Strain Fitness in Rahnella sp. WP5 around EX31_RS19850

Experiment: NL-CCM; Mixed culture; Herbiconiux sp. 11RBC 2:1 starting OD to Azospirillum

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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 ntEX31_RS19840 and EX31_RS19845 are separated by 44 nucleotidesEX31_RS19845 and EX31_RS19850 are separated by 10 nucleotidesEX31_RS19850 and EX31_RS19855 are separated by 105 nucleotidesEX31_RS19855 and EX31_RS19860 are separated by 29 nucleotidesEX31_RS19860 and EX31_RS19865 overlap by 4 nucleotides EX31_RS19840: EX31_RS19840 - hypothetical protein, at 599,814 to 600,818 _RS19840 EX31_RS19845: EX31_RS19845 - DNA polymerase II small subunit, at 600,863 to 601,063 _RS19845 EX31_RS19850: EX31_RS19850 - LysR family transcriptional regulator, at 601,074 to 601,955 _RS19850 EX31_RS19855: EX31_RS19855 - carboxymuconolactone decarboxylase family protein, at 602,061 to 602,384 _RS19855 EX31_RS19860: EX31_RS19860 - tautomerase family protein, at 602,414 to 602,821 _RS19860 EX31_RS19865: EX31_RS19865 - DUF4865 family protein, at 602,818 to 603,360 _RS19865 Position (kb) 601 602Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 600.085 kb on + strand, within EX31_RS19840at 600.085 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.143 kb on + strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.144 kb on - strand, within EX31_RS19840at 600.149 kb on + strand, within EX31_RS19840at 600.169 kb on + strand, within EX31_RS19840at 600.169 kb on + strand, within EX31_RS19840at 600.221 kb on + strand, within EX31_RS19840at 600.221 kb on + strand, within EX31_RS19840at 600.222 kb on - strand, within EX31_RS19840at 600.222 kb on - strand, within EX31_RS19840at 600.222 kb on - strand, within EX31_RS19840at 600.267 kb on + strand, within EX31_RS19840at 600.267 kb on + strand, within EX31_RS19840at 600.267 kb on + strand, within EX31_RS19840at 600.267 kb on + strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.268 kb on - strand, within EX31_RS19840at 600.300 kb on - strand, within EX31_RS19840at 600.332 kb on + strand, within EX31_RS19840at 600.332 kb on + strand, within EX31_RS19840at 600.333 kb on - strand, within EX31_RS19840at 600.333 kb on - strand, within EX31_RS19840at 600.333 kb on - strand, within EX31_RS19840at 600.357 kb on + strand, within EX31_RS19840at 600.357 kb on + strand, within EX31_RS19840at 600.357 kb on + strand, within EX31_RS19840at 600.357 kb on + strand, within EX31_RS19840at 600.358 kb on - strand, within EX31_RS19840at 600.358 kb on - strand, within EX31_RS19840at 600.412 kb on + strand, within EX31_RS19840at 600.444 kb on + strand, within EX31_RS19840at 600.444 kb on + strand, within EX31_RS19840at 600.445 kb on - strand, within EX31_RS19840at 600.445 kb on - strand, within EX31_RS19840at 600.491 kb on + strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.492 