Strain Fitness in Variovorax sp. SCN45 around GFF2007

Experiment: M9 with calcium pantothenate 10 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 ntGFF2006 and GFF2007 are separated by 143 nucleotidesGFF2007 and GFF2008 overlap by 4 nucleotides GFF2006 - Isovaleryl-CoA dehydrogenase (EC 1.3.8.4), at 49,632 to 50,804 GFF2006 GFF2007 - Acetoacetyl-CoA synthetase [leucine] (EC 6.2.1.16), at 50,948 to 52,627 GFF2007 GFF2008 - Methylcrotonyl-CoA carboxylase carboxyl transferase subunit (EC 6.4.1.4), at 52,624 to 54,252 GFF2008 Position (kb) 50 51 52 53Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 49.974 kb on + strand, within GFF2006at 49.974 kb on + strand, within GFF2006at 49.974 kb on + strand, within GFF2006at 49.974 kb on + strand, within GFF2006at 49.974 kb on + strand, within GFF2006at 49.974 kb on + strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 49.975 kb on - strand, within GFF2006at 50.085 kb on + strand, within GFF2006at 50.085 kb on + strand, within GFF2006at 50.086 kb on - strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.088 kb on + strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.089 kb on - strand, within GFF2006at 50.151 kb on + strand, within GFF2006at 50.151 kb on + strand, within GFF2006at 50.151 kb on + strand, within GFF2006at 50.152 kb on - strand, within GFF2006at 50.152 kb on - strand, within GFF2006at 50.152 kb on - strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.511 kb on + strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.512 kb on - strand, within GFF2006at 50.538 kb on + strand, within GFF2006at 50.538 kb on + strand, within GFF2006at 50.538 kb on + strand, within GFF2006at 50.544 kb on + strand, within GFF2006at 50.682 kb on + strand, within GFF2006at 50.730 kb on + strandat 50.731 kb on - strandat 50.731 kb on - strandat 50.731 kb on - strandat 50.738 kb on - strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.802 kb on + strandat 50.803 kb on - strandat 50.803 kb on - strandat 50.803 kb on - strandat 50.803 kb on - strandat 50.979 kb on - strandat 50.979 kb on - strandat 50.979 kb on - strandat 51.105 kb on - strandat 51.105 kb on - strandat 51.272 kb on + strand, within GFF2007at 51.273 kb on - strand, within GFF2007at 51.294 kb on - strand, within GFF2007at 51.294 kb on - strand, within GFF2007at 51.294 kb on - strand, within GFF2007at 51.356 kb on + strand, within GFF2007at 51.357 kb on - strand, within GFF2007at 51.357 kb on - strand, within GFF2007at 51.689 kb on + strand, within GFF2007at 51.689 kb on + strand, within GFF2007at 51.689 kb on + strand, within GFF2007at 51.690 kb on - strand, within GFF2007at 51.753 kb on - strand, within GFF2007at 51.983 kb on + strand, within GFF2007at 52.157 kb on + strand, within GFF2007at 52.158 kb on - strand, within GFF2007at 52.265 kb on + strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.266 kb on - strand, within GFF2007at 52.322 kb on + strand, within GFF2007at 52.323 kb on - strand, within GFF2007at 52.323 kb on - strand, within GFF2007at 52.323 kb on - strand, within GFF2007at 52.323 kb on - strand, within GFF2007at 52.323 kb on - strand, within GFF2007at 52.349 kb on + strand, within GFF2007at 52.350 kb on - strand, within GFF2007at 52.404 kb on - strand, within