Strain Fitness in Variovorax sp. SCN45 around GFF154

Experiment: Community=Locust bean gum; Passage=4

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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 ntGFF152 and GFF153 overlap by 4 nucleotidesGFF153 and GFF154 overlap by 4 nucleotidesGFF154 and GFF155 are separated by 33 nucleotides GFF152 - ABC transporter, permease protein 1 (cluster 5, nickel/peptides/opines), at 179,734 to 180,678 GFF152 GFF153 - ABC transporter, permease protein 2 (cluster 5, nickel/peptides/opines), at 180,675 to 181,511 GFF153 GFF154 - ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) / ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines), at 181,508 to 183,178 GFF154 GFF155 - ABC transporter, substrate-binding protein (cluster 5, nickel/peptides/opines), at 183,212 to 184,783 GFF155 Position (kb) 181 182 183 184Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 180.578 kb on + strand, within GFF152at 180.578 kb on + strand, within GFF152at 180.578 kb on + strand, within GFF152at 180.579 kb on - strand, within GFF152at 180.579 kb on - strand, within GFF152at 180.579 kb on - strand, within GFF152at 180.579 kb on - strand, within GFF152at 180.610 kb on + strandat 180.610 kb on + strandat 180.610 kb on + strandat 180.610 kb on + strandat 180.610 kb on + strandat 180.611 kb on - strandat 180.611 kb on - strandat 180.611 kb on - strandat 180.611 kb on - strandat 180.643 kb on + strandat 181.116 kb on + strand, within GFF153at 181.215 kb on + strand, within GFF153at 181.215 kb on + strand, within GFF153at 181.215 kb on + strand, within GFF153at 181.216 kb on - strand, within GFF153at 181.216 kb on - strand, within GFF153at 181.216 kb on - strand, within GFF153at 181.216 kb on - strand, within GFF153at 181.401 kb on + strand, within GFF153at 181.401 kb on + strand, within GFF153at 181.401 kb on + strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 181.402 kb on - strand, within GFF153at 182.273 kb on + strand, within GFF154at 182.273 kb on + strand, within GFF154at 182.273 kb on + strand, within GFF154at 182.373 kb on - strand, within GFF154at 182.373 kb on - strand, within GFF154at 182.373 kb on - strand, within GFF154at 182.630 kb on + strand, within GFF154at 182.630 kb on + strand, within GFF154at 182.630 kb on + strand, within GFF154at 182.631 kb on - strand, within GFF154at 182.631 kb on - strand, within GFF154at 182.777 kb on + strand, within GFF154at 182.777 kb on + strand, within GFF154at 182.778 kb on - strand, within GFF154at 183.075 kb on - strandat 183.444 kb on + strand, within GFF155at 183.445 kb on - strand, within GFF155at 183.464 kb on + strand, within GFF155at 183.464 kb on + strand, within GFF155at 183.464 kb on + strand, within GFF155at 183.464 kb on + strand, within GFF155at 183.465 kb on - strand, within GFF155at 183.465 kb on - strand, within GFF155at 183.548 kb on + strand, within GFF155at 183.548 kb on + strand, within GFF155at 183.548 kb on + strand, within GFF155at 183.549 kb on - strand, within GFF155at 183.549 kb on - strand, within GFF155at 183.549 kb on - strand, within GFF155at 183.549 kb on - strand, within GFF155at 183.549 kb on - strand, within GFF155at 183.587 kb on + strand, within GFF155at 183.812 kb on + strand, within GFF155at 183.812 kb on + strand, within GFF155at 183.812 kb on + strand, within GFF155at 183.813 kb on - strand, within GFF155at 183.813 kb on - strand, within GFF155at 183.813 kb on - strand, within GFF155at 183.813 kb on - strand, within GFF155at 183.813 kb on - strand, within GFF155at 183.839 kb on + strand, within GFF155at 183.840 kb on - strand, within GFF155at 183.840 kb on - strand, within GFF155at 183.840 kb on - strand, within GFF155at 183.840 kb on - strand, within GFF155at 183.840 kb on - strand, within GFF155at 183.875 kb on + strand, within GFF155at 183.875 kb on + strand, within GFF155at 183.875 kb on + strand, within GFF155at 183.876 kb on - strand, within GFF155at 183.876 kb on - strand, within GFF155

