Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF4433

Experiment: Ying_AminoAcid20 rep C; time point 3

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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 ntGFF4431 and GFF4432 are separated by 26 nucleotidesGFF4432 and GFF4433 are separated by 215 nucleotidesGFF4433 and GFF4434 overlap by 4 nucleotidesGFF4434 and GFF4435 overlap by 4 nucleotides GFF4431 - Transcriptional regulator, LysR family, at 1,361,490 to 1,362,404 GFF4431 GFF4432 - conserved hypothetical protein, at 1,362,431 to 1,362,658 GFF4432 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 Position (kb) 1362 1363 1364 1365Strain fitness (log2 ratio) -1 0 1at 1361.911 kb on - strand, within GFF4431at 1362.297 kb on + strand, within GFF4431at 1362.402 kb on + strandat 1362.657 kb on - strandat 1363.286 kb on - strand, within GFF4433at 1363.969 kb on + strand, within GFF4433at 1363.969 kb on + strand, within GFF4433at 1364.228 kb on - strand, within GFF4433at 1364.582 kb on - strand, within GFF4433

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_AminoAcid20 rep C; time point 3
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1,361,911 - GFF4431 0.46 -0.1
1,362,297 + GFF4431 0.88 +0.2
1,362,402 + +0.5
1,362,657 - -0.7
1,363,286 - GFF4433 0.20 -0.3
1,363,969 + GFF4433 0.54 -0.3
1,363,969 + GFF4433 0.54 +0.5
1,364,228 - GFF4433 0.67 -0.9
1,364,582 - GFF4433 0.85 -0.4

Or see this region's nucleotide sequence