Strain Fitness in Variovorax sp. SCN45 around GFF2121

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 ntGFF2119 and GFF2120 overlap by 4 nucleotidesGFF2120 and GFF2121 are separated by 25 nucleotidesGFF2121 and GFF2122 are separated by 5 nucleotidesGFF2122 and GFF2123 are separated by 27 nucleotidesGFF2123 and GFF2124 are separated by 36 nucleotides GFF2119 - Type IV fimbrial biogenesis protein PilW, at 168,457 to 169,221 GFF2119 GFF2120 - Type IV fimbrial biogenesis protein PilX, at 169,218 to 169,799 GFF2120 GFF2121 - Type IV fimbrial biogenesis protein PilY1, at 169,825 to 173,256 GFF2121 GFF2122 - Type IV pilus biogenesis protein PilE, at 173,262 to 173,714 GFF2122 GFF2123 - Copper metallochaperone PCu(A)C, inserts Cu(I) into cytochrome oxidase subunit II, at 173,742 to 174,218 GFF2123 GFF2124 - Cytochrome oxidase biogenesis protein Sco1/SenC/PrrC, thiol-disulfide reductase involved in Cu(I) insertion into CoxII Cu(A) center, at 174,255 to 174,872 GFF2124 Position (kb) 169 170 171 172 173 174Strain fitness (log2 ratio) -2 -1 0 1 2at 168.829 kb on + strand, within GFF2119at 168.829 kb on + strand, within GFF2119at 168.915 kb on + strand, within GFF2119at 168.916 kb on - strand, within GFF2119at 168.916 kb on - strand, within GFF2119at 168.916 kb on - strand, within GFF2119at 169.027 kb on + strand, within GFF2119at 169.027 kb on + strand, within GFF2119at 169.027 kb on + strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.028 kb on - strand, within GFF2119at 169.235 kb on + strandat 169.338 kb on + strand, within GFF2120at 169.339 kb on - strand, within GFF2120at 169.339 kb on - strand, within GFF2120at 169.339 kb on - strand, within GFF2120at 169.339 kb on - strand, within GFF2120at 169.507 kb on + strand, within GFF2120at 169.563 kb on + strand, within GFF2120at 169.629 kb on + strand, within GFF2120at 169.630 kb on - strand, within GFF2120at 169.633 kb on - strand, within GFF2120at 169.660 kb on - strand, within GFF2120at 169.758 kb on + strandat 169.759 kb on - strandat 169.942 kb on + strandat 169.942 kb on + strandat 169.943 kb on - strandat 170.029 kb on + strandat 170.029 kb on + strandat 170.029 kb on + strandat 170.030 kb on - strandat 170.033 kb on - strandat 170.033 kb on - strandat 170.033 kb on - strandat 170.126 kb on + strandat 170.198 kb on + strand, within GFF2121at 170.230 kb on + strand, within GFF2121at 170.230 kb on + strand, within GFF2121at 170.283 kb on - strand, within GFF2121at 170.297 kb on - strand, within GFF2121at 170.336 kb on - strand, within GFF2121at 170.363 kb on - strand, within GFF2121at 170.384 kb on - strand, within GFF2121at 170.550 kb on - strand, within GFF2121at 170.614 kb on + strand, within GFF2121at 170.614 kb on + strand, within GFF2121at 170.614 kb on + strand, within GFF2121at 170.614 kb on + strand, within GFF2121at 170.615 kb on - strand, within GFF2121at 170.746 kb on + strand, within GFF2121at 170.746 kb on + strand, within GFF2121at 170.746 kb on + strand, within GFF2121at 170.747 kb on - strand, within GFF2121at 170.747 kb on - strand, within GFF2121at 170.747 kb on - strand, within GFF2121at 170.823 kb on + strand, within GFF2121at 170.824 kb on - strand, within GFF2121at 170.824 