Strain Fitness in Variovorax sp. SCN45 around GFF498

Experiment: Community=Locust bean gum; 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 ntGFF496 and GFF497 overlap by 4 nucleotidesGFF497 and GFF498 are separated by 127 nucleotidesGFF498 and GFF499 overlap by 4 nucleotidesGFF499 and GFF500 are separated by 16 nucleotides GFF496 - Squalene synthase (EC 2.5.1.21), at 540,244 to 541,158 GFF496 GFF497 - Phytoene synthase (EC 2.5.1.32), at 541,155 to 541,994 GFF497 GFF498 - Squalene/phytoene desaturase HopC, at 542,122 to 543,378 GFF498 GFF499 - hypothetical protein, at 543,375 to 543,683 GFF499 GFF500 - Lysine exporter protein (LYSE/YGGA), at 543,700 to 544,344 GFF500 Position (kb) 542 543 544Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.170 kb on + strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.171 kb on - strandat 541.210 kb on - strandat 541.212 kb on + strandat 541.212 kb on + strandat 541.212 kb on + strandat 541.212 kb on + strandat 541.213 kb on - strandat 541.213 kb on - strandat 541.213 kb on - strandat 541.263 kb on + strand, within GFF497at 541.264 kb on - strand, within GFF497at 541.264 kb on - strand, within GFF497at 541.264 kb on - strand, within GFF497at 541.422 kb on + strand, within GFF497at 541.423 kb on - strand, within GFF497at 541.492 kb on - strand, within GFF497at 541.492 kb on - strand, within GFF497at 541.492 kb on - strand, within GFF497at 541.492 kb on - strand, within GFF497at 541.597 kb on - strand, within GFF497at 541.677 kb on + strand, within GFF497at 541.677 kb on + strand, within GFF497at 541.677 kb on + strand, within GFF497at 541.677 kb on + strand, within GFF497at 541.677 kb on + strand, within GFF497at 541.677 kb on - strand, within GFF497at 541.678 kb on - strand, within GFF497at 541.678 kb on - strand, within GFF497at 541.678 kb on - strand, within GFF497at 541.678 kb on - strand, within GFF497at 541.797 kb on + strand, within GFF497at 541.797 kb on + strand, within GFF497at 541.872 kb on + strand, within GFF497at 541.872 kb on + strand, within GFF497at 541.872 kb on + strand, within GFF497at 541.872 kb on + strand, within GFF497at 541.872 kb on + strand, within GFF497at 541.873 kb on - strand, within GFF497at 541.873 kb on - strand, within GFF497at 541.991 kb on - strandat 541.991 kb on - strandat 541.991 kb on - strandat 541.991 kb on - strandat 541.991 kb on - strandat 542.302 kb on + strand, within GFF498at 542.302 kb on + strand, within GFF498at 542.302 kb on + strand, within GFF498at 542.302 kb on + strand, within GFF498at 542.303 kb on - strand, within GFF498at 542.303 kb on - strand, within GFF498at 542.980 kb on + strand, within GFF498at 542.980 kb on + strand, within GFF498at 542.980 kb on + strand, within GFF498at 542.980 kb on + strand, within GFF498at 542.980 kb on + strand, within GFF498at 542.981 kb on - strand, within GFF498at 542.981 kb on - strand, within GFF498at 542.981 kb on - strand, within GFF498at 542.981 kb on - strand, within GFF498at 543.095 kb on + strand, within GFF498at 543.298 kb on + strandat 543.393 kb on + strandat 543.394 kb on - strandat 543.394 kb on - strandat 543.409 kb on - strand, within GFF499at 543.409 kb on - strand, within GFF499at 543.481 kb on + strand, within GFF499at 543.482 kb on - strand, within GFF499at 543.482 kb on - strand, within GFF499at 543.482 kb on - strand, within GFF499at 543.482 kb on - strand, within GFF499at 543.570 kb on + strand, within GFF499at 543.570 kb on + strand, within GFF499at 543.570 kb on + strand, within GFF499at 543.571 kb on - strand, within GFF499at 543.571 kb on - strand, within GFF499at 543.571 kb on - strand, within GFF499at 543.571 kb on - strand, within GFF499at 543.836 kb on + strand, within GFF500at 543.836 kb on + strand, within GFF500at 543.836 kb on + strand, within GFF500at 543.836 kb on + strand, within GFF500at 543.837 kb on - strand, within GFF500at 543.837 kb on - strand, within GFF500at 543.837 kb on - strand, within GFF500at 543.837 kb on - strand, within GFF500at 543.837 kb on - strand, within GFF500at 544.091 kb on + strand, within GFF500at 544.091 kb on + strand, within GFF500at 544.091 kb on + strand, within GFF500at 544.091 kb on + strand, within GFF500at 544.092 kb on - strand, within GFF500at 544.092 kb on - strand, within GFF500at 544.092 kb on - strand, within GFF500at 544.092 kb on - strand, within GFF500at 544.092 kb on - strand, within GFF500at 544.100 kb on + strand, within GFF500at 544.101 kb on - strand, within GFF500at 544.101 kb on - strand, within GFF500at 544.101 kb on - strand, within GFF500

