Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF4435

Experiment: Ying_Nucleobase14 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 ntGFF4433 and GFF4434 overlap by 4 nucleotidesGFF4434 and GFF4435 overlap by 4 nucleotidesGFF4435 and GFF4436 overlap by 4 nucleotidesGFF4436 and GFF4437 overlap by 4 nucleotidesGFF4437 and GFF4438 are separated by 10 nucleotides GFF4433 - Type IV secretion system protein VirD4, at 1,362,874 to 1,364,886 GFF4433 GFF4434 - CopG domain-containing protein, at 1,364,883 to 1,365,347 GFF4434 GFF4435 - Conjugative transfer protein TrbB, at 1,365,344 to 1,366,411 GFF4435 GFF4436 - Conjugative transfer protein TrbC, at 1,366,408 to 1,366,800 GFF4436 GFF4437 - Conjugative transfer protein TrbD, at 1,366,797 to 1,367,069 GFF4437 GFF4438 - Conjugative transfer protein TrbE, at 1,367,080 to 1,369,551 GFF4438 Position (kb) 1365 1366 1367Strain fitness (log2 ratio) -1 0 1at 1364.582 kb on - strand, within GFF4433at 1366.221 kb on + strand, within GFF4435at 1367.005 kb on + strand, within GFF4437at 1367.006 kb on - strand, within GFF4437

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_Nucleobase14 rep C; time point 2
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1,364,582 - GFF4433 0.85 +0.2
1,366,221 + GFF4435 0.82 +0.4
1,367,005 + GFF4437 0.76 -0.1
1,367,006 - GFF4437 0.77 -0.1

Or see this region's nucleotide sequence