Strain Fitness in Variovorax sp. SCN45 around GFF5985

Experiment: M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 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 ntGFF5984 and GFF5985 are separated by 223 nucleotidesGFF5985 and GFF5986 are separated by 77 nucleotidesGFF5986 and GFF5987 are separated by 67 nucleotides GFF5984 - L-lactate dehydrogenase, at 37,474 to 38,631 GFF5984 GFF5985 - dicarboxylic acid transporter PcaT, at 38,855 to 40,090 GFF5985 GFF5986 - hypothetical protein, at 40,168 to 40,761 GFF5986 GFF5987 - Response regulator BaeR, at 40,829 to 41,536 GFF5987 Position (kb) 38 39 40 41Strain fitness (log2 ratio) -2 -1 0 1 2at 37.873 kb on + strand, within GFF5984at 37.873 kb on + strand, within GFF5984at 37.873 kb on + strand, within GFF5984at 37.873 kb on + strand, within GFF5984at 37.873 kb on + strand, within GFF5984at 37.873 kb on + strand, within GFF5984at 37.874 kb on - strand, within GFF5984at 37.874 kb on - strand, within GFF5984at 37.874 kb on - strand, within GFF5984at 38.489 kb on - strand, within GFF5984at 38.504 kb on - strand, within GFF5984at 38.816 kb on + strandat 38.816 kb on + strandat 38.816 kb on + strandat 38.897 kb on + strandat 38.898 kb on - strandat 38.898 kb on - strandat 38.903 kb on + strandat 38.903 kb on + strandat 38.903 kb on + strandat 38.903 kb on + strandat 38.903 kb on + strandat 38.904 kb on - strandat 38.904 kb on - strandat 38.904 kb on - strandat 38.904 kb on - strandat 38.922 kb on - strandat 39.128 kb on + strand, within GFF5985at 39.128 kb on + strand, within GFF5985at 39.128 kb on + strand, within GFF5985at 39.129 kb on - strand, within GFF5985at 39.129 kb on - strand, within GFF5985at 39.206 kb on + strand, within GFF5985at 39.224 kb on + strand, within GFF5985at 39.224 kb on + strand, within GFF5985at 39.224 kb on + strand, within GFF5985at 39.224 kb on + strand, within GFF5985at 39.225 kb on - strand, within GFF5985at 39.225 kb on - strand, within GFF5985at 39.578 kb on + strand, within GFF5985at 39.578 kb on + strand, within GFF5985at 39.590 kb on + strand, within GFF5985at 39.632 kb on + strand, within GFF5985at 39.633 kb on - strand, within GFF5985at 39.633 kb on - strand, within GFF5985at 39.633 kb on - strand, within GFF5985at 39.633 kb on - strand, within GFF5985at 39.659 kb on + strand, within GFF5985at 39.660 kb on - strand, within GFF5985at 39.660 kb on - strand, within GFF5985at 39.660 kb on - strand, within GFF5985at 39.660 kb on - strand, within GFF5985at 39.660 kb on - strand, within GFF5985at 39.843 kb on - strand, within GFF5985at 39.843 kb on - strand, within GFF5985at 39.956 kb on + strand, within GFF5985at 40.007 kb on + strandat 40.071 kb on - strandat 40.094 kb on + strandat 40.094 kb on + strandat 40.094 kb on + strandat 40.141 kb on + strandat 40.141 kb on + strandat 40.141 kb on + strandat 40.142 kb on - strandat 40.142 kb on - strandat 40.142 kb on - strandat 40.142 kb on - strandat 40.142 kb on - strandat 40.193 kb on + strandat 40.193 kb on + strandat 40.193 kb on + strandat 40.220 kb on - strandat 40.435 kb on + strand, within GFF5986at 40.633 kb on + strand, within GFF5986at 40.633 kb on + strand, within GFF5986at 40.633 kb on + strand, within GFF5986at 40.633 kb on + strand, within GFF5986at 40.699 kb on - strand, within GFF5986at 40.699 kb on - strand, within GFF5986at 40.699 kb on - strand, within GFF5986at 40.699 kb on - strand, within GFF5986at 40.774 kb on + strandat 40.775 kb on - strandat 40.846 kb on + strandat 40.846 kb on + strandat 40.847 kb on - strandat 40.847 kb on - strandat 41.086 kb on + strand, within GFF5987at 41.086 kb on + strand, within GFF5987at 41.087 kb on - strand, within GFF5987at 41.088 kb on + strand, within GFF5987at 41.088 kb on + strand, within GFF5987at 41.088 kb on + strand, within GFF5987

