Strain Fitness in Variovorax sp. SCN45 around GFF3000

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 ntGFF2998 and GFF2999 are separated by 169 nucleotidesGFF2999 and GFF3000 overlap by 4 nucleotidesGFF3000 and GFF3001 overlap by 4 nucleotidesGFF3001 and GFF3002 overlap by 4 nucleotides GFF2998 - Virulence factor BrkB, at 428,132 to 429,343 GFF2998 GFF2999 - Putative transmembrane protein, at 429,513 to 429,875 GFF2999 GFF3000 - D-2-hydroxyglutarate dehydrogenase (EC 1.1.99.2), at 429,872 to 431,299 GFF3000 GFF3001 - Metal chaperone, involved in Zn homeostasis, at 431,296 to 431,664 GFF3001 GFF3002 - Cobalt-containing nitrile hydratase subunit beta (EC 4.2.1.84), at 431,661 to 432,326 GFF3002 Position (kb) 429 430 431 432Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 428.904 kb on + strand, within GFF2998at 428.905 kb on - strand, within GFF2998at 429.270 kb on - strandat 429.338 kb on + strandat 429.339 kb on - strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.343 kb on + strandat 429.344 kb on - strandat 429.344 kb on - strandat 429.344 kb on - strandat 429.344 kb on - strandat 429.344 kb on - strandat 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.654 kb on + strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.655 kb on - strand, within GFF2999at 429.660 kb on + strand, within GFF2999at 429.660 kb on + strand, within GFF2999at 429.661 kb on - strand, within GFF2999at 429.661 kb on - strand, within GFF2999at 429.661 kb on - strand, within GFF2999at 429.661 kb on - strand, within GFF2999at 429.661 kb on - strand, within GFF2999at 429.690 kb on + strand, within GFF2999at 429.691 kb on - strand, within GFF2999at 429.691 kb on - strand, within GFF2999at 429.691 kb on - strand, within GFF2999at 429.931 kb on - strandat 429.931 kb on - strandat 429.931 kb on - strandat 429.931 kb on - strandat 429.956 kb on + strandat 430.445 kb on + strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 430.719 kb on - strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.123 kb on + strand, within GFF3000at 431.298 kb on - strandat 431.298 kb on - strandat 431.379 kb on - strand, within GFF3001at 431.453 kb on + strand, within GFF3001at 431.453 kb on + strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.454 kb on - strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.456 kb on + strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.457 kb on - strand, within GFF3001at 431.680 kb on + strandat 431.681 kb on - strandat 431.681 kb on - strandat 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.767 kb on + strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.768 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 431.867 kb on - strand, within GFF3002at 432.025 kb on - strand, within GFF3002at 432.025 kb on - strand, within GFF3002at 432.025 kb on - strand, within GFF3002at 432.121 kb on + strand, within GFF3002at 432.121 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.124 kb on + strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.125 kb on - strand, within GFF3002at 432.140 kb on - strand, within GFF3002

