Strain Fitness in Variovorax sp. SCN45 around GFF3118

Experiment: M9 with calcium pantothenate 10 mg/mL

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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 ntGFF3116 and GFF3117 are separated by 5 nucleotidesGFF3117 and GFF3118 overlap by 14 nucleotidesGFF3118 and GFF3119 are separated by 26 nucleotides GFF3116 - Peptide chain release factor 2 @ programmed frameshift-containing, at 542,902 to 543,804 GFF3116 GFF3117 - Beta-phosphoglucomutase (EC 5.4.2.6), at 543,810 to 544,508 GFF3117 GFF3118 - Membrane alanine aminopeptidase N (EC 3.4.11.2), at 544,495 to 547,188 GFF3118 GFF3119 - Fructose-1,6-bisphosphatase, type I (EC 3.1.3.11), at 547,215 to 548,225 GFF3119 Position (kb) 544 545 546 547 548Strain fitness (log2 ratio) -2 -1 0 1at 543.802 kb on + strandat 544.068 kb on + strand, within GFF3117at 544.068 kb on + strand, within GFF3117at 544.068 kb on + strand, within GFF3117at 544.068 kb on + strand, within GFF3117at 544.068 kb on + strand, within GFF3117at 544.068 kb on + strand, within GFF3117at 544.069 kb on - strand, within GFF3117at 544.069 kb on - strand, within GFF3117at 544.069 kb on - strand, within GFF3117at 544.069 kb on - strand, within GFF3117at 544.069 kb on - strand, within GFF3117at 544.102 kb on + strand, within GFF3117at 544.103 kb on - strand, within GFF3117at 544.455 kb on + strandat 544.546 kb on + strandat 544.547 kb on - strandat 544.562 kb on - strandat 544.897 kb on + strand, within GFF3118at 544.898 kb on - strand, within GFF3118at 544.930 kb on + strand, within GFF3118at 544.930 kb on + strand, within GFF3118at 545.062 kb on + strand, within GFF3118at 545.062 kb on + strand, within GFF3118at 545.063 kb on - strand, within GFF3118at 545.149 kb on + strand, within GFF3118at 545.149 kb on + strand, within GFF3118at 545.150 kb on - strand, within GFF3118at 545.150 kb on - strand, within GFF3118at 545.332 kb on + strand, within GFF3118at 545.332 kb on + strand, within GFF3118at 545.332 kb on + strand, within GFF3118at 545.332 kb on + strand, within GFF3118at 545.332 kb on + strand, within GFF3118at 545.333 kb on - strand, within GFF3118at 545.333 kb on - strand, within GFF3118at 545.333 kb on - strand, within GFF3118at 545.371 kb on + strand, within GFF3118at 545.404 kb on + strand, within GFF3118at 545.404 kb on + strand, within GFF3118at 545.404 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.626 kb on + strand, within GFF3118at 545.627 kb on - strand, within GFF3118at 545.627 kb on - strand, within GFF3118at 545.627 kb on - strand, within GFF3118at 545.647 kb on + strand, within GFF3118at 545.647 kb on + strand, within GFF3118at 545.647 kb on + strand, within GFF3118at 545.662 kb on + strand, within GFF3118at 545.662 kb on + strand, within GFF3118at 545.855 kb on - strand, within GFF3118at 545.855 kb on - strand, within GFF3118at 545.896 kb on + strand, within GFF3118at 545.897 kb on - strand, within GFF3118at 545.917 kb on + strand, within GFF3118at 545.917 kb on + strand, within GFF3118at 545.917 kb on + strand, within GFF3118at 545.917 kb on + strand, within GFF3118at 545.918 kb on - strand, within GFF3118at 546.143 kb on + strand, within GFF3118at 546.144 kb on - strand, within GFF3118at 546.184 kb on + strand, within GFF3118at 546.331 kb on + strand, within GFF3118at 546.331 kb on + strand, within GFF3118at 546.332 kb on - strand, within GFF3118at 546.332 kb on - strand, within GFF3118at 546.332 kb on - strand, within GFF3118at 546.418 kb on + strand, within GFF3118at 546.418 kb on + strand, within GFF3118at 546.419 kb on - strand, within GFF3118at 546.553 kb on + strand, within GFF3118at 546.934 kb on + strandat 546.934 kb on + strandat 546.934 kb on + strandat 546.982 kb on + strandat 546.982 kb on + strandat 546.982 kb on + strandat 546.982 kb on + strandat 546.982 kb on + strandat 546.983 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
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543,802 + -0.2
544,068 + GFF3117 0.37 -0.9
544,068 + GFF3117 0.37 -0.3
544,068 + GFF3117 0.37 +0.1
544,068 + GFF3117 0.37 -0.8
544,068 + GFF3117 0.37 -0.6
544,068 + GFF3117 0.37 +0.1
544,069 - GFF3117 0.37 -1.3
544,069 - GFF3117 0.37 -0.7
544,069 - GFF3117 0.37 -0.4
544,069 - GFF3117 0.37 -0.8
544,069 - GFF3117 0.37 +0.3
544,102 + GFF3117 0.42 +1.7
544,103 - GFF3117 0.42 -1.7
544,455 + -1.3
544,546 + -0.4
544,547 - +0.1
544,562 - -0.3
544,897 + GFF3118 0.15 -1.3
544,898 - GFF3118 0.15 +1.1
544,930 + GFF3118 0.16 -0.3
544,930 + GFF3118 0.16 -0.7
545,062 + GFF3118 0.21 -0.5
545,062 + GFF3118 0.21 -2.4
545,063 - GFF3118 0.21 +0.3
545,149 + GFF3118 0.24 -1.4
545,149 + GFF3118 0.24 -0.8
545,150 - GFF3118 0.24 +0.7
545,150 - GFF3118 0.24 +0.1
545,332 + GFF3118 0.31 +0.0
545,332 + GFF3118 0.31 +0.4
545,332 + GFF3118 0.31 -0.2
545,332 + GFF3118 0.31 -0.2
545,332 + GFF3118 0.31 +1.2
545,333 - GFF3118 0.31 -0.9
545,333 - GFF3118 0.31 +0.3
545,333 - GFF3118 0.31 -0.8
545,371 + GFF3118 0.33 -0.8
545,404 + GFF3118 0.34 +0.1
545,404 + GFF3118 0.34 +0.7
545,404 + GFF3118 0.34 -1.3
545,626 + GFF3118 0.42 -0.0
545,626 + GFF3118 0.42 +0.1
545,626 + GFF3118 0.42 +0.1
545,626 + GFF3118 0.42 -1.0
545,626 + GFF3118 0.42 +0.5
545,626 + GFF3118 0.42 -1.1
545,626 + GFF3118 0.42 -0.6
545,626 + GFF3118 0.42 +0.9
545,627 - GFF3118 0.42 -0.6
545,627 - GFF3118 0.42 +0.9
545,627 - GFF3118 0.42 -0.9
545,647 + GFF3118 0.43 -1.8
545,647 + GFF3118 0.43 -1.1
545,647 + GFF3118 0.43 +0.4
545,662 + GFF3118 0.43 -0.9
545,662 + GFF3118 0.43 -0.8
545,855 - GFF3118 0.50 -1.4
545,855 - GFF3118 0.50 -0.8
545,896 + GFF3118 0.52 +0.1
545,897 - GFF3118 0.52 +0.1
545,917 + GFF3118 0.53 +1.1
545,917 + GFF3118 0.53 -1.8
545,917 + GFF3118 0.53 +0.2
545,917 + GFF3118 0.53 -0.2
545,918 - GFF3118 0.53 -0.3
546,143 + GFF3118 0.61 -0.5
546,144 - GFF3118 0.61 -0.7
546,184 + GFF3118 0.63 -0.1
546,331 + GFF3118 0.68 -0.6
546,331 + GFF3118 0.68 -0.0
546,332 - GFF3118 0.68 -0.7
546,332 - GFF3118 0.68 -0.2
546,332 - GFF3118 0.68 +1.2
546,418 + GFF3118 0.71 -0.3
546,418 + GFF3118 0.71 -0.6
546,419 - GFF3118 0.71 -0.3
546,553 + GFF3118 0.76 +0.7
546,934 + -0.6
546,934 + -0.3
546,934 + +0.3
546,982 + -0.4
546,982 + -0.2
546,982 + -1.0
546,982 + -1.2
546,982 + -0.5
546,983 - +0.7

Or see this region's nucleotide sequence