Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF3288

Experiment: Ying_OrganicAcid7 rep C; 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 ntGFF3286 and GFF3287 overlap by 4 nucleotidesGFF3287 and GFF3288 overlap by 8 nucleotidesGFF3288 and GFF3289 are separated by 11 nucleotidesGFF3289 and GFF3290 overlap by 4 nucleotides GFF3286 - blr4981; probable amidase, at 171,784 to 172,773 GFF3286 GFF3287 - Branched-chain amino acid transport ATP-binding protein LivF (TC 3.A.1.4.1), at 172,770 to 173,501 GFF3287 GFF3288 - Branched-chain amino acid transport ATP-binding protein LivG (TC 3.A.1.4.1), at 173,494 to 174,210 GFF3288 GFF3289 - Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1), at 174,222 to 175,139 GFF3289 GFF3290 - High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1), at 175,136 to 176,011 GFF3290 Position (kb) 173 174 175Strain fitness (log2 ratio) -1 0 1at 173.798 kb on + strand, within GFF3288at 173.798 kb on + strand, within GFF3288at 174.323 kb on - strand, within GFF3289at 174.476 kb on - strand, within GFF3289at 174.754 kb on + strand, within GFF3289at 174.932 kb on - strand, within GFF3289at 174.973 kb on + strand, within GFF3289at 174.974 kb on - strand, within GFF3289

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_OrganicAcid7 rep C; time point 1
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173,798 + GFF3288 0.42 -0.1
173,798 + GFF3288 0.42 +0.3
174,323 - GFF3289 0.11 -0.2
174,476 - GFF3289 0.28 +0.2
174,754 + GFF3289 0.58 +0.3
174,932 - GFF3289 0.77 +0.6
174,973 + GFF3289 0.82 +0.1
174,974 - GFF3289 0.82 +0.9

Or see this region's nucleotide sequence