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
remove
541,170 + -1.9
541,170 + -0.2
541,170 + -2.6
541,170 + -0.2
541,170 + -0.6
541,170 + -0.9
541,170 + -3.0
541,170 + +0.2
541,171 - -1.4
541,171 - -1.4
541,171 - -1.6
541,171 - +0.2
541,171 - +0.8
541,171 - +0.2
541,171 - -2.2
541,171 - -1.7
541,171 - -1.2
541,171 - -2.6
541,171 - -1.0
541,171 - -2.8
541,171 - +0.3
541,171 - -1.8
541,171 - -1.7
541,210 - +0.8
541,212 + -0.0
541,212 + -1.7
541,212 + -0.6
541,212 + -1.0
541,213 - +0.8
541,213 - -1.4
541,213 - -0.2
541,263 + GFF497 0.13 +0.8
541,264 - GFF497 0.13 -2.1
541,264 - GFF497 0.13 +0.8
541,264 - GFF497 0.13 +0.8
541,422 + GFF497 0.32 -0.2
541,423 - GFF497 0.32 -1.8
541,492 - GFF497 0.40 -1.0
541,492 - GFF497 0.40 -1.4
541,492 - GFF497 0.40 -0.2
541,492 - GFF497 0.40 -0.8
541,597 - GFF497 0.53 -1.5
541,677 + GFF497 0.62 -1.0
541,677 + GFF497 0.62 +0.9
541,677 + GFF497 0.62 -2.8
541,677 + GFF497 0.62 -0.8
541,677 + GFF497 0.62 -3.2
541,677 - GFF497 0.62 -1.7
541,678 - GFF497 0.62 +0.2
541,678 - GFF497 0.62 +0.8
541,678 - GFF497 0.62 -1.7
541,678 - GFF497 0.62 -1.7
541,797 + GFF497 0.76 -2.1
541,797 + GFF497 0.76 -1.2
541,872 + GFF497 0.85 -1.8
541,872 + GFF497 0.85 +0.2
541,872 + GFF497 0.85 -1.8
541,872 + GFF497 0.85 -0.6
541,872 + GFF497 0.85 -0.2
541,873 - GFF497 0.85 -0.8
541,873 - GFF497 0.85 -0.8
541,991 - -0.2
541,991 - -1.6
541,991 - -0.1
541,991 - -2.5
541,991 - -1.4
542,302 + GFF498 0.14 +0.1
542,302 + GFF498 0.14 +0.2
542,302 + GFF498 0.14 +0.2
542,302 + GFF498 0.14 -0.7
542,303 - GFF498 0.14 +0.2
542,303 - GFF498 0.14 +1.2
542,980 + GFF498 0.68 -0.2
542,980 + GFF498 0.68 -1.3
542,980 + GFF498 0.68 +0.4
542,980 + GFF498 0.68 +1.0
542,980 + GFF498 0.68 -1.0
542,981 - GFF498 0.68 -0.8
542,981 - GFF498 0.68 +0.7
542,981 - GFF498 0.68 +0.6
542,981 - GFF498 0.68 -1.9
543,095 + GFF498 0.77 +1.1
543,298 + -0.1
543,393 + +1.3
543,394 - +0.8
543,394 - +1.6
543,409 - GFF499 0.11 -1.7
543,409 - GFF499 0.11 +0.2
543,481 + GFF499 0.34 +0.8
543,482 - GFF499 0.35 +4.1
543,482 - GFF499 0.35 +0.0
543,482 - GFF499 0.35 -0.9
543,482 - GFF499 0.35 +0.2
543,570 + GFF499 0.63 +1.2
543,570 + GFF499 0.63 -2.1
543,570 + GFF499 0.63 +0.3
543,571 - GFF499 0.63 -0.9
543,571 - GFF499 0.63 -1.6
543,571 - GFF499 0.63 -0.7
543,571 - GFF499 0.63 -1.4
543,836 + GFF500 0.21 -0.3
543,836 + GFF500 0.21 +0.5
543,836 + GFF500 0.21 -2.1
543,836 + GFF500 0.21 -1.0
543,837 - GFF500 0.21 +0.6
543,837 - GFF500 0.21 -0.5
543,837 - GFF500 0.21 -0.8
543,837 - GFF500 0.21 +0.2
543,837 - GFF500 0.21 +0.1
544,091 + GFF500 0.61 +0.2
544,091 + GFF500 0.61 -0.4
544,091 + GFF500 0.61 -1.2
544,091 + GFF500 0.61 -1.4
544,092 - GFF500 0.61 +1.3
544,092 - GFF500 0.61 -1.0
544,092 - GFF500 0.61 -2.4
544,092 - GFF500 0.61 +0.4
544,092 - GFF500 0.61 -1.5
544,100 + GFF500 0.62 +0.3
544,101 - GFF500 0.62 +0.3
544,101 - GFF500 0.62 +0.2
544,101 - GFF500 0.62 +1.1

Or see this region's nucleotide sequence