Strain Fitness in Variovorax sp. SCN45 around GFF2010

Experiment: Community=guar; Passage=4

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntGFF2008 and GFF2009 are separated by 21 nucleotidesGFF2009 and GFF2010 are separated by 16 nucleotidesGFF2010 and GFF2011 are separated by 1 nucleotidesGFF2011 and GFF2012 are separated by 15 nucleotides 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 GFF2011 - hypothetical protein, at 55,965 to 56,468 GFF2011 GFF2012 - Putative transmembrane protein, at 56,484 to 57,158 GFF2012 Position (kb) 55 56Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 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 - strandat 55.391 kb on + strand, within GFF2010at 55.392 kb on - strand, within GFF2010at 55.496 kb on + strand, within GFF2010at 55.496 kb on + strand, within GFF2010at 55.496 kb on + strand, within GFF2010at 55.496 kb on + strand, within GFF2010at 55.496 kb on + strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.497 kb on - strand, within GFF2010at 55.560 kb on - strand, within GFF2010at 55.560 kb on - strand, within GFF2010at 55.560 kb on - strand, within GFF2010at 55.560 kb on - strand, within GFF2010at 55.610 kb on + strand, within GFF2010at 55.611 kb on - strand, within GFF2010at 55.649 kb on + strand, within GFF2010at 55.649 kb on + strand, within GFF2010at 55.649 kb on + strand, within GFF2010at 55.649 kb on + strand, within GFF2010at 55.650 kb on - strand, within GFF2010at 56.307 kb on + strand, within GFF2011at 56.307 kb on + strand, within GFF2011at 56.307 kb on + strand, within GFF2011at 56.307 kb on + strand, within GFF2011at 56.307 kb on + strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.308 kb on - strand, within GFF2011at 56.559 kb on + strand, within GFF2012at 56.559 kb on + strand, within GFF2012at 56.560 kb on - strand, within GFF2012at 56.560 kb on - strand, within GFF2012at 56.560 kb on - strand, within GFF2012at 56.560 kb on - strand, within GFF2012at 56.593 kb on - strand, within GFF2012at 56.593 kb on - strand, within GFF2012

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=guar; Passage=4
remove
54,250 + -1.7
54,250 + +1.2
54,250 + +1.0
54,250 + +0.8
54,250 + -0.9
54,250 + -0.0
54,250 + +2.1
54,250 + -0.7
54,251 - -1.1
54,251 - +2.2
54,251 - -0.2
54,251 - -0.8
54,251 - -0.6
54,251 - -0.7
54,251 - +1.3
54,251 - +1.2
54,427 + GFF2009 0.18 +0.1
54,427 + GFF2009 0.18 -1.5
54,427 + GFF2009 0.18 -0.7
54,427 + GFF2009 0.18 -0.5
54,427 + GFF2009 0.18 -0.1
54,428 - GFF2009 0.18 -1.0
54,521 - GFF2009 0.28 +3.1
54,619 + GFF2009 0.40 +0.0
54,619 + GFF2009 0.40 -2.0
54,619 + GFF2009 0.40 -1.9
54,619 + GFF2009 0.40 +1.0
54,619 + GFF2009 0.40 -1.4
54,619 + GFF2009 0.40 +1.2
54,619 + GFF2009 0.40 -1.2
54,619 + GFF2009 0.40 -0.9
54,620 - GFF2009 0.40 -1.7
54,643 + GFF2009 0.43 -1.6
54,644 - GFF2009 0.43 -0.3
54,644 - GFF2009 0.43 -0.9
54,644 - GFF2009 0.43 -0.6
54,694 + GFF2009 0.48 +1.4
54,713 - GFF2009 0.51 +0.0
54,893 - GFF2009 0.71 -1.9
54,928 + GFF2009 0.75 +0.5
54,928 + GFF2009 0.75 +1.4
54,929 - GFF2009 0.76 -2.4
54,985 + GFF2009 0.82 +1.1
54,985 + GFF2009 0.82 +1.1
55,172 + +0.8
55,172 + -1.2
55,172 + -0.8
55,173 - -0.5
55,173 - +1.2
55,173 - -1.9
55,391 + GFF2010 0.29 +0.1
55,392 - GFF2010 0.29 -0.1
55,496 + GFF2010 0.42 +0.0
55,496 + GFF2010 0.42 +0.8
55,496 + GFF2010 0.42 -1.5
55,496 + GFF2010 0.42 +0.4
55,496 + GFF2010 0.42 +1.4
55,497 - GFF2010 0.42 -0.6
55,497 - GFF2010 0.42 -1.0
55,497 - GFF2010 0.42 +0.6
55,497 - GFF2010 0.42 -0.3
55,497 - GFF2010 0.42 -1.2
55,497 - GFF2010 0.42 -0.8
55,497 - GFF2010 0.42 +0.0
55,497 - GFF2010 0.42 -2.0
55,497 - GFF2010 0.42 +0.3
55,497 - GFF2010 0.42 +2.4
55,560 - GFF2010 0.50 +0.4
55,560 - GFF2010 0.50 -1.7
55,560 - GFF2010 0.50 -2.0
55,560 - GFF2010 0.50 -0.5
55,610 + GFF2010 0.56 -0.3
55,611 - GFF2010 0.56 -2.1
55,649 + GFF2010 0.61 +2.0
55,649 + GFF2010 0.61 -1.7
55,649 + GFF2010 0.61 -0.4
55,649 + GFF2010 0.61 -1.6
55,650 - GFF2010 0.61 -2.0
56,307 + GFF2011 0.68 -2.2
56,307 + GFF2011 0.68 -0.8
56,307 + GFF2011 0.68 +1.1
56,307 + GFF2011 0.68 -0.8
56,307 + GFF2011 0.68 +0.5
56,308 - GFF2011 0.68 -0.5
56,308 - GFF2011 0.68 -1.0
56,308 - GFF2011 0.68 -1.0
56,308 - GFF2011 0.68 -0.9
56,308 - GFF2011 0.68 +0.8
56,308 - GFF2011 0.68 -0.8
56,559 + GFF2012 0.11 -0.5
56,559 + GFF2012 0.11 +0.1
56,560 - GFF2012 0.11 -1.2
56,560 - GFF2012 0.11 -0.1
56,560 - GFF2012 0.11 +3.9
56,560 - GFF2012 0.11 -1.1
56,593 - GFF2012 0.16 +0.5
56,593 - GFF2012 0.16 -2.6

Or see this region's nucleotide sequence