kb on - strand, within GFF2121at 170.824 kb on - strand, within GFF2121at 170.831 kb on - strand, within GFF2121at 170.872 kb on + strand, within GFF2121at 170.977 kb on - strand, within GFF2121at 171.100 kb on + strand, within GFF2121at 171.109 kb on + strand, within GFF2121at 171.110 kb on - strand, within GFF2121at 171.527 kb on - strand, within GFF2121at 171.650 kb on - strand, within GFF2121at 171.697 kb on + strand, within GFF2121at 171.697 kb on + strand, within GFF2121at 171.754 kb on + strand, within GFF2121at 171.754 kb on + strand, within GFF2121at 171.755 kb on - strand, within GFF2121at 171.755 kb on - strand, within GFF2121at 171.783 kb on - strand, within GFF2121at 171.838 kb on + strand, within GFF2121at 171.871 kb on + strand, within GFF2121at 171.871 kb on + strand, within GFF2121at 171.872 kb on - strand, within GFF2121at 171.872 kb on - strand, within GFF2121at 171.966 kb on + strand, within GFF2121at 171.977 kb on - strand, within GFF2121at 171.977 kb on - strand, within GFF2121at 171.977 kb on - strand, within GFF2121at 171.977 kb on - strand, within GFF2121at 172.324 kb on + strand, within GFF2121at 172.324 kb on + strand, within GFF2121at 172.324 kb on + strand, within GFF2121at 172.325 kb on - strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.366 kb on + strand, within GFF2121at 172.367 kb on - strand, within GFF2121at 172.367 kb on - strand, within GFF2121at 172.367 kb on - strand, within GFF2121at 172.373 kb on - strand, within GFF2121at 172.603 kb on + strand, within GFF2121at 172.603 kb on + strand, within GFF2121at 172.604 kb on - strand, within GFF2121at 172.604 kb on - strand, within GFF2121at 172.604 kb on - strand, within GFF2121at 172.604 kb on - strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.627 kb on + strand, within GFF2121at 172.628 kb on - strand, within GFF2121at 172.628 kb on - strand, within GFF2121at 172.628 kb on - strand, within GFF2121at 172.628 kb on - strand, within GFF2121at 172.687 kb on + strand, within GFF2121at 172.688 kb on - strand, within GFF2121at 172.688 kb on - strand, within GFF2121at 172.688 kb on - strand, within GFF2121at 172.900 kb on + strand, within GFF2121at 172.900 kb on + strand, within GFF2121at 172.900 kb on + strand, within GFF2121at 172.900 kb on + strand, within GFF2121at 172.900 kb on + strand, within GFF2121at 172.901 kb on - strand, within GFF2121at 172.901 kb on - strand, within GFF2121at 172.901 kb on - strand, within GFF2121at 173.064 kb on + strandat 173.077 kb on + strandat 173.077 kb on + strandat 173.077 kb on + strandat 173.078 kb on - strandat 173.156 kb on - strandat 173.289 kb on - strandat 173.289 kb on - strandat 173.289 kb on - strandat 173.383 kb on - strand, within GFF2122at 173.383 kb on - strand, within GFF2122at 173.383 kb on - strand, within GFF2122at 173.460 kb on + strand, within GFF2122at 173.461 kb on - strand, within GFF2122at 173.474 kb on + strand, within GFF2122at 173.475 kb on - strand, within GFF2122at 173.475 kb on - strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.481 kb on + strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.482 kb on - strand, within GFF2122at 173.485 kb on + strand, within GFF2122at 173.486 