kb on - strand, within EX31_RS19840at 600.510 kb on + strand, within EX31_RS19840at 600.614 kb on + strand, within EX31_RS19840at 600.614 kb on + strand, within EX31_RS19840at 600.615 kb on - strand, within EX31_RS19840at 600.618 kb on - strand, within EX31_RS19840at 600.635 kb on + strand, within EX31_RS19840at 600.636 kb on - strand, within EX31_RS19840at 600.647 kb on - strand, within EX31_RS19840at 600.663 kb on + strand, within EX31_RS19840at 600.663 kb on + strand, within EX31_RS19840at 600.664 kb on - strand, within EX31_RS19840at 600.683 kb on + strand, within EX31_RS19840at 600.683 kb on + strand, within EX31_RS19840at 600.768 kb on + strandat 600.768 kb on + strandat 600.768 kb on + strandat 600.768 kb on + strandat 600.768 kb on + strandat 600.769 kb on - strandat 600.769 kb on - strandat 600.769 kb on - strandat 600.787 kb on + strandat 600.816 kb on + strandat 600.816 kb on + strandat 600.817 kb on - strandat 600.837 kb on + strandat 600.837 kb on + strandat 600.837 kb on + strandat 600.838 kb on - strandat 600.838 kb on - strandat 600.889 kb on + strand, within EX31_RS19845at 600.904 kb on + strand, within EX31_RS19845at 600.905 kb on - strand, within EX31_RS19845at 601.038 kb on - strand, within EX31_RS19845at 601.088 kb on + strandat 601.089 kb on - strandat 601.300 kb on - strand, within EX31_RS19850at 601.527 kb on - strand, within EX31_RS19850at 601.565 kb on + strand, within EX31_RS19850at 601.565 kb on + strand, within EX31_RS19850at 601.566 kb on - strand, within EX31_RS19850at 601.566 kb on - strand, within EX31_RS19850at 601.566 kb on - strand, within EX31_RS19850at 601.735 kb on + strand, within EX31_RS19850at 601.736 kb on - strand, within EX31_RS19850at 601.792 kb on - strand, within EX31_RS19850at 601.792 kb on - strand, within EX31_RS19850at 602.025 kb on + strandat 602.025 kb on + strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.026 kb on - strandat 602.061 kb on - strandat 602.061 kb on - strandat 602.481 kb on + strand, within EX31_RS19860at 602.482 kb on - strand, within EX31_RS19860at 602.482 kb on - strand, within EX31_RS19860at 602.482 kb on - strand, within EX31_RS19860at 602.484 kb on + strand, within EX31_RS19860at 602.484 kb on + strand, within EX31_RS19860at 602.484 kb on + strand, within EX31_RS19860at 602.484 kb on + strand, within EX31_RS19860at 602.485 kb on - strand, within EX31_RS19860at 602.485 kb on - strand, within EX31_RS19860at 602.485 kb on - strand, within EX31_RS19860at 602.582 kb on + strand, within EX31_RS19860at 602.582 kb on + strand, within EX31_RS19860at 602.582 kb on + strand, within EX31_RS19860at 602.583 kb on - strand, within EX31_RS19860at 602.583 kb on - strand, within EX31_RS19860at 602.587 kb on - strand, within EX31_RS19860at 602.587 kb on - strand, within EX31_RS19860at 602.587 kb on - strand, within EX31_RS19860at 602.700 kb on + strand, within