Strain Fitness in Hydrogenophaga sp. GW460-11-11-14-LB1 around GFF3853

Experiment: Ying_OrganicAcid7 rep B; 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 ntGFF3852 and GFF3853 are separated by 275 nucleotidesGFF3853 and GFF5788 are separated by 22 nucleotidesGFF5788 and GFF3854 are separated by 77 nucleotides GFF3852 - Tartrate dehydrogenase (EC 1.1.1.93) / Tartrate decarboxylase (EC 4.1.1.73) / D-malic enzyme (EC 1.1.1.83), at 763,168 to 764,259 GFF3852 GFF3853 - DNA-binding protein HU-beta, at 764,535 to 764,807 GFF3853 GFF5788 - tRNA-Val-TAC, at 764,830 to 764,902 GFF5788 GFF3854 - Peptidyl-prolyl cis-trans isomerase PpiD (EC 5.2.1.8), at 764,980 to 766,899 GFF3854 Position (kb) 764 765Strain fitness (log2 ratio) -2 -1 0 1at 763.563 kb on + strand, within GFF3852at 763.597 kb on + strand, within GFF3852at 763.597 kb on + strand, within GFF3852at 763.597 kb on + strand, within GFF3852at 763.649 kb on + strand, within GFF3852at 763.650 kb on - strand, within GFF3852at 763.780 kb on + strand, within GFF3852at 763.781 kb on - strand, within GFF3852at 763.817 kb on - strand, within GFF3852at 764.319 kb on + strandat 764.319 kb on + strandat 764.320 kb on - strandat 764.320 kb on - strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.368 kb on + strandat 764.369 kb on - strandat 764.369 kb on - strandat 764.369 kb on - strandat 764.369 kb on - strandat 764.369 kb on - strandat 764.369 kb on - strandat 764.396 kb on + strandat 764.396 kb on + strandat 764.396 kb on + strandat 764.397 kb on - strandat 764.440 kb on + strandat 764.741 kb on + strand, within GFF3853at 764.837 kb on + strandat 764.837 kb on + strandat 764.837 kb on + strandat 764.837 kb on + strandat 764.837 kb on + strandat 764.838 kb on - strand, within GFF5788at 764.838 kb on - strand, within GFF5788at 764.838 kb on - strand, within GFF5788at 764.863 kb on + strand, within GFF5788at 764.863 kb on + strand, within GFF5788at 764.872 kb on + strand, within GFF5788at 764.872 kb on + strand, within GFF5788at 764.872 kb on + strand, within GFF5788at 764.872 kb on + strand, within GFF5788at 764.873 kb on - strand, within GFF5788at 764.873 kb on - strand, within GFF5788at 764.964 kb on + strandat 764.965 kb on - strandat 764.965 kb on - strandat 765.010 kb on + strandat 765.010 kb on + strandat 765.010 kb on + strandat 765.011 kb on - strandat 765.011 kb on - strandat 765.011 kb on - strandat 765.073 kb on + strandat 765.074 kb on - strandat 765.120 kb on - strandat 765.232 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.298 kb on + strand, within GFF3854at 765.299 kb on - strand, within GFF3854at 765.299 kb on - strand, within GFF3854at 765.299 kb on - strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.631 kb on + strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.632 kb on - strand, within GFF3854at 765.683 kb on - strand, within GFF3854at 765.748 kb on + strand, within GFF3854at 765.748 kb on + strand, within GFF3854at 765.748 kb on + strand, within GFF3854at 765.749 kb on - strand, within GFF3854at 765.749 kb on - strand, within GFF3854at 765.749 kb on - strand, within GFF3854at 765.751 kb on + strand, within GFF3854at 765.752 kb on - strand, within GFF3854

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Per-strain Table

Position Strand Gene LocusTag Fraction Ying_OrganicAcid7 rep B; time point 2
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763,563 + GFF3852 0.36 +0.9
763,597 + GFF3852 0.39 -0.2
763,597 + GFF3852 0.39 +1.1
763,597 + GFF3852 0.39 +0.9
763,649 + GFF3852 0.44 +0.2
763,650 - GFF3852 0.44 -0.2
763,780 + GFF3852 0.56 -0.6
763,781 - GFF3852 0.56 +0.2
763,817 - GFF3852 0.59 +1.1
764,319 + -0.8
764,319 + -1.4
764,320 - +0.7
764,320 - +0.2
764,368 + +0.5
764,368 + +0.8
764,368 + +1.0
764,368 + +0.2
764,368 + +1.2
764,368 + +0.4
764,368 + +0.2
764,368 + +0.1
764,369 - +0.1
764,369 - +0.9
764,369 - +0.2
764,369 - +0.8
764,369 - +0.5
764,369 - -0.2
764,396 + -0.1
764,396 + -0.1
764,396 + +0.5
764,397 - +0.2
764,440 + +0.2
764,741 + GFF3853 0.75 +0.6
764,837 + -0.1
764,837 + -0.5
764,837 + -0.3
764,837 + +0.3
764,837 + -0.6
764,838 - GFF5788 0.11 -0.6
764,838 - GFF5788 0.11 -1.1
764,838 - GFF5788 0.11 +0.4
764,863 + GFF5788 0.45 +0.4
764,863 + GFF5788 0.45 +0.6
764,872 + GFF5788 0.58 -0.6
764,872 + GFF5788 0.58 +0.9
764,872 + GFF5788 0.58 +0.4
764,872 + GFF5788 0.58 -0.0
764,873 - GFF5788 0.59 -0.1
764,873 - GFF5788 0.59 +0.0
764,964 + -0.1
764,965 - +0.3
764,965 - +0.4
765,010 + +0.7
765,010 + +0.1
765,010 + +1.0
765,011 - +0.6
765,011 - +0.2
765,011 - +0.0
765,073 + -0.6
765,074 - -0.2
765,120 - -0.6
765,232 + GFF3854 0.13 +0.3
765,298 + GFF3854 0.17 -0.3
765,298 + GFF3854 0.17 -0.5
765,298 + GFF3854 0.17 -0.0
765,298 + GFF3854 0.17 +0.7
765,298 + GFF3854 0.17 +0.5
765,298 + GFF3854 0.17 -0.6
765,299 - GFF3854 0.17 -0.2
765,299 - GFF3854 0.17 -2.1
765,299 - GFF3854 0.17 +0.0
765,631 + GFF3854 0.34 -0.7
765,631 + GFF3854 0.34 +0.4
765,631 + GFF3854 0.34 -1.0
765,631 + GFF3854 0.34 -1.1
765,631 + GFF3854 0.34 -0.2
765,631 + GFF3854 0.34 +0.0
765,631 + GFF3854 0.34 -1.0
765,632 - GFF3854 0.34 +0.3
765,632 - GFF3854 0.34 -0.5
765,632 - GFF3854 0.34 -0.1
765,632 - GFF3854 0.34 -0.3
765,632 - GFF3854 0.34 +0.7
765,632 - GFF3854 0.34 +0.4
765,683 - GFF3854 0.37 -0.3
765,748 + GFF3854 0.40 +1.3
765,748 + GFF3854 0.40 -0.7
765,748 + GFF3854 0.40 -0.2
765,749 - GFF3854 0.40 -0.0
765,749 - GFF3854 0.40 -0.4
765,749 - GFF3854 0.40 +0.2
765,751 + GFF3854 0.40 +0.1
765,752 - GFF3854 0.40 -0.7

Or see this region's nucleotide sequence