kb on - strand, within GFF2122at 173.537 kb on + strand, within GFF2122at 173.538 kb on - strand, within GFF2122at 173.538 kb on - strand, within GFF2122at 173.538 kb on - strand, within GFF2122at 173.556 kb on + strand, within GFF2122at 173.557 kb on - strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.649 kb on + strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.650 kb on - strand, within GFF2122at 173.882 kb on - strand, within GFF2123at 173.918 kb on - strand, within GFF2123at 173.918 kb on - strand, within GFF2123

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL
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168,829 + GFF2119 0.49 +0.2
168,829 + GFF2119 0.49 -0.1
168,915 + GFF2119 0.60 -0.9
168,916 - GFF2119 0.60 +0.7
168,916 - GFF2119 0.60 +0.3
168,916 - GFF2119 0.60 -0.3
169,027 + GFF2119 0.75 -0.4
169,027 + GFF2119 0.75 -0.1
169,027 + GFF2119 0.75 -0.6
169,028 - GFF2119 0.75 -0.6
169,028 - GFF2119 0.75 +0.6
169,028 - GFF2119 0.75 -0.3
169,028 - GFF2119 0.75 +1.6
169,028 - GFF2119 0.75 -1.7
169,028 - GFF2119 0.75 -0.6
169,028 - GFF2119 0.75 +0.1
169,235 + +0.6
169,338 + GFF2120 0.21 -0.2
169,339 - GFF2120 0.21 -0.6
169,339 - GFF2120 0.21 -0.1
169,339 - GFF2120 0.21 -0.2
169,339 - GFF2120 0.21 +1.5
169,507 + GFF2120 0.50 +0.8
169,563 + GFF2120 0.59 -0.4
169,629 + GFF2120 0.71 +0.9
169,630 - GFF2120 0.71 -1.3
169,633 - GFF2120 0.71 -0.4
169,660 - GFF2120 0.76 +0.4
169,758 + -0.3
169,759 - +0.5
169,942 + -0.5
169,942 + -0.0
169,943 - -0.7
170,029 + -0.3
170,029 + -0.1
170,029 + +0.1
170,030 - -0.1
170,033 - -0.1
170,033 - +0.3
170,033 - -1.3
170,126 + +0.6
170,198 + GFF2121 0.11 +0.0
170,230 + GFF2121 0.12 +0.9
170,230 + GFF2121 0.12 -0.9
170,283 - GFF2121 0.13 -0.1
170,297 - GFF2121 0.14 -0.9
170,336 - GFF2121 0.15 -1.1
170,363 - GFF2121 0.16 -0.5
170,384 - GFF2121 0.16 +0.0
170,550 - GFF2121 0.21 -0.8
170,614 + GFF2121 0.23 -0.8
170,614 + GFF2121 0.23 -0.4
170,614 + GFF2121 0.23 +1.3
170,614 + GFF2121 0.23 -0.8
170,615 - GFF2121 0.23 -0.5
170,746 + GFF2121 0.27 -0.3
170,746 + GFF2121 0.27 -0.5
170,746 + GFF2121 0.27 +0.9
170,747 - GFF2121 0.27 -0.6
170,747 - GFF2121 0.27 -0.9
170,747 - GFF2121 0.27 -0.4
170,823 + GFF2121 0.29 -1.1
170,824 - GFF2121 0.29 -0.1
170,824 - GFF2121 0.29 -0.2
170,824 - GFF2121 0.29 +0.2
170,831 - GFF2121 0.29 +0.6
170,872 + GFF2121 0.31 -0.5
170,977 - GFF2121 0.34 +0.2
171,100 + GFF2121 0.37 +0.6
171,109 + GFF2121 0.37 -0.6
171,110 - GFF2121 0.37 -0.6
171,527 - GFF2121 0.50 -0.3
171,650 - GFF2121 0.53 -1.9
171,697 + GFF2121 0.55 -0.2
171,697 + GFF2121 0.55 -0.9
171,754 + GFF2121 0.56 -0.9
171,754 + GFF2121 0.56 -0.0
171,755 - GFF2121 0.56 -0.8
171,755 - GFF2121 0.56 +0.2
171,783 - GFF2121 0.57 -0.7
171,838 + GFF2121 0.59 +0.3
171,871 + GFF2121 0.60 -0.8
171,871 + GFF2121 0.60 +0.6
171,872 - GFF2121 0.60 -0.6
171,872 - GFF2121 0.60 +1.9
171,966 + GFF2121 0.62 +0.1
171,977 - GFF2121 0.63 -0.5
171,977 - GFF2121 0.63 +1.0
171,977 - GFF2121 0.63 +0.2
171,977 - GFF2121 0.63 -0.8
172,324 + GFF2121 0.73 +0.4
172,324 + GFF2121 0.73 -0.8
172,324 + GFF2121 0.73 +0.1
172,325 - GFF2121 0.73 +0.1
172,366 + GFF2121 0.74 -0.7
172,366 + GFF2121 0.74 -0.7
172,366 + GFF2121 0.74 +0.6
172,366 + GFF2121 0.74 +0.1
