Strain Fitness in Variovorax sp. SCN45 around GFF2025

Experiment: M9 with Supernatant from Cyptococcus

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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 ntGFF2023 and GFF2024 are separated by 3 nucleotidesGFF2024 and GFF2025 are separated by 15 nucleotidesGFF2025 and GFF2026 overlap by 4 nucleotidesGFF2026 and GFF2027 overlap by 4 nucleotides GFF2023 - Hydroxymethylglutaryl-CoA lyase (EC 4.1.3.4), at 67,230 to 68,150 GFF2023 GFF2024 - L-lysine permease, at 68,154 to 68,795 GFF2024 GFF2025 - Uncharacterized protein SCO3165, at 68,811 to 69,299 GFF2025 GFF2026 - Predicted Fe-S protein, at 69,296 to 69,553 GFF2026 GFF2027 - 2-hydroxychromene-2-carboxylate isomerase family protein, at 69,550 to 70,197 GFF2027 Position (kb) 68 69 70Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 67.875 kb on + strand, within GFF2023at 67.875 kb on + strand, within GFF2023at 67.876 kb on - strand, within GFF2023at 67.966 kb on - strand, within GFF2023at 68.010 kb on + strand, within GFF2023at 68.010 kb on + strand, within GFF2023at 68.010 kb on + strand, within GFF2023at 68.010 kb on + strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.011 kb on - strand, within GFF2023at 68.076 kb on + strandat 68.076 kb on + strandat 68.076 kb on + strandat 68.076 kb on + strandat 68.076 kb on + strandat 68.076 kb on + strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.077 kb on - strandat 68.253 kb on + strand, within GFF2024at 68.253 kb on + strand, within GFF2024at 68.253 kb on + strand, within GFF2024at 68.253 kb on + strand, within GFF2024at 68.253 kb on + strand, within GFF2024at 68.254 kb on - strand, within GFF2024at 68.254 kb on - strand, within GFF2024at 68.397 kb on + strand, within GFF2024at 68.397 kb on + strand, within GFF2024at 68.397 kb on + strand, within GFF2024at 68.397 kb on + strand, within GFF2024at 68.398 kb on - strand, within GFF2024at 68.398 kb on - strand, within GFF2024at 68.398 kb on - strand, within GFF2024at 68.664 kb on + strand, within GFF2024at 68.664 kb on + strand, within GFF2024at 68.796 kb on + strandat 68.796 kb on + strandat 68.796 kb on + strandat 68.797 kb on - strandat 68.829 kb on - strandat 69.023 kb on + strand, within GFF2025at 69.023 kb on + strand, within GFF2025at 69.023 kb on + strand, within GFF2025at 69.023 kb on + strand, within GFF2025at 69.024 kb on - strand, within GFF2025at 69.024 kb on - strand, within GFF2025at 69.024 kb on - strand, within GFF2025at 69.024 kb on - strand, within GFF2025at 69.024 kb on - strand, within GFF2025at 69.590 kb on - strandat 69.640 kb on + strand, within GFF2027at 69.640 kb on + strand, within GFF2027at 69.640 kb on + strand, within GFF2027at 69.640 kb on + strand, within GFF2027at 69.640 kb on + strand, within GFF2027at 69.640 kb on + strand, within GFF2027at 69.641 kb on - strand, within GFF2027at 69.641 kb on - strand, within GFF2027at 69.641 kb on - strand, within GFF2027at 69.641 kb on - strand, within GFF2027at 69.641 kb on - strand, within GFF2027at 69.652 kb on + strand, within GFF2027at 69.652 kb on + strand, within GFF2027at 69.653 kb on - strand, within GFF2027at 69.653 kb on - strand, within GFF2027at 69.653 kb on - strand, within GFF2027at 69.736 kb on + strand, within GFF2027at 69.736 kb on + strand, within GFF2027at 69.736 kb on + strand, within GFF2027at 69.737 kb on - strand, within GFF2027at 69.737 kb on - strand, within GFF2027at 69.737 kb on - strand, within GFF2027at 69.802 kb on + strand, within GFF2027at 69.802 kb on + strand, within