Strain Fitness in Variovorax sp. SCN45 around GFF4557

Experiment: Community=arabino-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 ntGFF4555 and GFF4556 overlap by 4 nucleotidesGFF4556 and GFF4557 overlap by 4 nucleotidesGFF4557 and GFF4558 overlap by 4 nucleotidesGFF4558 and GFF4559 are separated by 3 nucleotidesGFF4559 and GFF4560 are separated by 97 nucleotides GFF4555 - Putative transmembrane protein, at 192,074 to 192,829 GFF4555 GFF4556 - hypothetical protein, at 192,826 to 193,626 GFF4556 GFF4557 - Dihydroorotase (EC 3.5.2.3), at 193,623 to 194,654 GFF4557 GFF4558 - RNA polymerase ECF-type sigma factor, at 194,651 to 195,193 GFF4558 GFF4559 - Uncharacterized membrane protein Rmet_3714, at 195,197 to 195,406 GFF4559 GFF4560 - hypothetical protein, at 195,504 to 196,235 GFF4560 Position (kb) 193 194 195Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 192.651 kb on + strand, within GFF4555at 192.652 kb on - strand, within GFF4555at 192.652 kb on - strand, within GFF4555at 192.652 kb on - strand, within GFF4555at 192.695 kb on + strand, within GFF4555at 192.695 kb on + strand, within GFF4555at 192.696 kb on - strand, within GFF4555at 192.696 kb on - strand, within GFF4555at 192.696 kb on - strand, within GFF4555at 192.696 kb on - strand, within GFF4555at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.232 kb on + strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.233 kb on - strand, within GFF4556at 193.505 kb on + strand, within GFF4556at 193.505 kb on + strand, within GFF4556at 193.505 kb on + strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.506 kb on - strand, within GFF4556at 193.532 kb on + strand, within GFF4556at 193.533 kb on - strand, within GFF4556at 193.756 kb on + strand, within GFF4557at 193.756 kb on + strand, within GFF4557at 193.756 kb on + strand, within GFF4557at 193.756 kb on + strand, within GFF4557at 193.757 kb on - strand, within GFF4557at 193.757 kb on - strand, within GFF4557at 193.858 kb on + strand, within GFF4557at 194.005 kb on + strand, within GFF4557at 194.005 kb on + strand, within GFF4557at 194.005 kb on + strand, within GFF4557at 194.006 kb on - strand, within GFF4557at 194.006 kb on - strand, within GFF4557at 194.006 kb on - strand, within GFF4557at 194.006 kb on - strand, within GFF4557at 194.008 kb on + strand, within GFF4557at 194.008 kb on + strand, within GFF4557at 194.009 kb on - strand, within GFF4557at 194.009 kb on - strand, within GFF4557at 194.009 kb on - strand, within GFF4557at 194.009 kb on - strand, within GFF4557at 194.050 kb on + strand, within GFF4557at 194.050 kb on + strand, within GFF4557at 194.050 kb on + strand, within GFF4557at 194.050 kb on + strand, within GFF4557at 194.051 kb on - strand, within GFF4557at 194.051 kb on - strand, within GFF4557at 194.051 kb on - strand, within GFF4557at 194.107 kb on + strand, within GFF4557at 194.107 kb on + strand, within GFF4557at 194.107 kb on + strand, within GFF4557at 194.108 kb on - strand, within GFF4557at 194.296 kb on + strand, within GFF4557at 194.296 kb on + strand, within GFF4557at 194.296 kb on + strand, within GFF4557at 194.296 kb on + strand, within GFF4557at 194.296 kb on + strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.297 kb on - strand, within GFF4557at 194.353 kb on + strand, within GFF4557at 194.688 kb on + strandat 194.689 kb on - strandat 194.814 kb on + strand, within GFF4558at 194.814 kb on + strand, within GFF4558at 194.815 kb on - strand, within GFF4558at 194.815 kb on - strand, within GFF4558at 194.815 kb on - strand, within GFF4558at 194.815 kb on - strand, within GFF4558at 194.815 kb on - strand, within GFF4558at 195.030 kb