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Per-strain Table

Position Strand Gene LocusTag Fraction M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL
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37,873 + GFF5984 0.34 +1.2
37,873 + GFF5984 0.34 +0.6
37,873 + GFF5984 0.34 +1.4
37,873 + GFF5984 0.34 -1.3
37,873 + GFF5984 0.34 -0.6
37,873 + GFF5984 0.34 +0.0
37,874 - GFF5984 0.35 -1.3
37,874 - GFF5984 0.35 -0.8
37,874 - GFF5984 0.35 -0.4
38,489 - GFF5984 0.88 +0.1
38,504 - GFF5984 0.89 +0.1
38,816 + -0.7
38,816 + -0.4
38,816 + +0.1
38,897 + +0.3
38,898 - -1.1
38,898 - -0.1
38,903 + -0.2
38,903 + +0.6
38,903 + -0.4
38,903 + -0.6
38,903 + +0.8
38,904 - +0.7
38,904 - -0.5
38,904 - -0.3
38,904 - -0.6
38,922 - -0.6
39,128 + GFF5985 0.22 -1.6
39,128 + GFF5985 0.22 +0.5
39,128 + GFF5985 0.22 -0.2
39,129 - GFF5985 0.22 -0.3
39,129 - GFF5985 0.22 +0.1
39,206 + GFF5985 0.28 -1.1
39,224 + GFF5985 0.30 -0.1
39,224 + GFF5985 0.30 +0.1
39,224 + GFF5985 0.30 -0.0
39,224 + GFF5985 0.30 +1.0
39,225 - GFF5985 0.30 -0.2
39,225 - GFF5985 0.30 -0.4
39,578 + GFF5985 0.58 -0.1
39,578 + GFF5985 0.58 -0.7
39,590 + GFF5985 0.59 +0.7
39,632 + GFF5985 0.63 +1.9
39,633 - GFF5985 0.63 +0.2
39,633 - GFF5985 0.63 +1.8
39,633 - GFF5985 0.63 -0.9
39,633 - GFF5985 0.63 -0.3
39,659 + GFF5985 0.65 +0.1
39,660 - GFF5985 0.65 -0.3
39,660 - GFF5985 0.65 -0.4
39,660 - GFF5985 0.65 +0.4
39,660 - GFF5985 0.65 -0.4
39,660 - GFF5985 0.65 +0.1
39,843 - GFF5985 0.80 -0.2
39,843 - GFF5985 0.80 +0.4
39,956 + GFF5985 0.89 -0.5
40,007 + +0.3
40,071 - -0.5
40,094 + +0.1
40,094 + +0.4
40,094 + -0.7
40,141 + +1.8
40,141 + +0.2
40,141 + -0.4
40,142 - +1.0
40,142 - +0.1
40,142 - -0.4
40,142 - -0.2
40,142 - +0.3
40,193 + -0.4
40,193 + -0.8
40,193 + -0.2
40,220 - +0.3
40,435 + GFF5986 0.45 -0.5
40,633 + GFF5986 0.78 +0.2
40,633 + GFF5986 0.78 -0.5
40,633 + GFF5986 0.78 -0.5
40,633 + GFF5986 0.78 -0.3
40,699 - GFF5986 0.89 -0.2
40,699 - GFF5986 0.89 -0.6
40,699 - GFF5986 0.89 +0.4
40,699 - GFF5986 0.89 -0.4
40,774 + -0.5
40,775 - +0.5
40,846 + -0.7
40,846 + -1.0
40,847 - -0.4
40,847 - -2.4
41,086 + GFF5987 0.36 -0.6
41,086 + GFF5987 0.36 +0.4
41,087 - GFF5987 0.36 +0.2
41,088 + GFF5987 0.37 -0.5
41,088 + GFF5987 0.37 -0.8
41,088 + GFF5987 0.37 -0.1

Or see this region's nucleotide sequence