Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF1344

Experiment: Ying_Others16 rep A; time point 1

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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.

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500 ntGFF1342 and GFF1343 overlap by 1 nucleotidesGFF1343 and GFF1344 are separated by 62 nucleotidesGFF1344 and GFF1345 are separated by 77 nucleotidesGFF1345 and GFF1346 are separated by 10 nucleotides GFF1342 - Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1), at 195,297 to 196,079 GFF1342 GFF1343 - Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1), at 196,079 to 196,789 GFF1343 GFF1344 - Leucine-, isoleucine-, valine-, threonine-, and alanine-binding protein, at 196,852 to 198,045 GFF1344 GFF1345 - High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1), at 198,123 to 199,001 GFF1345 GFF1346 - Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1), at 199,012 to 200,001 GFF1346 Position (kb) 196 197 198 199Strain fitness (log2 ratio) -1 0 1at 195.999 kb on + strand, within GFF1342at 195.999 kb on + strand, within GFF1342at 195.999 kb on + strand, within GFF1342at 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.038 kb on + strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.039 kb on - strandat 196.121 kb on + strandat 196.329 kb on - strand, within GFF1343at 196.436 kb on + strand, within GFF1343at 196.436 kb on + strand, within GFF1343at 196.437 kb on - strand, within GFF1343at 196.437 kb on - strand, within GFF1343at 196.437 kb on - strand, within GFF1343at 196.637 kb on + strand, within GFF1343at 196.637 kb on + strand, within GFF1343at 196.638 kb on - strand, within GFF1343at 196.697 kb on + strand, within GFF1343at 196.698 kb on - strand, within GFF1343at 196.698 kb on - strand, within GFF1343at 196.698 kb on - strand, within GFF1343at 196.836 kb on + strandat 196.836 kb on + strandat 196.837 kb on - strandat 196.966 kb on + strandat 196.966 kb on + strandat 196.966 kb on + strandat 197.209 kb on + strand, within GFF1344at 197.209 kb on + strand, within GFF1344at 197.210 kb on - strand, within GFF1344at 197.275 kb on + strand, within GFF1344at 197.275 kb on + strand, within GFF1344at 197.275 kb on + strand, within GFF1344at 197.276 kb on - strand, within GFF1344at 197.281 kb on + strand, within GFF1344at 197.281 kb on + strand, within GFF1344at 197.281 kb on + strand, within GFF1344at 197.365 kb on + strand, within GFF1344at 197.659 kb on + strand, within GFF1344at 197.659 kb on + strand, within GFF1344at 197.659 kb on + strand, within GFF1344at 197.660 kb on - strand, within GFF1344at 197.660 kb on - strand, within GFF1344at 197.660 kb on - strand, within GFF1344at 197.767 kb on + strand, within GFF1344at 197.768 kb on - strand, within GFF1344at 197.768 kb on - strand, within GFF1344at 197.785 kb on + strand, within GFF1344at 197.785 kb on + strand, within GFF1344at 197.786 kb on - strand, within GFF1344at 197.917 kb on + strand, within GFF1344at 197.917 kb on + strand, within GFF1344at 197.918 kb on - strand, within GFF1344at 197.918 kb on - strand, within GFF1344at 197.918 kb on - strand, within GFF1344at 197.918 kb on - strand, within GFF1344at 197.918 kb on - strand, within GFF1344at 197.965 kb on + strandat 197.965 kb on + strandat 197.966 kb on - strandat 197.966 kb on - strandat 198.140 kb on - strandat 198.140 kb on - strandat 198.195 kb on + strandat 198.195 kb on + strandat 198.195 kb on + strandat 198.195 kb on + strandat 198.195 kb on + strandat 198.309 kb on + strand, within GFF1345at 198.309 kb on + strand, within GFF1345at 198.423 kb on + strand, within GFF1345at 198.424 kb on - strand, within GFF1345at 198.424 kb on - strand, within GFF1345at 198.483 kb on + strand, within GFF1345at 198.483 kb on + strand, within GFF1345at 198.483 kb on + strand, within GFF1345at 198.483 kb on + strand, within GFF1345at 198.483 kb on + strand, within GFF1345at 198.484 kb on - strand, within GFF1345at 198.504 kb on + strand, within GFF1345at 198.504 kb on + strand, within GFF1345at 198.609 kb on + strand, within GFF1345at 198.610 kb on - strand, within GFF1345at 198.610 kb on - strand, within GFF1345at 198.610 kb on - strand, within GFF1345at 198.639 kb on + strand, within GFF1345at 198.639 kb on + strand, within GFF1345at 198.639 kb on + strand, within GFF1345at 198.717 kb on + strand, within GFF1345at 198.717 kb on + strand, within GFF1345at 198.717 kb on + strand, within GFF1345at 198.718 kb on - strand, within GFF1345