on + strand, within GFF4558at 195.088 kb on - strand, within GFF4558at 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.399 kb on + strandat 195.400 kb on - strandat 195.400 kb on - strandat 195.400 kb on - strandat 195.400 kb on - strandat 195.505 kb on + strandat 195.505 kb on + strandat 195.505 kb on + strandat 195.505 kb on + strandat 195.505 kb on + strandat 195.506 kb on - strandat 195.506 kb on - strandat 195.506 kb on - strandat 195.506 kb on - strandat 195.506 kb on - strandat 195.506 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=arabino-guar; Passage=4
remove
192,651 + GFF4555 0.76 -2.0
192,652 - GFF4555 0.76 -0.0
192,652 - GFF4555 0.76 -0.2
192,652 - GFF4555 0.76 +2.2
192,695 + GFF4555 0.82 +0.2
192,695 + GFF4555 0.82 -0.8
192,696 - GFF4555 0.82 -2.4
192,696 - GFF4555 0.82 +0.9
192,696 - GFF4555 0.82 +0.4
192,696 - GFF4555 0.82 -1.1
193,232 + GFF4556 0.51 -0.9
193,232 + GFF4556 0.51 +2.2
193,232 + GFF4556 0.51 -0.4
193,232 + GFF4556 0.51 +0.3
193,232 + GFF4556 0.51 +0.1
193,232 + GFF4556 0.51 +1.2
193,232 + GFF4556 0.51 -1.1
193,233 - GFF4556 0.51 -0.2
193,233 - GFF4556 0.51 +0.1
193,233 - GFF4556 0.51 +1.9
193,233 - GFF4556 0.51 -1.4
193,233 - GFF4556 0.51 +0.3
193,233 - GFF4556 0.51 -0.9
193,233 - GFF4556 0.51 -0.8
193,233 - GFF4556 0.51 +0.5
193,233 - GFF4556 0.51 +1.0
193,505 + GFF4556 0.85 -3.9
193,505 + GFF4556 0.85 +0.9
193,505 + GFF4556 0.85 +1.1
193,506 - GFF4556 0.85 +1.3
193,506 - GFF4556 0.85 -1.8
193,506 - GFF4556 0.85 +0.1
193,506 - GFF4556 0.85 -2.7
193,506 - GFF4556 0.85 +0.2
193,506 - GFF4556 0.85 -2.3
193,532 + GFF4556 0.88 -0.9
193,533 - GFF4556 0.88 -1.6
193,756 + GFF4557 0.13 -2.5
193,756 + GFF4557 0.13 -0.7
193,756 + GFF4557 0.13 -0.9
193,756 + GFF4557 0.13 +0.9
193,757 - GFF4557 0.13 -2.5
193,757 - GFF4557 0.13 -2.5
193,858 + GFF4557 0.23 -1.1
194,005 + GFF4557 0.37 -1.7
194,005 + GFF4557 0.37 -0.9
194,005 + GFF4557 0.37 -3.0
194,006 - GFF4557 0.37 -1.6
194,006 - GFF4557 0.37 -2.5
194,006 - GFF4557 0.37 -1.3
194,006 - GFF4557 0.37 -1.5
194,008 + GFF4557 0.37 -2.7
194,008 + GFF4557 0.37 -2.5
194,009 - GFF4557 0.37 -0.7
194,009 - GFF4557 0.37 -1.9
194,009 - GFF4557 0.37 -2.5
194,009 - GFF4557 0.37 -1.8
194,050 + GFF4557 0.41 -1.3
194,050 + GFF4557 0.41 -1.7
194,050 + GFF4557 0.41 -1.7
194,050 + GFF4557 0.41 -1.8
194,051 - GFF4557 0.41 -3.1
194,051 - GFF4557 0.41 -1.9
194,051 - GFF4557 0.41 -4.9
194,107 + GFF4557 0.47 -2.6
194,107 + GFF4557 0.47 -2.7
194,107 + GFF4557 0.47 -2.3
194,108 - GFF4557 0.47 -2.0
194,296 + GFF4557 0.65 -1.8
194,296 + GFF4557 0.65 -0.9
194,296 + GFF4557 0.65 -3.1
194,296 + GFF4557 0.65 -2.9
194,296 + GFF4557 0.65 -0.9
194,297 - GFF4557 0.65 -2.1
194,297 - GFF4557 0.65 -1.9
194,297 - GFF4557 0.65 -2.5
194,297 - GFF4557 0.65 -2.8
194,297 - GFF4557 0.65 -2.8
194,297 - GFF4557 0.65 -2.3
194,297 - GFF4557 0.65 -1.5
194,297 - GFF4557 0.65 -1.9
194,353 + GFF4557 0.71 -3.5
194,688 + -0.4
194,689 - +2.9
194,814 + GFF4558 0.30 +1.1
194,814 + GFF4558 0.30 -1.6
194,815 - GFF4558 0.30 -0.7
194,815 - GFF4558 0.30 +0.8
194,815 - GFF4558 0.30 -0.9
194,815 - GFF4558 0.30 +0.7
194,815 - GFF4558 0.30 -0.9
195,030 + GFF4558 0.70 +1.3
195,088 - GFF4558 0.80 +0.9
195,399 + -0.0
195,399 + +0.6
195,399 + -1.6
195,399 + -2.1
195,399 + -1.5
195,399 + +0.3
195,399 + +0.2
195,399 + -0.4
195,399 + +0.0
195,399 + -3.4
195,399 + +1.6
195,399 + -1.6
195,399 + -2.0
195,399 + +1.1
195,399 + +0.4
195,400 - +1.8
195,400 - -2.0
195,400 - -2.3
195,400 - +0.1
195,505 + -2.8
195,505 + +1.2
195,505 + +2.4
195,505 + -0.3
195,505 + -3.1
195,506 - -0.9
195,506 - +0.8
195,506 - +0.2
195,506 - -0.6
195,506 - -1.1
195,506 - +0.2

Or see this region's nucleotide sequence