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus
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428,904 + GFF2998 0.64 +1.7
428,905 - GFF2998 0.64 +0.2
429,270 - -3.4
429,338 + -0.3
429,339 - +0.4
429,343 + -1.9
429,343 + -0.4
429,343 + -0.8
429,343 + -1.5
429,343 + -0.1
429,343 + +0.4
429,343 + -1.6
429,343 + -0.9
429,343 + -1.0
429,344 - -0.4
429,344 - -2.1
429,344 - +0.3
429,344 - +0.5
429,344 - +1.1
429,654 + GFF2999 0.39 -0.3
429,654 + GFF2999 0.39 -0.4
429,654 + GFF2999 0.39 -0.8
429,654 + GFF2999 0.39 -1.6
429,654 + GFF2999 0.39 +2.7
429,654 + GFF2999 0.39 -0.5
429,654 + GFF2999 0.39 +0.0
429,654 + GFF2999 0.39 -0.2
429,654 + GFF2999 0.39 -0.1
429,654 + GFF2999 0.39 -0.1
429,654 + GFF2999 0.39 -0.1
429,654 + GFF2999 0.39 -0.1
429,654 + GFF2999 0.39 -0.3
429,654 + GFF2999 0.39 -1.1
429,654 + GFF2999 0.39 -1.5
429,655 - GFF2999 0.39 +0.7
429,655 - GFF2999 0.39 -1.3
429,655 - GFF2999 0.39 -1.2
429,655 - GFF2999 0.39 -0.2
429,655 - GFF2999 0.39 -1.6
429,655 - GFF2999 0.39 +0.8
429,655 - GFF2999 0.39 -0.6
429,655 - GFF2999 0.39 -0.4
429,655 - GFF2999 0.39 +0.1
429,655 - GFF2999 0.39 -0.3
429,655 - GFF2999 0.39 +0.4
429,655 - GFF2999 0.39 -2.3
429,655 - GFF2999 0.39 -0.2
429,655 - GFF2999 0.39 -0.1
429,655 - GFF2999 0.39 -2.6
429,655 - GFF2999 0.39 -1.0
429,655 - GFF2999 0.39 -1.5
429,655 - GFF2999 0.39 -1.1
429,655 - GFF2999 0.39 +0.5
429,660 + GFF2999 0.40 -0.9
429,660 + GFF2999 0.40 +1.1
429,661 - GFF2999 0.41 +0.3
429,661 - GFF2999 0.41 +1.3
429,661 - GFF2999 0.41 -0.1
429,661 - GFF2999 0.41 -1.3
429,661 - GFF2999 0.41 +0.0
429,690 + GFF2999 0.49 +0.1
429,691 - GFF2999 0.49 -0.7
429,691 - GFF2999 0.49 -0.3
429,691 - GFF2999 0.49 -1.2
429,931 - +0.7
429,931 - -2.4
429,931 - +1.3
429,931 - +0.3
429,956 + +2.0
430,445 + GFF3000 0.40 +0.6
430,719 - GFF3000 0.59 -1.1
430,719 - GFF3000 0.59 -1.1
430,719 - GFF3000 0.59 -1.4
430,719 - GFF3000 0.59 +1.9
431,123 + GFF3000 0.88 +0.6
431,123 + GFF3000 0.88 -2.7
431,123 + GFF3000 0.88 +1.0
431,123 + GFF3000 0.88 +0.4
431,298 - -1.3
431,298 - -1.9
431,379 - GFF3001 0.22 -0.8
431,453 + GFF3001 0.43 +0.2
431,453 + GFF3001 0.43 -0.1
431,454 - GFF3001 0.43 -0.3
431,454 - GFF3001 0.43 -0.1
431,454 - GFF3001 0.43 +0.4
431,454 - GFF3001 0.43 -0.9
431,454 - GFF3001 0.43 -0.3
431,456 + GFF3001 0.43 -0.9
431,456 + GFF3001 0.43 +0.0
431,456 + GFF3001 0.43 -0.3
431,456 + GFF3001 0.43 +0.5
431,457 - GFF3001 0.44 +0.6
431,457 - GFF3001 0.44 -0.2
431,457 - GFF3001 0.44 -1.4
431,680 + -1.1
431,681 - -0.6
431,681 - -0.0
431,767 + GFF3002 0.16 -0.1
431,767 + GFF3002 0.16 +1.5
431,767 + GFF3002 0.16 -0.6
431,767 + GFF3002 0.16 -0.7
431,767 + GFF3002 0.16 -0.5
431,768 - GFF3002 0.16 +0.2
431,768 - GFF3002 0.16 -0.4
431,768 - GFF3002 0.16 +1.4
431,768 - GFF3002 0.16 +1.1
431,768 - GFF3002 0.16 +0.9
431,768 - GFF3002 0.16 +1.7
431,867 - GFF3002 0.31 +0.8
431,867 - GFF3002 0.31 +0.3
431,867 - GFF3002 0.31 +0.6
432,025 - GFF3002 0.55 -0.8
432,025 - GFF3002 0.55 -0.2
432,025 - GFF3002 0.55 -0.3
432,121 + GFF3002 0.69 -1.3
432,121 + GFF3002 0.69 +0.6
432,124 + GFF3002 0.70 -1.3
432,124 + GFF3002 0.70 -1.9
432,124 + GFF3002 0.70 -1.5
432,124 + GFF3002 0.70 -2.1
432,124 + GFF3002 0.70 -1.1
432,125 - GFF3002 0.70 -0.2
432,125 - GFF3002 0.70 -0.1
432,125 - GFF3002 0.70 -0.1
432,125 - GFF3002 0.70 -1.0
432,125 - GFF3002 0.70 +0.3
432,125 - GFF3002 0.70 -0.5
432,125 - GFF3002 0.70 -0.4
432,125 - GFF3002 0.70 -0.8
432,125 - GFF3002 0.70 -0.4
432,125 - GFF3002 0.70 +0.0
432,125 - GFF3002 0.70 +0.9
432,140 - GFF3002 0.72 -0.9

Or see this region's nucleotide sequence