172,366 + GFF2121 0.74 +1.1
172,366 + GFF2121 0.74 +0.0
172,366 + GFF2121 0.74 -0.2
172,367 - GFF2121 0.74 +0.1
172,367 - GFF2121 0.74 +0.8
172,367 - GFF2121 0.74 -0.7
172,373 - GFF2121 0.74 -1.1
172,603 + GFF2121 0.81 +0.4
172,603 + GFF2121 0.81 +0.0
172,604 - GFF2121 0.81 -0.7
172,604 - GFF2121 0.81 -1.3
172,604 - GFF2121 0.81 -1.2
172,604 - GFF2121 0.81 -0.5
172,627 + GFF2121 0.82 -1.0
172,627 + GFF2121 0.82 -0.9
172,627 + GFF2121 0.82 +0.6
172,627 + GFF2121 0.82 +0.9
172,627 + GFF2121 0.82 -0.7
172,627 + GFF2121 0.82 -0.2
172,627 + GFF2121 0.82 +0.1
172,627 + GFF2121 0.82 +0.1
172,627 + GFF2121 0.82 -0.3
172,628 - GFF2121 0.82 -0.6
172,628 - GFF2121 0.82 -0.6
172,628 - GFF2121 0.82 +0.7
172,628 - GFF2121 0.82 +0.1
172,687 + GFF2121 0.83 -0.2
172,688 - GFF2121 0.83 -1.4
172,688 - GFF2121 0.83 -0.5
172,688 - GFF2121 0.83 -0.9
172,900 + GFF2121 0.90 +0.9
172,900 + GFF2121 0.90 -0.7
172,900 + GFF2121 0.90 -1.7
172,900 + GFF2121 0.90 -0.4
172,900 + GFF2121 0.90 -0.4
172,901 - GFF2121 0.90 +0.1
172,901 - GFF2121 0.90 -0.6
172,901 - GFF2121 0.90 -0.1
173,064 + -0.2
173,077 + +0.1
173,077 + +0.3
173,077 + +0.0
173,078 - -0.2
173,156 - -0.4
173,289 - -0.9
173,289 - +0.0
173,289 - -0.4
173,383 - GFF2122 0.27 -1.4
173,383 - GFF2122 0.27 -1.3
173,383 - GFF2122 0.27 +0.3
173,460 + GFF2122 0.44 +0.8
173,461 - GFF2122 0.44 +0.1
173,474 + GFF2122 0.47 +0.9
173,475 - GFF2122 0.47 +1.0
173,475 - GFF2122 0.47 -0.4
173,481 + GFF2122 0.48 -0.7
173,481 + GFF2122 0.48 -0.1
173,481 + GFF2122 0.48 -1.0
173,481 + GFF2122 0.48 -0.2
173,481 + GFF2122 0.48 -0.1
173,481 + GFF2122 0.48 +0.6
173,481 + GFF2122 0.48 +0.7
173,481 + GFF2122 0.48 +0.2
173,481 + GFF2122 0.48 -0.5
173,481 + GFF2122 0.48 -1.1
173,481 + GFF2122 0.48 -1.1
173,481 + GFF2122 0.48 +0.1
173,481 + GFF2122 0.48 -0.2
173,482 - GFF2122 0.49 +0.9
173,482 - GFF2122 0.49 -0.4
173,482 - GFF2122 0.49 -0.8
173,482 - GFF2122 0.49 +0.6
173,482 - GFF2122 0.49 +0.3
173,482 - GFF2122 0.49 -1.0
173,482 - GFF2122 0.49 +1.5
173,482 - GFF2122 0.49 -0.2
173,482 - GFF2122 0.49 -0.1
173,482 - GFF2122 0.49 +0.3
173,482 - GFF2122 0.49 -0.4
173,482 - GFF2122 0.49 +0.5
173,482 - GFF2122 0.49 -0.1
173,482 - GFF2122 0.49 -0.3
173,482 - GFF2122 0.49 +0.1
173,482 - GFF2122 0.49 -1.1
173,482 - GFF2122 0.49 +0.6
173,482 - GFF2122 0.49 -0.8
173,482 - GFF2122 0.49 +0.3
173,482 - GFF2122 0.49 -0.1
173,482 - GFF2122 0.49 +0.2
173,482 - GFF2122 0.49 +0.1
173,482 - GFF2122 0.49 -0.2
173,485 + GFF2122 0.49 -1.0
173,486 - GFF2122 0.49 +0.5
173,537 + GFF2122 0.61 +0.1
173,538 - GFF2122 0.61 -0.2
173,538 - GFF2122 0.61 -1.4
173,538 - GFF2122 0.61 -0.6
173,556 + GFF2122 0.65 +1.5
173,557 - GFF2122 0.65 -0.1
173,649 + GFF2122 0.85 -0.2
173,649 + GFF2122 0.85 +1.7
173,649 + GFF2122 0.85 -0.4
173,649 + GFF2122 0.85 +0.5
173,649 + GFF2122 0.85 -0.4
173,649 + GFF2122 0.85 -1.1
173,649 + GFF2122 0.85 -0.5
173,650 - GFF2122 0.86 -0.1
173,650 - GFF2122 0.86 +1.4
173,650 - GFF2122 0.86 -0.9
173,650 - GFF2122 0.86 +0.6
173,650 - GFF2122 0.86 -0.3
173,650 - GFF2122 0.86 -1.8
173,650 - GFF2122 0.86 +0.7
173,650 - GFF2122 0.86 -0.8
173,882 - GFF2123 0.29 +0.1
173,918 - GFF2123 0.37 +0.5
173,918 - GFF2123 0.37 -0.4

Or see this region's nucleotide sequence