EX31_RS19860at 602.753 kb on - strand, within EX31_RS19860at 602.753 kb on - strand, within EX31_RS19860at 602.833 kb on + strandat 602.834 kb on - strandat 602.834 kb on - strandat 602.834 kb on - strandat 602.834 kb on - strandat 602.841 kb on + strandat 602.841 kb on + strandat 602.841 kb on + strandat 602.842 kb on - strandat 602.842 kb on - strandat 602.871 kb on + strandat 602.871 kb on + strandat 602.925 kb on + strand, within EX31_RS19865at 602.938 kb on + strand, within EX31_RS19865at 602.938 kb on + strand, within EX31_RS19865at 602.938 kb on + strand, within EX31_RS19865at 602.938 kb on + strand, within EX31_RS19865at 602.938 kb on + strand, within EX31_RS19865at 602.939 kb on - strand, within EX31_RS19865at 602.939 kb on - strand, within EX31_RS19865at 602.944 kb on + strand, within EX31_RS19865at 602.945 kb on - strand, within EX31_RS19865at 602.945 kb on - strand, within EX31_RS19865

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Per-strain Table

Position Strand Gene LocusTag Fraction NL-CCM; Mixed culture; Herbiconiux sp. 11RBC 2:1 starting OD to Azospirillum
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600,085 + EX31_RS19840 0.27 +1.8
600,085 + EX31_RS19840 0.27 -0.7
600,143 + EX31_RS19840 0.33 -0.9
600,143 + EX31_RS19840 0.33 -1.0
600,143 + EX31_RS19840 0.33 -0.9
600,143 + EX31_RS19840 0.33 -1.2
600,143 + EX31_RS19840 0.33 -0.6
600,143 + EX31_RS19840 0.33 +0.4
600,143 + EX31_RS19840 0.33 -0.1
600,144 - EX31_RS19840 0.33 +0.1
600,144 - EX31_RS19840 0.33 +0.6
600,144 - EX31_RS19840 0.33 +1.0
600,144 - EX31_RS19840 0.33 -1.3
600,144 - EX31_RS19840 0.33 +0.4
600,144 - EX31_RS19840 0.33 -0.1
600,149 + EX31_RS19840 0.33 +0.2
600,169 + EX31_RS19840 0.35 -2.0
600,169 + EX31_RS19840 0.35 -0.4
600,221 + EX31_RS19840 0.40 -0.6
600,221 + EX31_RS19840 0.40 -2.4
600,222 - EX31_RS19840 0.41 +1.3
600,222 - EX31_RS19840 0.41 -2.8
600,222 - EX31_RS19840 0.41 +0.1
600,267 + EX31_RS19840 0.45 -0.6
600,267 + EX31_RS19840 0.45 +0.1
600,267 + EX31_RS19840 0.45 +0.4
600,267 + EX31_RS19840 0.45 +0.3
600,268 - EX31_RS19840 0.45 -0.2
600,268 - EX31_RS19840 0.45 -1.9
600,268 - EX31_RS19840 0.45 -0.2
600,268 - EX31_RS19840 0.45 -0.2
600,268 - EX31_RS19840 0.45 -1.3
600,268 - EX31_RS19840 0.45 -1.3
600,300 - EX31_RS19840 0.48 +3.0
600,332 + EX31_RS19840 0.52 +1.3
600,332 + EX31_RS19840 0.52 +0.6
600,333 - EX31_RS19840 0.52 -0.5
600,333 - EX31_RS19840 0.52 -2.8
600,333 - EX31_RS19840 0.52 +1.3
600,357 + EX31_RS19840 0.54 +0.0
600,357 + EX31_RS19840 0.54 -0.1
600,357 + EX31_RS19840 0.54 -0.5
600,357 + EX31_RS19840 0.54 +2.0
600,358 - EX31_RS19840 0.54 -0.7
600,358 - EX31_RS19840 0.54 -2.1
600,412 + EX31_RS19840 0.60 -0.3
600,444 + EX31_RS19840 0.63 -0.1
600,444 + EX31_RS19840 0.63 +0.9
600,445 - EX31_RS19840 0.63 +1.0
600,445 - EX31_RS19840 0.63 -2.1
600,491 + EX31_RS19840 0.67 +1.3
600,492 - EX31_RS19840 0.67 -1.2
