Strain Fitness in Variovorax sp. SCN45 around GFF2008

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 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 ntGFF2007 and GFF2008 overlap by 4 nucleotidesGFF2008 and GFF2009 are separated by 21 nucleotidesGFF2009 and GFF2010 are separated by 16 nucleotides 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 GFF2009 - Dienelactone hydrolase and related enzymes, at 54,274 to 55,140 GFF2009 GFF2010 - Methylglutaconyl-CoA hydratase (EC 4.2.1.18), at 55,157 to 55,963 GFF2010 Position (kb) 52 53 54 55Strain fitness (log2 ratio) -2 -1 0 1 2 3at 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 GFF2008at 53.797 kb on + strand, within GFF2008at 53.797 kb on + strand, within GFF2008at 53.908 kb on + strand, within GFF2008at 53.908 kb on + strand, within GFF2008at 53.908 kb on + strand, within GFF2008at 53.908 kb on + strand, within GFF2008at 53.908 kb on + strand, within GFF2008at 53.909 kb on - strand, within GFF2008at 53.929 kb on + strand, within GFF2008at 53.929 kb on + strand, within GFF2008at 53.930 kb on - strand, within GFF2008at 54.097 kb on + strandat 54.098 kb on - strandat 54.098 kb on - strandat 54.118 kb on + strandat 54.118 kb on + strandat 54.118 kb on + strandat 54.118 kb on + strandat 54.119 kb on - strandat 54.119 kb on - strandat 54.121 kb on + strandat 54.121 kb on + strandat 54.121 kb on + strandat 54.121 kb on + strandat 54.122 kb on - strandat 54.122 kb on - strandat 54.122 kb on - strandat 54.122 kb on - strandat 54.122 kb on - strandat 54.122 kb on - strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.250 kb on + strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.251 kb on - strandat 54.427 kb on + strand, within GFF2009at 54.427 kb on + strand, within GFF2009at 54.427 kb on + strand, within GFF2009at 54.427 kb on + strand, within GFF2009at 54.427 kb on + strand, within GFF2009at 54.428 kb on - strand, within GFF2009at 54.521 kb on - strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.619 kb on + strand, within GFF2009at 54.620 kb on - strand, within GFF2009at 54.643 kb on + strand, within GFF2009at 54.644 kb on - strand, within GFF2009at 54.644 kb on - strand, within GFF2009at 54.644 kb on - strand, within GFF2009at 54.694 kb on + strand, within GFF2009at 54.713 kb on - strand, within GFF2009at 54.893 kb on - strand, within GFF2009at 54.928 kb on + strand, within GFF2009at 54.928 kb on + strand, within GFF2009at 54.929 kb on - strand, within GFF2009at 54.985 kb on + strand, within GFF2009at 54.985 kb on + strand, within GFF2009at 55.172 kb on + strandat 55.172 kb on + strandat 55.172 kb on + strandat 55.173 kb on - strandat 55.173 kb on - strandat 55.173 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 50 mg/mL
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51,689 + GFF2007 0.44 -0.9
51,689 + GFF2007 0.44 +0.7
51,689 + GFF2007 0.44 +0.6
51,690 - GFF2007 0.44 -0.8
51,753 - GFF2007 0.48 -0.1
51,983 + GFF2007 0.62 +0.7
52,157 + GFF2007 0.72 -1.1
52,158 - GFF2007 0.72 -0.4
52,265 + GFF2007 0.78 -0.3
52,266 - GFF2007 0.78 -0.1
52,266 - GFF2007 0.78 +0.4
52,266 - GFF2007 0.78 -0.5
52,266 - GFF2007 0.78 -0.5
52,266 - GFF2007 0.78 -0.3
52,266 - GFF2007 0.78 +0.6
52,322 + GFF2007 0.82 -0.0
52,323 - GFF2007 0.82 -1.4
52,323 - GFF2007 0.82 -0.4
52,323 - GFF2007 0.82 -0.2
52,323 - GFF2007 0.82 +0.3
