Strain Fitness in Variovorax sp. SCN45 around GFF28

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 2 mg/mL

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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 ntGFF26 and GFF27 overlap by 4 nucleotidesGFF27 and GFF28 are separated by 14 nucleotidesGFF28 and GFF29 are separated by 145 nucleotides GFF26 - Esterase/lipase, at 30,483 to 31,463 GFF26 GFF27 - 4-hydroxybenzoyl-CoA thioesterase family active site, at 31,460 to 32,335 GFF27 GFF28 - hypothetical protein, at 32,350 to 33,246 GFF28 GFF29 - tRNA-modifying protein YgfZ, at 33,392 to 34,327 GFF29 Position (kb) 32 33 34Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 31.356 kb on + strand, within GFF26at 31.562 kb on + strand, within GFF27at 31.562 kb on + strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.563 kb on - strand, within GFF27at 31.571 kb on + strand, within GFF27at 31.595 kb on + strand, within GFF27at 31.619 kb on + strand, within GFF27at 31.620 kb on - strand, within GFF27at 31.655 kb on + strand, within GFF27at 31.655 kb on + strand, within GFF27at 31.656 kb on - strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.811 kb on + strand, within GFF27at 31.812 kb on - strand, within GFF27at 31.812 kb on - strand, within GFF27at 31.812 kb on - strand, within GFF27at 31.812 kb on - strand, within GFF27at 31.812 kb on - strand, within GFF27at 31.883 kb on + strand, within GFF27at 31.883 kb on + strand, within GFF27at 32.249 kb on + strandat 32.249 kb on + strandat 32.249 kb on + strandat 32.249 kb on + strandat 32.250 kb on - strandat 32.250 kb on - strandat 32.250 kb on - strandat 32.250 kb on - strandat 32.250 kb on - strandat 32.264 kb on + strandat 32.264 kb on + strandat 32.264 kb on + strandat 32.265 kb on - strandat 32.379 kb on - strandat 32.480 kb on + strand, within GFF28at 32.481 kb on - strand, within GFF28at 32.543 kb on + strand, within GFF28at 32.543 kb on + strand, within GFF28at 32.543 kb on + strand, within GFF28at 32.543 kb on + strand, within GFF28at 32.543 kb on + strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.544 kb on - strand, within GFF28at 32.918 kb on + strand, within GFF28at 32.918 kb on + strand, within GFF28at 32.918 kb on + strand, within GFF28at 32.918 kb on + strand, within GFF28at 32.918 kb on + strand, within GFF28at 32.919 kb on - strand, within GFF28at 32.919 kb on - strand, within GFF28at 32.919 kb on - strand, within GFF28at 32.919 kb on - strand, within GFF28at 33.026 kb on + strand, within GFF28at 33.027 kb on - strand, within GFF28at 33.027 kb on - strand, within GFF28at 33.056 kb on + strand, within GFF28at 33.056 kb on + strand, within GFF28at 33.057 kb on - strand, within GFF28at 33.057 kb on - strand, within GFF28at 33.057 kb on - strand, within GFF28at 33.074 kb on + strand, within GFF28at 33.161 kb on + strandat 33.162 kb on - strandat 33.162 kb on - strandat 33.162 kb on - strandat 33.286 kb on - strandat 33.429 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 2 mg/mL
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31,356 + GFF26 0.89 +0.1
31,562 + GFF27 0.12 -0.4
31,562 + GFF27 0.12 -0.2
31,563 - GFF27 0.12 -1.1
31,563 - GFF27 0.12 -0.9
31,563 - GFF27 0.12 -0.3
31,563 - GFF27 0.12 -2.9
31,563 - GFF27 0.12 -0.4
31,563 - GFF27 0.12 +1.2
31,563 - GFF27 0.12 -0.1
31,571 + GFF27 0.13 +0.2
31,595 + GFF27 0.15 +0.0
31,619 + GFF27 0.18 +0.3
31,620 - GFF27 0.18 -0.2
31,655 + GFF27 0.22 -0.9
31,655 + GFF27 0.22 +1.2
31,656 - GFF27 0.22 +1.6
31,811 + GFF27 0.40 +0.2
31,811 + GFF27 0.40 +0.6
31,811 + GFF27 0.40 -0.2
31,811 + GFF27 0.40 -0.6
31,811 + GFF27 0.40 +0.8
31,811 + GFF27 0.40 -1.2
31,811 + GFF27 0.40 -0.1
31,812 - GFF27 0.40 +0.2
31,812 - GFF27 0.40 -0.4
31,812 - GFF27 0.40 +0.6
31,812 - GFF27 0.40 -0.1
31,812 - GFF27 0.40 -1.0
31,883 + GFF27 0.48 -0.8
31,883 + GFF27 0.48 -0.2
32,249 + -0.2
32,249 + -0.9
32,249 + -1.2
32,249 + +1.4
32,250 - -0.2
32,250 - -0.6
32,250 - -1.0
32,250 - -0.8
32,250 - +0.5
32,264 + +0.6
32,264 + -0.4
32,264 + -0.8
32,265 - +0.0
32,379 - -0.5
32,480 + GFF28 0.14 -0.5
32,481 - GFF28 0.15 -0.4
32,543 + GFF28 0.22 -0.7
32,543 + GFF28 0.22 -0.6
32,543 + GFF28 0.22 -0.4
32,543 + GFF28 0.22 -0.3
32,543 + GFF28 0.22 -1.1
32,544 - GFF28 0.22 -0.4
32,544 - GFF28 0.22 +0.6
32,544 - GFF28 0.22 +0.6
32,544 - GFF28 0.22 -0.4
32,544 - GFF28 0.22 -0.0
32,544 - GFF28 0.22 -0.4
32,544 - GFF28 0.22 -1.2
32,544 - GFF28 0.22 -0.8
32,544 - GFF28 0.22 -1.4
32,544 - GFF28 0.22 -0.5
32,918 + GFF28 0.63 +0.7
32,918 + GFF28 0.63 +0.6
32,918 + GFF28 0.63 +0.9
32,918 + GFF28 0.63 -1.6
32,918 + GFF28 0.63 -0.4
32,919 - GFF28 0.63 -0.5
32,919 - GFF28 0.63 +2.4
32,919 - GFF28 0.63 -0.2
32,919 - GFF28 0.63 -1.1
33,026 + GFF28 0.75 -0.3
33,027 - GFF28 0.75 -1.4
33,027 - GFF28 0.75 +0.1
33,056 + GFF28 0.79 +0.1
33,056 + GFF28 0.79 -0.1
33,057 - GFF28 0.79 -0.8
33,057 - GFF28 0.79 +0.3
33,057 - GFF28 0.79 -1.6
33,074 + GFF28 0.81 -2.4
33,161 + +0.6
33,162 - -0.4
33,162 - +0.5
33,162 - +0.2
33,286 - -0.8
33,429 - -2.5

Or see this region's nucleotide sequence