GFF2007at 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.499 kb on + strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.500 kb on - strandat 52.514 kb on + strandat 52.515 kb on - strandat 52.515 kb on - strandat 52.515 kb on - strandat 52.515 kb on - strandat 52.867 kb on + strand, within GFF2008at 52.867 kb on + strand, within GFF2008at 52.867 kb on + strand, within GFF2008at 52.867 kb on + strand, within GFF2008at 52.868 kb on - strand, within GFF2008at 52.868 kb on - strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.987 kb on + strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.988 kb on - strand, within GFF2008at 52.991 kb on - strand, within GFF2008at 53.059 kb on + strand, within GFF2008at 53.059 kb on + strand, within GFF2008at 53.059 kb on + strand, within GFF2008at 53.059 kb on + strand, within GFF2008at 53.060 kb on - strand, within GFF2008at 53.060 kb on - strand, within GFF2008at 53.060 kb on - strand, within GFF2008at 53.140 kb on + strand, within GFF2008at 53.140 kb on + strand, within GFF2008at 53.140 kb on + strand, within GFF2008at 53.141 kb on - strand, within GFF2008at 53.141 kb on - strand, within GFF2008at 53.141 kb on - strand, within GFF2008at 53.141 kb on - strand, within GFF2008at 53.141 kb on - strand, within GFF2008at 53.218 kb on + strand, within GFF2008at 53.218 kb on + strand, within GFF2008at 53.219 kb on - strand, within GFF2008at 53.512 kb on + strand, within GFF2008at 53.512 kb on + strand, within GFF2008at 53.512 kb on + strand, within GFF2008at 53.512 kb on + strand, within GFF2008at 53.512 kb on + strand, within GFF2008at 53.512 kb on + strand, within GFF2008

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
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49,974 + GFF2006 0.29 +1.3
49,974 + GFF2006 0.29 -0.4
49,974 + GFF2006 0.29 -0.1
49,974 + GFF2006 0.29 -1.1
49,974 + GFF2006 0.29 -1.4
49,974 + GFF2006 0.29 -1.1
49,975 - GFF2006 0.29 +0.9
49,975 - GFF2006 0.29 +1.9
49,975 - GFF2006 0.29 -0.5
49,975 - GFF2006 0.29 -0.7
49,975 - GFF2006 0.29 -0.3
49,975 - GFF2006 0.29 -0.9
50,085 + GFF2006 0.39 -0.1
50,085 + GFF2006 0.39 +2.6
50,086 - GFF2006 0.39 -0.8
50,088 + GFF2006 0.39 -0.1
50,088 + GFF2006 0.39 -1.6
50,088 + GFF2006 0.39 -0.2
50,088 + GFF2006 0.39 -2.0
50,088 + GFF2006 0.39 +0.6
50,088 + GFF2006 0.39 +0.8
50,088 + GFF2006 0.39 -1.0
50,088 + GFF2006 0.39 +1.1
50,088 + GFF2006 0.39 -0.6
50,088 + GFF2006 0.39 -1.7
50,089 - GFF2006 0.39 +1.0
50,089 - GFF2006 0.39 -1.3
50,089 - GFF2006 0.39 +0.1
50,089 - GFF2006 0.39 -0.5
50,089 - GFF2006 0.39 +0.3
50,089 - GFF2006 0.39 -0.3
50,089 - GFF2006 0.39 -0.8
50,089 - GFF2006 0.39 +0.0
50,089 - GFF2006 0.39 +0.1
50,089 - GFF2006 0.39 -2.4
50,089 - GFF2006 0.39 -0.1
50,089 - GFF2006 0.39 -0.6
50,151 + GFF2006 0.44 -0.1
50,151 + GFF2006 0.44 +0.3
50,151 + GFF2006 0.44 -0.4
50,152 - GFF2006 0.44 +0.1
50,152 - GFF2006 0.44 +0.5
50,152 - GFF2006 0.44 -0.9
50,511 + GFF2006 0.75 +0.4
50,511 + GFF2006 0.75 +0.3
50,511 + GFF2006 0.75 -0.7
50,511 + GFF2006 0.75 -0.3
50,511 + GFF2006 0.75 -0.2
50,511 + GFF2006 0.75 +0.9
50,511 + GFF2006 0.75 -0.7
50,511 + GFF2006 0.75 -1.8
50,511 + GFF2006 0.75 +0.9
50,511 + GFF2006 0.75 -0.2
50,511 + GFF2006 0.75 +0.4
50,511 + GFF2006 0.75 -2.3
50,511 + GFF2006 0.75 -2.8