52,323 - GFF2007 0.82 -0.4
52,349 + GFF2007 0.83 +2.7
52,350 - GFF2007 0.83 -0.5
52,404 - GFF2007 0.87 -0.4
52,499 + -0.4
52,499 + -0.0
52,499 + -0.9
52,499 + -0.3
52,499 + -0.5
52,499 + +0.4
52,499 + -0.2
52,499 + +0.2
52,499 + -0.0
52,500 - +0.0
52,500 - -0.8
52,500 - -0.5
52,500 - -1.9
52,500 - -0.3
52,500 - -2.2
52,500 - -0.1
52,500 - -0.2
52,500 - -1.7
52,514 + +0.3
52,515 - -0.1
52,515 - +1.2
52,515 - +1.9
52,515 - +0.1
52,867 + GFF2008 0.15 -1.4
52,867 + GFF2008 0.15 -0.7
52,867 + GFF2008 0.15 +0.0
52,867 + GFF2008 0.15 +1.4
52,868 - GFF2008 0.15 +1.2
52,868 - GFF2008 0.15 +0.3
52,987 + GFF2008 0.22 +0.9
52,987 + GFF2008 0.22 -0.0
52,987 + GFF2008 0.22 -1.1
52,987 + GFF2008 0.22 -0.6
52,987 + GFF2008 0.22 -0.5
52,987 + GFF2008 0.22 +0.3
52,987 + GFF2008 0.22 -0.3
52,987 + GFF2008 0.22 +0.7
52,987 + GFF2008 0.22 +0.1
52,988 - GFF2008 0.22 -0.3
52,988 - GFF2008 0.22 -0.8
52,988 - GFF2008 0.22 -0.4
52,988 - GFF2008 0.22 +0.1
52,988 - GFF2008 0.22 +1.0
52,988 - GFF2008 0.22 -1.3
52,988 - GFF2008 0.22 -0.1
52,991 - GFF2008 0.23 -0.1
53,059 + GFF2008 0.27 +2.4
53,059 + GFF2008 0.27 -0.6
53,059 + GFF2008 0.27 -0.4
53,059 + GFF2008 0.27 -1.7
53,060 - GFF2008 0.27 -0.4
53,060 - GFF2008 0.27 +0.1
53,060 - GFF2008 0.27 +0.4
53,140 + GFF2008 0.32 -0.9
53,140 + GFF2008 0.32 -1.0
53,140 + GFF2008 0.32 +0.2
53,141 - GFF2008 0.32 +0.3
53,141 - GFF2008 0.32 +1.0
53,141 - GFF2008 0.32 -1.0
53,141 - GFF2008 0.32 -0.6
53,141 - GFF2008 0.32 -0.7
53,218 + GFF2008 0.36 -0.2
53,218 + GFF2008 0.36 -1.5
53,219 - GFF2008 0.37 +1.0
53,512 + GFF2008 0.55 +1.0
53,512 + GFF2008 0.55 -1.6
53,512 + GFF2008 0.55 -0.1
53,512 + GFF2008 0.55 -0.1
53,512 + GFF2008 0.55 -0.5
53,512 + GFF2008 0.55 -0.4
53,797 + GFF2008 0.72 -1.0
53,797 + GFF2008 0.72 +0.1
53,908 + GFF2008 0.79 -1.3
53,908 + GFF2008 0.79 -0.7
53,908 + GFF2008 0.79 -0.1
53,908 + GFF2008 0.79 -0.1
53,908 + GFF2008 0.79 -2.7
53,909 - GFF2008 0.79 -0.4
53,929 + GFF2008 0.80 -0.5
53,929 + GFF2008 0.80 -1.0
53,930 - GFF2008 0.80 +3.0
54,097 + -0.9
54,098 - +0.9
54,098 - -0.2
54,118 + -0.1
54,118 + -0.6
54,118 + -1.5
54,118 + -1.0
54,119 - -0.3
54,119 - -2.4
54,121 + -0.4
54,121 + -0.6
54,121 + -0.2
54,121 + -0.7
54,122 - -1.5
54,122 - -0.7
54,122 - -0.5
54,122 - -0.3
54,122 - +0.8
54,122 - +0.3
54,250 + -0.4
54,250 + +1.1
54,250 + -0.6
54,250 + -1.1
54,250 + +0.6
54,250 + -0.5
54,250 + -2.1
54,250 + -0.6
54,251 - +0.1
54,251 - +0.6
54,251 - -0.6
54,251 - -0.9
54,251 - +0.1
54,251 - +0.0
54,251 - -0.2
54,251 - -1.9
54,427 + GFF2009 0.18 -1.0
54,427 + GFF2009 0.18 -0.2
54,427 + GFF2009 0.18 -0.9
54,427 + GFF2009 0.18 -1.0
54,427 + GFF2009 0.18 -0.6
54,428 - GFF2009 0.18 -0.5
54,521 - GFF2009 0.28 +1.9
54,619 + GFF2009 0.40 -1.0
54,619 + GFF2009 0.40 -0.7
54,619 + GFF2009 0.40 -0.5
54,619 + GFF2009 0.40 +0.1
54,619 + GFF2009 0.40 -0.5
54,619 + GFF2009 0.40 +0.3
54,619 + GFF2009 0.40 +0.3
54,619 + GFF2009 0.40 -0.6
54,620 - GFF2009 0.40 -0.5
54,643 + GFF2009 0.43 -0.0
54,644 - GFF2009 0.43 -1.0
54,644 - GFF2009 0.43 +0.5
54,644 - GFF2009 0.43 -0.9
54,694 + GFF2009 0.48 -0.6
54,713 - GFF2009 0.51 +1.3
54,893 - GFF2009 0.71 -0.4
54,928 + GFF2009 0.75 -0.0
54,928 + GFF2009 0.75 -1.3
54,929 - GFF2009 0.76 +0.7
54,985 + GFF2009 0.82 -0.3
54,985 + GFF2009 0.82 +0.1
55,172 + -0.3
55,172 + -0.1
55,172 + -1.3
55,173 - +1.1
55,173 - +1.2
55,173 - +0.5

Or see this region's nucleotide sequence