600,492 - EX31_RS19840 0.67 +1.3
600,492 - EX31_RS19840 0.67 -0.0
600,492 - EX31_RS19840 0.67 +1.0
600,492 - EX31_RS19840 0.67 -0.1
600,492 - EX31_RS19840 0.67 +0.2
600,492 - EX31_RS19840 0.67 +1.3
600,510 + EX31_RS19840 0.69 +0.5
600,614 + EX31_RS19840 0.80 -0.5
600,614 + EX31_RS19840 0.80 +1.9
600,615 - EX31_RS19840 0.80 +0.7
600,618 - EX31_RS19840 0.80 -0.4
600,635 + EX31_RS19840 0.82 +0.6
600,636 - EX31_RS19840 0.82 +0.5
600,647 - EX31_RS19840 0.83 -2.5
600,663 + EX31_RS19840 0.84 -1.5
600,663 + EX31_RS19840 0.84 -0.6
600,664 - EX31_RS19840 0.85 -0.6
600,683 + EX31_RS19840 0.86 -0.0
600,683 + EX31_RS19840 0.86 -0.1
600,768 + -0.6
600,768 + +1.1
600,768 + -0.5
600,768 + -1.0
600,768 + +0.4
600,769 - +1.0
600,769 - -0.9
600,769 - +1.0
600,787 + -0.2
600,816 + +0.7
600,816 + -0.5
600,817 - -0.2
600,837 + -0.7
600,837 + -1.4
600,837 + -0.7
600,838 - +0.7
600,838 - -0.8
600,889 + EX31_RS19845 0.13 +0.1
600,904 + EX31_RS19845 0.20 -0.4
600,905 - EX31_RS19845 0.21 +1.6
601,038 - EX31_RS19845 0.87 -1.8
601,088 + -1.7
601,089 - +0.7
601,300 - EX31_RS19850 0.26 -0.1
601,527 - EX31_RS19850 0.51 -0.0
601,565 + EX31_RS19850 0.56 +0.1
601,565 + EX31_RS19850 0.56 -1.0
601,566 - EX31_RS19850 0.56 -0.4
601,566 - EX31_RS19850 0.56 -0.6
601,566 - EX31_RS19850 0.56 -1.1
601,735 + EX31_RS19850 0.75 -1.1
601,736 - EX31_RS19850 0.75 -0.8
601,792 - EX31_RS19850 0.81 -1.2
601,792 - EX31_RS19850 0.81 -0.8
602,025 + -0.4
602,025 + +0.4
602,026 - -0.8
602,026 - +0.3
602,026 - -0.3
602,026 - -0.2
602,026 - +1.0
602,026 - +0.0
602,026 - -0.1
602,061 - +0.5
602,061 - +0.4
602,481 + EX31_RS19860 0.16 -0.2
602,482 - EX31_RS19860 0.17 -1.1
602,482 - EX31_RS19860 0.17 -0.4
602,482 - EX31_RS19860 0.17 +0.8
602,484 + EX31_RS19860 0.17 -1.1
602,484 + EX31_RS19860 0.17 -0.0
602,484 + EX31_RS19860 0.17 +0.2
602,484 + EX31_RS19860 0.17 +1.4
602,485 - EX31_RS19860 0.17 -0.7
602,485 - EX31_RS19860 0.17 +0.1
602,485 - EX31_RS19860 0.17 -1.6
602,582 + EX31_RS19860 0.41 -0.8
602,582 + EX31_RS19860 0.41 -0.4
602,582 + EX31_RS19860 0.41 -2.2
602,583 - EX31_RS19860 0.41 +0.9
602,583 - EX31_RS19860 0.41 +0.2
602,587 - EX31_RS19860 0.42 -0.7
602,587 - EX31_RS19860 0.42 +0.5
602,587 - EX31_RS19860 0.42 -0.2
602,700 + EX31_RS19860 0.70 +0.1
602,753 - EX31_RS19860 0.83 -0.1
602,753 - EX31_RS19860 0.83 -0.2
602,833 + -1.2
602,834 - +1.6
602,834 - +0.1
602,834 - +0.1
602,834 - -0.3
602,841 + +0.6
602,841 + -1.6
602,841 + -0.9
602,842 - +0.1
602,842 - +0.4
602,871 + +0.1
602,871 + +0.5
602,925 + EX31_RS19865 0.20 -1.3
602,938 + EX31_RS19865 0.22 +0.3
602,938 + EX31_RS19865 0.22 +0.4
602,938 + EX31_RS19865 0.22 -0.3
602,938 + EX31_RS19865 0.22 +0.6
602,938 + EX31_RS19865 0.22 -0.4
602,939 - EX31_RS19865 0.22 +0.5
602,939 - EX31_RS19865 0.22 +0.1
602,944 + EX31_RS19865 0.23 -0.6
602,945 - EX31_RS19865 0.23 +1.0
602,945 - EX31_RS19865 0.23 +0.1

Or see this region's nucleotide sequence