Strain Fitness in Variovorax sp. SCN45 around GFF6960

Experiment: M9 with Supernatant from Cyptococcus and 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 ntGFF6957 and GFF6958 overlap by 4 nucleotidesGFF6958 and GFF6959 overlap by 4 nucleotidesGFF6959 and GFF6960 are separated by 34 nucleotidesGFF6960 and GFF6961 are separated by 15 nucleotidesGFF6961 and GFF6962 are separated by 13 nucleotides GFF6957 - Coproporphyrinogen III oxidase, oxygen-independent (EC 1.3.99.22), at 31,823 to 33,229 GFF6957 GFF6958 - no description, at 33,226 to 33,492 GFF6958 GFF6959 - Putative analog of CcoH, COG3198, at 33,489 to 33,770 GFF6959 GFF6960 - Type cbb3 cytochrome oxidase biogenesis protein CcoG, involved in Cu oxidation, at 33,805 to 35,232 GFF6960 GFF6961 - Cytochrome c oxidase (cbb3-type) subunit CcoP (EC 1.9.3.1), at 35,248 to 36,165 GFF6961 GFF6962 - Cytochrome c oxidase (cbb3-type) subunit CcoQ (EC 1.9.3.1), at 36,179 to 36,319 GFF6962 Position (kb) 33 34 35 36Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 32.931 kb on + strand, within GFF6957at 32.931 kb on + strand, within GFF6957at 32.931 kb on + strand, within GFF6957at 32.991 kb on + strand, within GFF6957at 32.991 kb on + strand, within GFF6957at 32.991 kb on + strand, within GFF6957at 32.991 kb on + strand, within GFF6957at 32.994 kb on + strand, within GFF6957at 33.027 kb on + strand, within GFF6957at 33.027 kb on + strand, within GFF6957at 33.028 kb on - strand, within GFF6957at 33.028 kb on - strand, within GFF6957at 33.028 kb on - strand, within GFF6957at 33.132 kb on + strandat 33.132 kb on + strandat 33.141 kb on + strandat 33.347 kb on + strand, within GFF6958at 33.347 kb on + strand, within GFF6958at 33.347 kb on + strand, within GFF6958at 33.347 kb on + strand, within GFF6958at 33.348 kb on - strand, within GFF6958at 33.348 kb on - strand, within GFF6958at 33.348 kb on - strand, within GFF6958at 33.619 kb on + strand, within GFF6959at 33.620 kb on - strand, within GFF6959at 34.017 kb on - strand, within GFF6960at 34.017 kb on - strand, within GFF6960at 34.059 kb on - strand, within GFF6960at 34.296 kb on - strand, within GFF6960at 34.359 kb on - strand, within GFF6960at 34.499 kb on + strand, within GFF6960at 34.500 kb on - strand, within GFF6960at 34.551 kb on - strand, within GFF6960at 34.562 kb on + strand, within GFF6960at 34.563 kb on - strand, within GFF6960at 34.563 kb on - strand, within GFF6960at 34.862 kb on + strand, within GFF6960at 34.883 kb on + strand, within GFF6960at 34.884 kb on - strand, within GFF6960at 34.961 kb on + strand, within GFF6960at 34.962 kb on - strand, within GFF6960at 34.962 kb on - strand, within GFF6960at 35.000 kb on + strand, within GFF6960at 35.000 kb on + strand, within GFF6960at 35.000 kb on + strand, within GFF6960at 35.553 kb on - strand, within GFF6961at 35.553 kb on - strand, within GFF6961at 35.667 kb on - strand, within GFF6961at 35.816 kb on + strand, within GFF6961at 35.871 kb on - strand, within GFF6961at 36.131 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with Supernatant from Cyptococcus and calcium pantothenate 10 mg/mL
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32,931 + GFF6957 0.79 +0.0
32,931 + GFF6957 0.79 -1.4
32,931 + GFF6957 0.79 +0.4
32,991 + GFF6957 0.83 +0.7
32,991 + GFF6957 0.83 +1.8
32,991 + GFF6957 0.83 -3.3
32,991 + GFF6957 0.83 -0.8
32,994 + GFF6957 0.83 +0.1
33,027 + GFF6957 0.86 -0.5
33,027 + GFF6957 0.86 -1.3
33,028 - GFF6957 0.86 +2.4
33,028 - GFF6957 0.86 -0.0
33,028 - GFF6957 0.86 -0.6
33,132 + +0.2
33,132 + +2.1
33,141 + -0.3
33,347 + GFF6958 0.45 -0.4
33,347 + GFF6958 0.45 -0.3
33,347 + GFF6958 0.45 +0.5
33,347 + GFF6958 0.45 +0.5
33,348 - GFF6958 0.46 -0.8
33,348 - GFF6958 0.46 -0.5
33,348 - GFF6958 0.46 -0.2
33,619 + GFF6959 0.46 +2.2
33,620 - GFF6959 0.46 -0.7
34,017 - GFF6960 0.15 -1.4
34,017 - GFF6960 0.15 -1.7
34,059 - GFF6960 0.18 -1.0
34,296 - GFF6960 0.34 -0.3
34,359 - GFF6960 0.39 +1.3
34,499 + GFF6960 0.49 -0.7
34,500 - GFF6960 0.49 -0.7
34,551 - GFF6960 0.52 +0.8
34,562 + GFF6960 0.53 -1.2
34,563 - GFF6960 0.53 -0.8
34,563 - GFF6960 0.53 -0.5
34,862 + GFF6960 0.74 +0.5
34,883 + GFF6960 0.75 -0.1
34,884 - GFF6960 0.76 -0.7
34,961 + GFF6960 0.81 -0.3
34,962 - GFF6960 0.81 -0.2
34,962 - GFF6960 0.81 -0.7
35,000 + GFF6960 0.84 -0.7
35,000 + GFF6960 0.84 -0.2
35,000 + GFF6960 0.84 -0.4
35,553 - GFF6961 0.33 +0.8
35,553 - GFF6961 0.33 -0.5
35,667 - GFF6961 0.46 +0.2
35,816 + GFF6961 0.62 -0.2
35,871 - GFF6961 0.68 -1.1
36,131 + +0.0

Or see this region's nucleotide sequence