GFF2027at 69.802 kb on + strand, within GFF2027at 69.802 kb on + strand, within GFF2027at 69.802 kb on + strand, within GFF2027at 69.803 kb on - strand, within GFF2027at 69.803 kb on - strand, within GFF2027at 69.803 kb on - strand, within GFF2027at 69.803 kb on - strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.051 kb on + strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.052 kb on - strand, within GFF2027at 70.108 kb on + strand, within GFF2027at 70.108 kb on + strand, within GFF2027at 70.108 kb on - strand, within GFF2027at 70.109 kb on - strand, within GFF2027at 70.260 kb on + strandat 70.261 kb on - strandat 70.261 kb on - strandat 70.267 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus
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67,875 + GFF2023 0.70 -1.3
67,875 + GFF2023 0.70 -0.6
67,876 - GFF2023 0.70 -1.6
67,966 - GFF2023 0.80 -0.9
68,010 + GFF2023 0.85 -0.0
68,010 + GFF2023 0.85 -2.2
68,010 + GFF2023 0.85 -0.5
68,010 + GFF2023 0.85 -0.3
68,011 - GFF2023 0.85 -0.1
68,011 - GFF2023 0.85 +0.9
68,011 - GFF2023 0.85 +0.9
68,011 - GFF2023 0.85 -0.1
68,011 - GFF2023 0.85 -0.9
68,011 - GFF2023 0.85 -0.2
68,076 + +0.2
68,076 + -1.0
68,076 + -2.4
68,076 + -1.3
68,076 + -1.1
68,076 + +0.5
68,077 - +0.9
68,077 - +1.1
68,077 - -0.2
68,077 - -1.2
68,077 - -1.0
68,077 - -2.6
68,077 - -0.6
68,253 + GFF2024 0.15 -1.6
68,253 + GFF2024 0.15 -0.2
68,253 + GFF2024 0.15 -0.5
68,253 + GFF2024 0.15 +0.1
68,253 + GFF2024 0.15 -0.5
68,254 - GFF2024 0.16 +0.1
68,254 - GFF2024 0.16 +2.3
68,397 + GFF2024 0.38 -0.9
68,397 + GFF2024 0.38 -1.0
68,397 + GFF2024 0.38 +3.7
68,397 + GFF2024 0.38 -0.2
68,398 - GFF2024 0.38 -0.6
68,398 - GFF2024 0.38 +0.8
68,398 - GFF2024 0.38 +1.3
68,664 + GFF2024 0.79 -1.0
68,664 + GFF2024 0.79 -0.1
68,796 + +2.1
68,796 + +1.0
68,796 + -1.0
68,797 - -0.7
68,829 - -0.5
69,023 + GFF2025 0.43 +0.9
69,023 + GFF2025 0.43 -1.6
69,023 + GFF2025 0.43 -0.1
69,023 + GFF2025 0.43 +0.1
69,024 - GFF2025 0.44 +0.7
69,024 - GFF2025 0.44 -0.9
69,024 - GFF2025 0.44 +0.6
69,024 - GFF2025 0.44 +0.1
69,024 - GFF2025 0.44 +0.7
69,590 - -3.1
69,640 + GFF2027 0.14 -0.5
69,640 + GFF2027 0.14 -1.4
69,640 + GFF2027 0.14 -0.2
69,640 + GFF2027 0.14 -0.6
69,640 + GFF2027 0.14 -1.9
69,640 + GFF2027 0.14 +0.1
69,641 - GFF2027 0.14 -2.0
69,641 - GFF2027 0.14 -1.0
69,641 - GFF2027 0.14 -0.7
69,641 - GFF2027 0.14 -2.5
69,641 - GFF2027 0.14 -1.1
69,652 + GFF2027 0.16 -0.7
69,652 + GFF2027 0.16 -0.5
69,653 - GFF2027 0.16 -1.4
69,653 - GFF2027 0.16 -0.5
69,653 - GFF2027 0.16 -0.4
69,736 + GFF2027 0.29 +0.2
69,736 + GFF2027 0.29 -1.1
69,736 + GFF2027 0.29 -1.2
69,737 - GFF2027 0.29 -0.5
69,737 - GFF2027 0.29 -0.9
69,737 - GFF2027 0.29 -0.5
69,802 + GFF2027 0.39 -0.8
69,802 + GFF2027 0.39 -0.3
69,802 + GFF2027 0.39 -1.1
69,802 + GFF2027 0.39 -0.3
69,802 + GFF2027 0.39 +0.1
69,803 - GFF2027 0.39 +0.7
69,803 - GFF2027 0.39 -0.7
69,803 - GFF2027 0.39 +0.5
69,803 - GFF2027 0.39 -0.8
70,051 + GFF2027 0.77 -2.0
70,051 + GFF2027 0.77 +0.5
70,051 + GFF2027 0.77 -0.5
70,051 + GFF2027 0.77 -2.2
70,051 + GFF2027 0.77 -0.9
70,051 + GFF2027 0.77 -0.0
70,051 + GFF2027 0.77 -0.4
70,051 + GFF2027 0.77 -0.6
70,051 + GFF2027 0.77 +0.2
70,052 - GFF2027 0.77 -0.3
70,052 - GFF2027 0.77 -0.7
70,052 - GFF2027 0.77 -0.1
70,052 - GFF2027 0.77 -2.2
70,052 - GFF2027 0.77 -0.4
70,052 - GFF2027 0.77 -2.2
70,108 + GFF2027 0.86 -1.1
70,108 + GFF2027 0.86 +0.1
70,108 - GFF2027 0.86 +0.3
70,109 - GFF2027 0.86 +0.4
70,260 + -0.6
70,261 - -0.4
70,261 - -1.9
70,267 + -0.7

Or see this region's nucleotide sequence