Strain Fitness in Pseudomonas sp. DMC3 around GFF5171

Experiment: Mixed culture; Methylosinus sp. DMC45 1:1 with Pseudomonas_DMC3_ML3; dNMS with methane

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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 ntGFF5170 and GFF5171 are separated by 110 nucleotidesGFF5171 and GFF5172 are separated by 403 nucleotidesGFF5172 and GFF5173 are separated by 97 nucleotides GFF5170 - L-serine dehydratase 2, at 50,819 to 52,195 GFF5170 GFF5171 - Aminomethyltransferase, at 52,306 to 53,430 GFF5171 GFF5172 - Major cold shock protein CspA, at 53,834 to 54,046 GFF5172 GFF5173 - hypothetical protein, at 54,144 to 54,632 GFF5173 Position (kb) 52 53 54Strain fitness (log2 ratio) -3 -2 -1 0 1at 51.373 kb on + strand, within GFF5170at 51.373 kb on + strand, within GFF5170at 51.373 kb on + strand, within GFF5170at 51.373 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.377 kb on + strand, within GFF5170at 51.378 kb on - strand, within GFF5170at 51.378 kb on - strand, within GFF5170at 51.378 kb on - strand, within GFF5170at 51.378 kb on - strand, within GFF5170at 51.629 kb on + strand, within GFF5170at 51.630 kb on - strand, within GFF5170at 51.630 kb on - strand, within GFF5170at 51.725 kb on + strand, within GFF5170at 51.725 kb on + strand, within GFF5170at 51.725 kb on + strand, within GFF5170at 51.726 kb on - strand, within GFF5170at 51.726 kb on - strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.728 kb on + strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.729 kb on - strand, within GFF5170at 51.806 kb on + strand, within GFF5170at 51.806 kb on + strand, within GFF5170at 52.145 kb on + strandat 52.146 kb on - strandat 52.146 kb on - strandat 52.215 kb on + strandat 52.215 kb on + strandat 52.215 kb on + strandat 52.216 kb on - strandat 52.216 kb on - strandat 52.216 kb on - strandat 52.216 kb on - strandat 52.216 kb on - strandat 52.220 kb on - strandat 52.387 kb on + strandat 52.387 kb on + strandat 52.571 kb on - strand, within GFF5171at 52.723 kb on - strand, within GFF5171at 52.934 kb on + strand, within GFF5171at 53.023 kb on + strand, within GFF5171at 53.023 kb on + strand, within GFF5171at 53.024 kb on - strand, within GFF5171at 53.312 kb on - strand, within GFF5171at 53.326 kb on + strandat 53.326 kb on + strandat 53.327 kb on - strandat 53.327 kb on - strandat 53.327 kb on - strandat 53.327 kb on - strandat 53.444 kb on + strandat 53.473 kb on + strandat 53.474 kb on - strandat 53.527 kb on + strandat 53.540 kb on + strandat 53.542 kb on + strandat 53.542 kb on + strandat 53.543 kb on - strandat 53.576 kb on + strandat 53.587 kb on + strandat 53.587 kb on + strandat 53.588 kb on - strandat 53.666 kb on - strandat 53.720 kb on - strandat 53.725 kb on - strandat 53.735 kb on + strandat 53.812 kb on + strandat 53.812 kb on + strandat 53.829 kb on - strandat 53.829 kb on - strandat 53.893 kb on + strand, within GFF5172at 53.893 kb on + strand, within GFF5172at 53.925 kb on + strand, within GFF5172at 53.926 kb on - strand, within GFF5172at 54.030 kb on + strandat 54.030 kb on + strandat 54.030 kb on + strandat 54.055 kb on + strandat 54.073 kb on - strandat 54.073 kb on - strandat 54.078 kb on + strandat 54.079 kb on - strandat 54.103 kb on - strandat 54.220 kb on - strand, within GFF5173at 54.267 kb on + strand, within GFF5173at 54.267 kb on + strand, within GFF5173at 54.267 kb on + strand, within GFF5173at 54.267 kb on + strand, within GFF5173at 54.268 kb on - strand, within GFF5173at 54.373 kb on + strand, within GFF5173at 54.373 kb on + strand, within GFF5173at 54.373 kb on + strand, within GFF5173

