kb on - strandat 47.365 kb on - strandat 47.365 kb on - strandat 47.365 kb on - strandat 47.475 kb on + strand, within GFF1189at 47.476 kb on - strand, within GFF1189at 47.476 kb on - strand, within GFF1189at 47.563 kb on - strand, within GFF1189at 47.586 kb on + strand, within GFF1189at 47.586 kb on + strand, within GFF1189at 47.586 kb on + strand, within GFF1189at 47.587 kb on - strand, within GFF1189at 47.587 kb on - strand, within GFF1189at 47.601 kb on + strand, within GFF1189at 47.602 kb on - strand, within GFF1189at 47.602 kb on - strand, within GFF1189at 47.602 kb on - strand, within GFF1189at 47.874 kb on + strandat 47.875 kb on - strandat 47.875 kb on - strandat 47.875 kb on - strandat 47.917 kb on - strand, within GFF1190at 47.937 kb on + strand, within GFF1190at 47.937 kb on + strand, within GFF1190at 47.937 kb on + strand, within GFF1190at 47.937 kb on + strand, within GFF1190at 47.938 kb on - strand, within GFF1190at 47.938 kb on - strand, within GFF1190at 47.938 kb on - strand, within GFF1190at 47.967 kb on + strand, within GFF1190at 47.967 kb on + strand, within GFF1190at 47.968 kb on - strand, within GFF1190at 47.968 kb on - strand, within GFF1190at 47.968 kb on - strand, within GFF1190at 47.968 kb on - strand, within GFF1190at 47.968 kb on - strand, within GFF1190at 48.051 kb on + strand, within GFF1190at 48.051 kb on + strand, within GFF1190at 48.051 kb on + strand, within GFF1190at 48.052 kb on - strand, within GFF1190at 48.052 kb on - strand, within GFF1190at 48.052 kb on - strand, within GFF1190at 48.052 kb on - strand, within GFF1190

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Others16 rep B; time point 3
remove
45,819 + GFF1186 0.71 -1.1
45,820 - GFF1186 0.72 +1.3
45,820 - GFF1186 0.72 -0.4
45,820 - GFF1186 0.72 +1.3
46,440 + +1.2
46,441 - +0.3
46,441 - +0.2
46,512 + -0.1
46,513 - -0.9
46,513 - +0.5
46,513 - -0.7
46,591 + GFF1188 0.18 -1.8
46,592 - GFF1188 0.18 -0.1
46,675 - GFF1188 0.28 +0.1
46,732 + GFF1188 0.34 -0.3
46,733 - GFF1188 0.34 -0.6
46,789 - GFF1188 0.41 +0.5
46,789 - GFF1188 0.41 +0.0
46,827 + GFF1188 0.45 -0.4
46,827 + GFF1188 0.45 -0.1
46,827 + GFF1188 0.45 -0.8
46,827 + GFF1188 0.45 -0.0
46,828 - GFF1188 0.45 -0.5
46,828 - GFF1188 0.45 -0.6
46,828 - GFF1188 0.45 -0.4
46,828 - GFF1188 0.45 -0.7
46,866 + GFF1188 0.50 +0.5
46,866 + GFF1188 0.50 -0.3
46,866 + GFF1188 0.50 +0.0
46,866 + GFF1188 0.50 -0.4
46,867 - GFF1188 0.50 -0.5
46,867 - GFF1188 0.50 +0.3
46,867 - GFF1188 0.50 +0.1
46,867 - GFF1188 0.50 -0.3
46,867 - GFF1188 0.50 +0.5
46,867 - GFF1188 0.50 +0.5
47,103 + GFF1188 0.78 -0.2
47,103 + GFF1188 0.78 +0.2
47,103 + GFF1188 0.78 -0.5
47,172 + GFF1188 0.86 -0.4
47,304 + -0.4
47,304 + +0.3
47,364 + +0.1
47,364 + +0.1
47,364 + +0.3
47,365 - +0.3
47,365 - -1.1
47,365 - +0.5
47,365 - +0.3
47,365 - +0.5
47,365 - +0.4
47,475 + GFF1189 0.29 -1.8
47,476 - GFF1189 0.29 -0.3
47,476 - GFF1189 0.29 +0.5
47,563 - GFF1189 0.52 -0.3
47,586 + GFF1189 0.58 -0.2
47,586 + GFF1189 0.58 +0.1
47,586 + GFF1189 0.58 -0.3
47,587 - GFF1189 0.58 +0.5
47,587 - GFF1189 0.58 +1.1
47,601 + GFF1189 0.61 +0.1
47,602 - GFF1189 0.62 -0.1
47,602 - GFF1189 0.62 -0.0
47,602 - GFF1189 0.62 -0.5
47,874 + +0.2
47,875 - -0.1
47,875 - -0.0
47,875 - +0.6
47,917 - GFF1190 0.11 -2.0
47,937 + GFF1190 0.13 -0.2
47,937 + GFF1190 0.13 +0.1
47,937 + GFF1190 0.13 -0.0
47,937 + GFF1190 0.13 -0.1
47,938 - GFF1190 0.13 -1.4
47,938 - GFF1190 0.13 -0.0
47,938 - GFF1190 0.13 +0.3
47,967 + GFF1190 0.15 -0.1
47,967 + GFF1190 0.15 -0.4
47,968 - GFF1190 0.15 -1.4
47,968 - GFF1190 0.15 +1.3
47,968 - GFF1190 0.15 -2.1
47,968 - GFF1190 0.15 -0.3
47,968 - GFF1190 0.15 -0.6
48,051 + GFF1190 0.22 +1.2
48,051 + GFF1190 0.22 +0.0
48,051 + GFF1190 0.22 -2.0
48,052 - GFF1190 0.22 +2.5
48,052 - GFF1190 0.22 +0.3
48,052 - GFF1190 0.22 -0.9
48,052 - GFF1190 0.22 -0.3

Or see this region's nucleotide sequence