Strain Fitness in Shewanella oneidensis MR-1 around SO3705

Experiment: 5-Hydroxymethylfurfural 15 mM

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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 ntSO3704 and SO3705 are separated by 880 nucleotidesSO3705 and SO3706 are separated by 117 nucleotides SO3704: SO3704 - hypothetical protein (NCBI ptt file), at 3,853,315 to 3,853,539 SO3704 SO3705: SO3705 - 5-methylthioadenosine nucleosidase/S-adenosylhomocysteine nucleosidase, putative (NCBI ptt file), at 3,854,420 to 3,855,205 SO3705 SO3706: SO3706 - NupC family protein (NCBI ptt file), at 3,855,323 to 3,856,591 SO3706 Position (kb) 3854 3855 3856Strain fitness (log2 ratio) -2 -1 0 1 2at 3853.436 kb on + strand, within SO3704at 3853.515 kb on + strand, within SO3704at 3853.515 kb on + strand, within SO3704at 3853.770 kb on + strandat 3853.946 kb on - strandat 3853.956 kb on - strandat 3854.009 kb on + strandat 3854.102 kb on - strandat 3854.153 kb on - strandat 3854.359 kb on - strandat 3854.361 kb on - strandat 3854.390 kb on - strandat 3854.496 kb on - strandat 3854.611 kb on - strand, within SO3705at 3854.667 kb on - strand, within SO3705at 3854.700 kb on + strand, within SO3705at 3854.754 kb on + strand, within SO3705at 3854.754 kb on + strand, within SO3705at 3854.775 kb on + strand, within SO3705at 3854.783 kb on + strand, within SO3705at 3854.869 kb on + strand, within SO3705at 3855.010 kb on - strand, within SO3705at 3855.187 kb on + strandat 3855.221 kb on - strandat 3855.255 kb on - strandat 3855.302 kb on + strandat 3855.313 kb on + strandat 3855.321 kb on - strandat 3855.321 kb on - strandat 3855.399 kb on - strandat 3855.420 kb on + strandat 3855.460 kb on + strand, within SO3706at 3855.468 kb on - strand, within SO3706at 3855.529 kb on + strand, within SO3706at 3855.589 kb on + strand, within SO3706at 3855.742 kb on + strand, within SO3706at 3855.743 kb on + strand, within SO3706at 3855.786 kb on + strand, within SO3706at 3855.810 kb on + strand, within SO3706at 3855.865 kb on + strand, within SO3706at 3856.189 kb on - strand, within SO3706

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Per-strain Table

Position Strand Gene LocusTag Fraction 5-Hydroxymethylfurfural 15 mM
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3,853,436 + SO3704 0.54 +0.4
3,853,515 + SO3704 0.89 -0.4
3,853,515 + SO3704 0.89 +0.8
3,853,770 + -0.2
3,853,946 - -0.1
3,853,956 - -0.5
3,854,009 + -0.1
3,854,102 - -0.6
3,854,153 - +0.2
3,854,359 - +0.7
3,854,361 - -0.3
3,854,390 - -0.1
3,854,496 - +2.5
3,854,611 - SO3705 0.24 +0.6
3,854,667 - SO3705 0.31 -0.1
3,854,700 + SO3705 0.36 +0.3
3,854,754 + SO3705 0.42 +0.8
3,854,754 + SO3705 0.42 -0.1
3,854,775 + SO3705 0.45 +0.3
3,854,783 + SO3705 0.46 +0.7
3,854,869 + SO3705 0.57 +1.8
3,855,010 - SO3705 0.75 +0.6
3,855,187 + -0.5
3,855,221 - -0.1
3,855,255 - -0.1
3,855,302 + +0.2
3,855,313 + +0.4
3,855,321 - +0.7
3,855,321 - +0.5
3,855,399 - +0.1
3,855,420 + -0.6
3,855,460 + SO3706 0.11 -0.7
3,855,468 - SO3706 0.11 -0.4
3,855,529 + SO3706 0.16 -0.2
3,855,589 + SO3706 0.21 +0.3
3,855,742 + SO3706 0.33 -1.1
3,855,743 + SO3706 0.33 +0.3
3,855,786 + SO3706 0.36 +0.1
3,855,810 + SO3706 0.38 -2.1
3,855,865 + SO3706 0.43 +0.3
3,856,189 - SO3706 0.68 -1.3

Or see this region's nucleotide sequence