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Per-strain Table

Position Strand Gene LocusTag Fraction Mixed culture; Methylosinus sp. DMC45 1:1 with Pseudomonas_DMC3_ML3; dNMS with methane
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51,373 + GFF5170 0.40 +0.4
51,373 + GFF5170 0.40 -0.2
51,373 + GFF5170 0.40 -0.3
51,373 + GFF5170 0.40 -0.3
51,377 + GFF5170 0.41 -2.1
51,377 + GFF5170 0.41 -0.6
51,377 + GFF5170 0.41 -0.8
51,377 + GFF5170 0.41 -0.5
51,377 + GFF5170 0.41 +0.8
51,377 + GFF5170 0.41 -1.0
51,378 - GFF5170 0.41 +0.5
51,378 - GFF5170 0.41 +0.9
51,378 - GFF5170 0.41 +0.1
51,378 - GFF5170 0.41 -1.0
51,629 + GFF5170 0.59 +0.1
51,630 - GFF5170 0.59 -0.4
51,630 - GFF5170 0.59 -0.6
51,725 + GFF5170 0.66 +0.5
51,725 + GFF5170 0.66 +0.5
51,725 + GFF5170 0.66 +1.5
51,726 - GFF5170 0.66 +0.1
51,726 - GFF5170 0.66 +0.5
51,728 + GFF5170 0.66 -0.1
51,728 + GFF5170 0.66 +0.8
51,728 + GFF5170 0.66 -0.4
51,728 + GFF5170 0.66 +0.1
51,728 + GFF5170 0.66 -0.1
51,728 + GFF5170 0.66 +0.0
51,728 + GFF5170 0.66 -0.4
51,728 + GFF5170 0.66 -0.9
51,729 - GFF5170 0.66 -0.5
51,729 - GFF5170 0.66 +1.1
51,729 - GFF5170 0.66 -0.3
51,729 - GFF5170 0.66 -0.3
51,729 - GFF5170 0.66 -0.3
51,729 - GFF5170 0.66 -1.3
51,729 - GFF5170 0.66 +0.7
51,729 - GFF5170 0.66 -0.4
51,729 - GFF5170 0.66 +0.4
51,806 + GFF5170 0.72 +0.8
51,806 + GFF5170 0.72 -0.6
52,145 + -0.1
52,146 - -0.8
52,146 - +0.1
52,215 + -0.6
52,215 + -0.6
52,215 + +0.1
52,216 - -1.8
52,216 - -0.3
52,216 - +0.8
52,216 - +0.9
52,216 - +0.3
52,220 - +0.2
52,387 + -0.5
52,387 + +0.9
52,571 - GFF5171 0.24 -0.1
52,723 - GFF5171 0.37 +0.2
52,934 + GFF5171 0.56 -1.4
53,023 + GFF5171 0.64 -0.4
53,023 + GFF5171 0.64 +0.5
53,024 - GFF5171 0.64 +0.8
53,312 - GFF5171 0.89 -1.1
53,326 + -0.7
53,326 + +0.7
53,327 - +0.0
53,327 - -1.1
53,327 - -0.1
53,327 - +0.9
53,444 + -2.8
53,473 + -0.1
53,474 - +0.1
53,527 + -1.0
53,540 + +0.8
53,542 + -0.4
53,542 + -0.2
53,543 - -0.1
53,576 + -0.5
53,587 + -0.1
53,587 + -0.8
53,588 - +0.1
53,666 - -0.4
53,720 - +0.1
53,725 - -0.6
53,735 + +0.3
53,812 + -0.4
53,812 + +1.1
53,829 - -1.7
53,829 - +0.2
53,893 + GFF5172 0.28 -1.9
53,893 + GFF5172 0.28 -0.8
53,925 + GFF5172 0.43 -1.4
53,926 - GFF5172 0.43 -2.3
54,030 + +1.2
54,030 + -0.5
54,030 + +0.3
54,055 + -0.5
54,073 - +0.1
54,073 - -0.1
54,078 + -0.7
54,079 - -0.2
54,103 - -0.1
54,220 - GFF5173 0.16 -0.6
54,267 + GFF5173 0.25 +1.3
54,267 + GFF5173 0.25 +0.2
54,267 + GFF5173 0.25 -0.9
54,267 + GFF5173 0.25 -0.2
54,268 - GFF5173 0.25 -0.2
54,373 + GFF5173 0.47 +0.7
54,373 + GFF5173 0.47 -1.1
54,373 + GFF5173 0.47 -0.1

Or see this region's nucleotide sequence