Strain Fitness in Variovorax sp. SCN45 around GFF6500

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 ntGFF6498 and GFF6499 are separated by 5 nucleotidesGFF6499 and GFF6500 are separated by 122 nucleotidesGFF6500 and GFF6501 are separated by 52 nucleotides GFF6498 - FIG00348192: hypothetical protein, at 74,771 to 76,363 GFF6498 GFF6499 - hypothetical protein, at 76,369 to 76,848 GFF6499 GFF6500 - 2-hydroxychromene-2-carboxylate isomerase/DsbA-like thioredoxin domain, at 76,971 to 77,657 GFF6500 GFF6501 - Uncharacterized MFS-type transporter, at 77,710 to 79,119 GFF6501 Position (kb) 76 77 78Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 76.748 kb on + strand, within GFF6499at 76.749 kb on - strand, within GFF6499at 76.767 kb on - strand, within GFF6499at 76.832 kb on - strandat 76.956 kb on + strandat 76.967 kb on + strandat 76.967 kb on + strandat 76.967 kb on + strandat 76.967 kb on + strandat 76.968 kb on - strandat 77.113 kb on + strand, within GFF6500at 77.113 kb on + strand, within GFF6500at 77.113 kb on + strand, within GFF6500at 77.113 kb on + strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.114 kb on - strand, within GFF6500at 77.254 kb on + strand, within GFF6500at 77.254 kb on + strand, within GFF6500at 77.255 kb on - strand, within GFF6500at 77.347 kb on + strand, within GFF6500at 77.347 kb on + strand, within GFF6500at 77.347 kb on + strand, within GFF6500at 77.347 kb on + strand, within GFF6500at 77.450 kb on - strand, within GFF6500at 77.450 kb on - strand, within GFF6500at 77.768 kb on + strandat 77.769 kb on - strandat 77.769 kb on - strandat 77.769 kb on - strandat 78.056 kb on + strand, within GFF6501at 78.066 kb on - strand, within GFF6501at 78.131 kb on + strand, within GFF6501at 78.131 kb on + strand, within GFF6501at 78.132 kb on - strand, within GFF6501at 78.132 kb on - strand, within GFF6501at 78.137 kb on + strand, within GFF6501at 78.137 kb on + strand, within GFF6501at 78.138 kb on - strand, within GFF6501at 78.138 kb on - strand, within GFF6501at 78.138 kb on - strand, within GFF6501at 78.272 kb on + strand, within GFF6501at 78.272 kb on + strand, within GFF6501at 78.272 kb on + strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.273 kb on - strand, within GFF6501at 78.317 kb on + strand, within GFF6501at 78.318 kb on - strand, within GFF6501at 78.318 kb on - strand, within GFF6501at 78.497 kb on + strand, within GFF6501at 78.497 kb on + strand, within GFF6501at 78.498 kb on - strand, within GFF6501at 78.498 kb on - strand, within GFF6501at 78.498 kb on - strand, within GFF6501at 78.498 kb on - strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.575 kb on + strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501at 78.576 kb on - strand, within GFF6501

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
remove
76,748 + GFF6499 0.79 +0.4
76,749 - GFF6499 0.79 -2.8
76,767 - GFF6499 0.83 -1.7
76,832 - -1.1
76,956 + +0.4
76,967 + -2.3
76,967 + -1.0
76,967 + -0.5
76,967 + -1.3
76,968 - +2.1
77,113 + GFF6500 0.21 +0.4
77,113 + GFF6500 0.21 +1.4
77,113 + GFF6500 0.21 -3.2
77,113 + GFF6500 0.21 -1.9
77,114 - GFF6500 0.21 -0.0
77,114 - GFF6500 0.21 +0.5
77,114 - GFF6500 0.21 -0.1
77,114 - GFF6500 0.21 -2.0
77,114 - GFF6500 0.21 -1.7
77,114 - GFF6500 0.21 -1.7
77,114 - GFF6500 0.21 +0.4
77,114 - GFF6500 0.21 -0.3
77,254 + GFF6500 0.41 -0.2
77,254 + GFF6500 0.41 +2.0
77,255 - GFF6500 0.41 +0.4
77,347 + GFF6500 0.55 -2.4
77,347 + GFF6500 0.55 -1.6
77,347 + GFF6500 0.55 +0.3
77,347 + GFF6500 0.55 -1.5
77,450 - GFF6500 0.70 -1.5
77,450 - GFF6500 0.70 -0.3
77,768 + +1.4
77,769 - -1.6
77,769 - -1.0
77,769 - +0.2
78,056 + GFF6501 0.25 -1.7
78,066 - GFF6501 0.25 +1.1
78,131 + GFF6501 0.30 +0.5
78,131 + GFF6501 0.30 -1.3
78,132 - GFF6501 0.30 -1.1
78,132 - GFF6501 0.30 -3.4
78,137 + GFF6501 0.30 +1.0
78,137 + GFF6501 0.30 -0.0
78,138 - GFF6501 0.30 -1.2
78,138 - GFF6501 0.30 -1.5
78,138 - GFF6501 0.30 -0.5
78,272 + GFF6501 0.40 +1.0
78,272 + GFF6501 0.40 +0.5
78,272 + GFF6501 0.40 -0.3
78,273 - GFF6501 0.40 -1.7
78,273 - GFF6501 0.40 -2.0
78,273 - GFF6501 0.40 +0.6
78,273 - GFF6501 0.40 -0.7
78,273 - GFF6501 0.40 -2.2
78,273 - GFF6501 0.40 -3.5
78,273 - GFF6501 0.40 -0.0
78,273 - GFF6501 0.40 +0.9
78,317 + GFF6501 0.43 -0.5
78,318 - GFF6501 0.43 -2.9
78,318 - GFF6501 0.43 -2.6
78,497 + GFF6501 0.56 -2.1
78,497 + GFF6501 0.56 -1.7
78,498 - GFF6501 0.56 +0.9
78,498 - GFF6501 0.56 -0.1
78,498 - GFF6501 0.56 -1.2
78,498 - GFF6501 0.56 -2.7
78,575 + GFF6501 0.61 -0.1
78,575 + GFF6501 0.61 +0.4
78,575 + GFF6501 0.61 -1.0
78,575 + GFF6501 0.61 -0.2
78,575 + GFF6501 0.61 +0.2
78,575 + GFF6501 0.61 -0.0
78,575 + GFF6501 0.61 -1.9
78,575 + GFF6501 0.61 +0.7
78,575 + GFF6501 0.61 +3.7
78,575 + GFF6501 0.61 -1.7
78,575 + GFF6501 0.61 -0.8
78,575 + GFF6501 0.61 +0.2
78,575 + GFF6501 0.61 +1.0
78,576 - GFF6501 0.61 -2.9
78,576 - GFF6501 0.61 +0.3
78,576 - GFF6501 0.61 -1.0
78,576 - GFF6501 0.61 -0.8
78,576 - GFF6501 0.61 +0.0
78,576 - GFF6501 0.61 -1.2
78,576 - GFF6501 0.61 -1.0

Or see this region's nucleotide sequence