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Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
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180,578 + GFF152 0.89 +1.6
180,578 + GFF152 0.89 +2.3
180,578 + GFF152 0.89 +0.3
180,579 - GFF152 0.89 +0.2
180,579 - GFF152 0.89 -2.0
180,579 - GFF152 0.89 +1.2
180,579 - GFF152 0.89 +1.2
180,610 + +1.5
180,610 + -0.2
180,610 + -1.9
180,610 + -1.5
180,610 + -0.2
180,611 - -1.4
180,611 - -0.9
180,611 - -0.6
180,611 - -1.0
180,643 + -0.3
181,116 + GFF153 0.53 -1.1
181,215 + GFF153 0.65 +1.5
181,215 + GFF153 0.65 +0.6
181,215 + GFF153 0.65 -2.1
181,216 - GFF153 0.65 -0.2
181,216 - GFF153 0.65 +0.5
181,216 - GFF153 0.65 +0.9
181,216 - GFF153 0.65 -1.4
181,401 + GFF153 0.87 -2.9
181,401 + GFF153 0.87 -0.5
181,401 + GFF153 0.87 -0.1
181,402 - GFF153 0.87 -0.2
181,402 - GFF153 0.87 -0.3
181,402 - GFF153 0.87 -0.7
181,402 - GFF153 0.87 +2.4
181,402 - GFF153 0.87 +0.8
181,402 - GFF153 0.87 -0.8
181,402 - GFF153 0.87 -0.2
182,273 + GFF154 0.46 -2.2
182,273 + GFF154 0.46 +0.6
182,273 + GFF154 0.46 -1.9
182,373 - GFF154 0.52 -0.2
182,373 - GFF154 0.52 -1.7
182,373 - GFF154 0.52 +0.8
182,630 + GFF154 0.67 -0.8
182,630 + GFF154 0.67 -3.9
182,630 + GFF154 0.67 -1.4
182,631 - GFF154 0.67 +0.8
182,631 - GFF154 0.67 +0.2
182,777 + GFF154 0.76 -1.5
182,777 + GFF154 0.76 -0.8
182,778 - GFF154 0.76 -0.1
183,075 - +0.5
183,444 + GFF155 0.15 -0.8
183,445 - GFF155 0.15 -2.2
183,464 + GFF155 0.16 -3.0
183,464 + GFF155 0.16 -3.4
183,464 + GFF155 0.16 +1.0
183,464 + GFF155 0.16 -1.5
183,465 - GFF155 0.16 +1.1
183,465 - GFF155 0.16 -1.4
183,548 + GFF155 0.21 -3.7
183,548 + GFF155 0.21 -1.8
183,548 + GFF155 0.21 -1.8
183,549 - GFF155 0.21 +1.1
183,549 - GFF155 0.21 -0.1
183,549 - GFF155 0.21 +0.8
183,549 - GFF155 0.21 +0.6
183,549 - GFF155 0.21 -1.0
183,587 + GFF155 0.24 +2.2
183,812 + GFF155 0.38 -1.0
183,812 + GFF155 0.38 -3.0
183,812 + GFF155 0.38 +0.2
183,813 - GFF155 0.38 -1.9
183,813 - GFF155 0.38 -1.0
183,813 - GFF155 0.38 +1.9
183,813 - GFF155 0.38 -1.2
183,813 - GFF155 0.38 -0.7
183,839 + GFF155 0.40 +1.2
183,840 - GFF155 0.40 -2.6
183,840 - GFF155 0.40 +1.5
183,840 - GFF155 0.40 -1.0
183,840 - GFF155 0.40 -1.8
183,840 - GFF155 0.40 +0.9
183,875 + GFF155 0.42 +0.2
183,875 + GFF155 0.42 +0.7
183,875 + GFF155 0.42 -2.5
183,876 - GFF155 0.42 +0.9
183,876 - GFF155 0.42 -0.8

Or see this region's nucleotide sequence