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Others16 rep A; time point 1
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195,999 + GFF1342 0.90 +0.6
195,999 + GFF1342 0.90 -0.9
195,999 + GFF1342 0.90 -1.3
196,038 + -0.1
196,038 + +0.0
196,038 + -0.1
196,038 + +0.0
196,038 + -0.3
196,039 - +0.2
196,039 - +0.2
196,039 - +0.6
196,039 - +0.1
196,039 - -1.2
196,039 - +1.1
196,121 + +0.1
196,329 - GFF1343 0.35 -0.5
196,436 + GFF1343 0.50 +1.2
196,436 + GFF1343 0.50 -1.1
196,437 - GFF1343 0.50 +0.9
196,437 - GFF1343 0.50 -0.5
196,437 - GFF1343 0.50 +0.0
196,637 + GFF1343 0.78 +0.4
196,637 + GFF1343 0.78 -0.1
196,638 - GFF1343 0.79 +0.0
196,697 + GFF1343 0.87 +0.6
196,698 - GFF1343 0.87 +0.2
196,698 - GFF1343 0.87 -0.5
196,698 - GFF1343 0.87 -0.2
196,836 + -0.4
196,836 + -0.2
196,837 - +0.1
196,966 + +0.4
196,966 + +0.6
196,966 + +0.7
197,209 + GFF1344 0.30 +0.7
197,209 + GFF1344 0.30 -0.2
197,210 - GFF1344 0.30 +0.5
197,275 + GFF1344 0.35 +0.5
197,275 + GFF1344 0.35 -0.1
197,275 + GFF1344 0.35 +0.8
197,276 - GFF1344 0.36 -0.6
197,281 + GFF1344 0.36 +0.9
197,281 + GFF1344 0.36 -0.2
197,281 + GFF1344 0.36 +1.3
197,365 + GFF1344 0.43 -0.2
197,659 + GFF1344 0.68 +0.0
197,659 + GFF1344 0.68 +1.6
197,659 + GFF1344 0.68 +0.0
197,660 - GFF1344 0.68 -1.7
197,660 - GFF1344 0.68 +0.1
197,660 - GFF1344 0.68 +1.6
197,767 + GFF1344 0.77 +0.2
197,768 - GFF1344 0.77 +0.4
197,768 - GFF1344 0.77 +0.1
197,785 + GFF1344 0.78 -0.0
197,785 + GFF1344 0.78 -0.7
197,786 - GFF1344 0.78 -0.2
197,917 + GFF1344 0.89 -0.1
197,917 + GFF1344 0.89 -0.5
197,918 - GFF1344 0.89 +0.5
197,918 - GFF1344 0.89 -0.1
197,918 - GFF1344 0.89 +0.2
197,918 - GFF1344 0.89 -0.0
197,918 - GFF1344 0.89 +0.3
197,965 + -0.2
197,965 + +0.0
197,966 - -0.3
197,966 - -0.1
198,140 - -0.3
198,140 - -0.7
198,195 + -0.3
198,195 + +0.0
198,195 + +0.1
198,195 + +0.0
198,195 + -0.4
198,309 + GFF1345 0.21 -0.5
198,309 + GFF1345 0.21 +0.6
198,423 + GFF1345 0.34 -0.1
198,424 - GFF1345 0.34 +0.3
198,424 - GFF1345 0.34 +0.3
198,483 + GFF1345 0.41 -1.2
198,483 + GFF1345 0.41 +0.8
198,483 + GFF1345 0.41 -0.4
198,483 + GFF1345 0.41 +0.4
198,483 + GFF1345 0.41 -0.1
198,484 - GFF1345 0.41 +0.3
198,504 + GFF1345 0.43 -0.2
198,504 + GFF1345 0.43 -0.0
198,609 + GFF1345 0.55 +0.6
198,610 - GFF1345 0.55 +0.4
198,610 - GFF1345 0.55 -0.0
198,610 - GFF1345 0.55 -0.8
198,639 + GFF1345 0.59 +0.0
198,639 + GFF1345 0.59 +0.6
198,639 + GFF1345 0.59 -0.0
198,717 + GFF1345 0.68 -0.1
198,717 + GFF1345 0.68 -0.4
198,717 + GFF1345 0.68 -0.2
198,718 - GFF1345 0.68 +1.6

Or see this region's nucleotide sequence