Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF3453

Experiment: Ying_Others16 rep C; time point 2

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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 ntGFF3450 and GFF3451 are separated by 10 nucleotidesGFF3451 and GFF3452 overlap by 4 nucleotidesGFF3452 and GFF3453 overlap by 4 nucleotidesGFF3453 and GFF3454 are separated by 50 nucleotidesGFF3454 and GFF3455 overlap by 4 nucleotides GFF3450 - Conjugative transfer protein TrbE, at 330,717 to 333,164 GFF3450 GFF3451 - Conjugative transfer protein TrbD, at 333,175 to 333,456 GFF3451 GFF3452 - Conjugative transfer protein TrbC, at 333,453 to 333,869 GFF3452 GFF3453 - Conjugative transfer protein TrbB, at 333,866 to 334,876 GFF3453 GFF3454 - CopG domain-containing protein, at 334,927 to 335,427 GFF3454 GFF3455 - Type IV secretion system protein VirD4, at 335,424 to 337,445 GFF3455 Position (kb) 333 334 335Strain fitness (log2 ratio) -1 0 1 2at 332.997 kb on + strandat 333.096 kb on + strandat 333.457 kb on - strandat 333.640 kb on - strand, within GFF3452at 334.063 kb on - strand, within GFF3453at 334.063 kb on - strand, within GFF3453at 334.679 kb on + strand, within GFF3453at 335.175 kb on - strand, within GFF3454

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Others16 rep C; time point 2
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332,997 + +0.8
333,096 + +0.2
333,457 - +0.1
333,640 - GFF3452 0.45 +0.3
334,063 - GFF3453 0.19 +1.9
334,063 - GFF3453 0.19 +0.0
334,679 + GFF3453 0.80 +0.3
335,175 - GFF3454 0.50 -0.4

Or see this region's nucleotide sequence