50,511 + GFF2006 0.75 +0.0
50,511 + GFF2006 0.75 -0.5
50,511 + GFF2006 0.75 -0.2
50,511 + GFF2006 0.75 -0.4
50,511 + GFF2006 0.75 -0.5
50,512 - GFF2006 0.75 +0.5
50,512 - GFF2006 0.75 -2.5
50,512 - GFF2006 0.75 -1.4
50,512 - GFF2006 0.75 +0.0
50,512 - GFF2006 0.75 -0.3
50,512 - GFF2006 0.75 -0.7
50,512 - GFF2006 0.75 +0.4
50,538 + GFF2006 0.77 -0.6
50,538 + GFF2006 0.77 -0.6
50,538 + GFF2006 0.77 -1.1
50,544 + GFF2006 0.78 -0.1
50,682 + GFF2006 0.90 -2.0
50,730 + +0.8
50,731 - -1.4
50,731 - -0.5
50,731 - -0.2
50,738 - +0.6
50,802 + -0.3
50,802 + -0.1
50,802 + -0.0
50,802 + -1.4
50,802 + -0.3
50,802 + -0.4
50,802 + -0.1
50,802 + -0.7
50,803 - -0.2
50,803 - -0.1
50,803 - -0.4
50,803 - +0.6
50,979 - +0.1
50,979 - -0.8
50,979 - -0.4
51,105 - -0.6
51,105 - +0.0
51,272 + GFF2007 0.19 -0.7
51,273 - GFF2007 0.19 -0.4
51,294 - GFF2007 0.21 +0.3
51,294 - GFF2007 0.21 -0.5
51,294 - GFF2007 0.21 -0.3
51,356 + GFF2007 0.24 +0.1
51,357 - GFF2007 0.24 -0.1
51,357 - GFF2007 0.24 -0.4
51,689 + GFF2007 0.44 -0.7
51,689 + GFF2007 0.44 +0.9
51,689 + GFF2007 0.44 -1.5
51,690 - GFF2007 0.44 -0.2
51,753 - GFF2007 0.48 +0.7
51,983 + GFF2007 0.62 +1.9
52,157 + GFF2007 0.72 -0.9
52,158 - GFF2007 0.72 -0.9
52,265 + GFF2007 0.78 -0.6
52,266 - GFF2007 0.78 -0.2
52,266 - GFF2007 0.78 -0.0
52,266 - GFF2007 0.78 +0.1
52,266 - GFF2007 0.78 +0.0
52,266 - GFF2007 0.78 -0.6
52,266 - GFF2007 0.78 -0.2
52,322 + GFF2007 0.82 +0.8
52,323 - GFF2007 0.82 -0.7
52,323 - GFF2007 0.82 +0.0
52,323 - GFF2007 0.82 -1.7
52,323 - GFF2007 0.82 +2.0
52,323 - GFF2007 0.82 -0.2
52,349 + GFF2007 0.83 +0.9
52,350 - GFF2007 0.83 -0.9
52,404 - GFF2007 0.87 -1.1
52,499 + -0.3
52,499 + -0.4
52,499 + -0.1
52,499 + -1.1
52,499 + -1.3
52,499 + -0.3
52,499 + +0.3
52,499 + +0.2
52,499 + -1.1
52,500 - +0.1
52,500 - -0.6
52,500 - -0.3
52,500 - +0.1
52,500 - -0.1
52,500 - -0.0
52,500 - -0.5
52,500 - +0.1
52,500 - -0.5
52,514 + -1.1
52,515 - -0.9
52,515 - -0.6
52,515 - +1.1
52,515 - -0.0
52,867 + GFF2008 0.15 -0.9
52,867 + GFF2008 0.15 -0.3
52,867 + GFF2008 0.15 +0.4
52,867 + GFF2008 0.15 +1.1
52,868 - GFF2008 0.15 +1.9
52,868 - GFF2008 0.15 -0.8
52,987 + GFF2008 0.22 +0.1
52,987 + GFF2008 0.22 -0.4
52,987 + GFF2008 0.22 +1.1
52,987 + GFF2008 0.22 -0.0
52,987 + GFF2008 0.22 -0.1
52,987 + GFF2008 0.22 -0.2
52,987 + GFF2008 0.22 -0.1
52,987 + GFF2008 0.22 -0.3
52,987 + GFF2008 0.22 +0.3
52,988 - GFF2008 0.22 +1.2
52,988 - GFF2008 0.22 -1.6
52,988 - GFF2008 0.22 -1.5
52,988 - GFF2008 0.22 -0.0
52,988 - GFF2008 0.22 +0.9
52,988 - GFF2008 0.22 -2.1
52,988 - GFF2008 0.22 +0.2
52,991 - GFF2008 0.23 -1.2
53,059 + GFF2008 0.27 +0.3
53,059 + GFF2008 0.27 -1.4
53,059 + GFF2008 0.27 +0.4
53,059 + GFF2008 0.27 -0.9
53,060 - GFF2008 0.27 -0.9
53,060 - GFF2008 0.27 +0.8
53,060 - GFF2008 0.27 -1.4
53,140 + GFF2008 0.32 -0.7
53,140 + GFF2008 0.32 -0.4
53,140 + GFF2008 0.32 +0.2
53,141 - GFF2008 0.32 -1.8
53,141 - GFF2008 0.32 +0.5
53,141 - GFF2008 0.32 -1.8
53,141 - GFF2008 0.32 +1.6
53,141 - GFF2008 0.32 -0.4
53,218 + GFF2008 0.36 +0.9
53,218 + GFF2008 0.36 -0.3
53,219 - GFF2008 0.37 +0.5
53,512 + GFF2008 0.55 -1.6
53,512 + GFF2008 0.55 -1.4
53,512 + GFF2008 0.55 -1.1
53,512 + GFF2008 0.55 -0.6
53,512 + GFF2008 0.55 -0.3
53,512 + GFF2008 0.55 -0.2

Or see this region's nucleotide sequence