Strain Fitness in Rhodanobacter denitrificans FW104-10B01 around LRK54_RS09000

Experiment: R2A with Chromium(III) Chloride Hexahydrate 0.09765625 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 ntLRK54_RS08995 and LRK54_RS09000 are separated by 84 nucleotidesLRK54_RS09000 and LRK54_RS09005 are separated by 25 nucleotidesLRK54_RS09005 and LRK54_RS09010 are separated by 8 nucleotides LRK54_RS08995: LRK54_RS08995 - MFS transporter, at 1,958,426 to 1,959,607 _RS08995 LRK54_RS09000: LRK54_RS09000 - HAMP domain-containing histidine kinase, at 1,959,692 to 1,960,900 _RS09000 LRK54_RS09005: LRK54_RS09005 - response regulator transcription factor, at 1,960,926 to 1,961,603 _RS09005 LRK54_RS09010: LRK54_RS09010 - efflux RND transporter permease subunit, at 1,961,612 to 1,964,746 _RS09010 Position (kb) 1959 1960 1961Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1958.716 kb on + strand, within LRK54_RS08995at 1958.717 kb on - strand, within LRK54_RS08995at 1958.717 kb on - strand, within LRK54_RS08995at 1958.903 kb on + strand, within LRK54_RS08995at 1958.903 kb on + strand, within LRK54_RS08995at 1958.903 kb on + strand, within LRK54_RS08995at 1958.903 kb on + strand, within LRK54_RS08995at 1958.903 kb on + strand, within LRK54_RS08995at 1958.904 kb on - strand, within LRK54_RS08995at 1958.904 kb on - strand, within LRK54_RS08995at 1958.904 kb on - strand, within LRK54_RS08995at 1958.904 kb on - strand, within LRK54_RS08995at 1958.904 kb on - strand, within LRK54_RS08995at 1959.095 kb on + strand, within LRK54_RS08995at 1959.177 kb on + strand, within LRK54_RS08995at 1959.178 kb on - strand, within LRK54_RS08995at 1959.201 kb on + strand, within LRK54_RS08995at 1959.201 kb on + strand, within LRK54_RS08995at 1959.202 kb on - strand, within LRK54_RS08995at 1959.202 kb on - strand, within LRK54_RS08995at 1959.208 kb on - strand, within LRK54_RS08995at 1959.208 kb on - strand, within LRK54_RS08995at 1959.363 kb on + strand, within LRK54_RS08995at 1959.363 kb on + strand, within LRK54_RS08995at 1959.364 kb on - strand, within LRK54_RS08995at 1959.364 kb on - strand, within LRK54_RS08995at 1959.364 kb on - strand, within LRK54_RS08995at 1959.364 kb on - strand, within LRK54_RS08995at 1959.364 kb on - strand, within LRK54_RS08995at 1959.678 kb on + strandat 1959.678 kb on + strandat 1959.678 kb on + strandat 1959.679 kb on - strandat 1959.679 kb on - strandat 1959.679 kb on - strandat 1959.780 kb on - strandat 1959.892 kb on + strand, within LRK54_RS09000at 1959.892 kb on + strand, within LRK54_RS09000at 1959.892 kb on + strand, within LRK54_RS09000at 1959.941 kb on + strand, within LRK54_RS09000at 1959.941 kb on + strand, within LRK54_RS09000at 1959.941 kb on + strand, within LRK54_RS09000at 1960.065 kb on - strand, within LRK54_RS09000at 1960.125 kb on + strand, within LRK54_RS09000at 1960.125 kb on + strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.126 kb on - strand, within LRK54_RS09000at 1960.162 kb on + strand, within LRK54_RS09000at 1960.206 kb on - strand, within LRK54_RS09000at 1960.226 kb on + strand, within LRK54_RS09000at 1960.226 kb on + strand, within LRK54_RS09000at 1960.226 kb on + strand, within LRK54_RS09000at 1960.227 kb on - strand, within LRK54_RS09000at 1960.244 kb on + strand, within LRK54_RS09000at 1960.244 kb on + strand, within LRK54_RS09000at 1960.245 kb on - strand, within LRK54_RS09000at 1960.245 kb on - strand, within LRK54_RS09000at 1960.332 kb on + strand, within LRK54_RS09000at 1960.332 kb on + strand, within LRK54_RS09000at 1960.332 kb on + strand, within LRK54_RS09000at 1960.396 kb on + strand, within LRK54_RS09000at 1960.496 kb on + strand, within LRK54_RS09000at 1960.496 kb on + strand, within LRK54_RS09000at 1960.496 kb on + strand, within LRK54_RS09000at 1960.497 kb on - strand, within LRK54_RS09000at 1960.581 kb on + strand, within LRK54_RS09000at 1960.581 kb on + strand, within LRK54_RS09000at 1960.581 kb on + strand, within LRK54_RS09000at 1960.582 kb on - strand, within LRK54_RS09000at 1960.617 kb on + strand, within LRK54_RS09000at 1960.617 kb on + strand, within LRK54_RS09000at 1960.617 kb on + strand, within LRK54_RS09000at 1960.617 kb on + strand, within LRK54_RS09000at 1960.617 kb on + strand, within LRK54_RS09000at 1960.618 kb on - strand, within LRK54_RS09000at 1960.618 kb on - strand, within LRK54_RS09000at 1960.618 kb on - strand, within LRK54_RS09000at 1960.618 kb on - strand, within LRK54_RS09000at 1960.618 kb on - strand, within LRK54_RS09000at 1960.646 kb on + strand, within LRK54_RS09000at 1960.646 kb on + strand, within LRK54_RS09000at 1960.646 kb on + strand, within LRK54_RS09000at 1960.646 kb on + strand, within LRK54_RS09000at 1960.646 kb on + strand, within LRK54_RS09000at 1960.647 kb on - strand, within LRK54_RS09000at 1960.647 kb on - strand, within LRK54_RS09000at 1960.647 kb on - strand, within LRK54_RS09000at 1960.647 kb on - strand, within LRK54_RS09000at 1960.647 kb on - strand, within LRK54_RS09000at 1960.685 kb on + strand, within LRK54_RS09000at 1960.685 kb on + strand, within LRK54_RS09000at 1960.685 kb on + strand, within LRK54_RS09000at 1960.686 kb on - strand, within LRK54_RS09000at 1960.686 kb on - strand, within LRK54_RS09000at 1960.716 kb on + strand, within LRK54_RS09000at 1960.716 kb on + strand, within LRK54_RS09000at 1960.716 kb on + strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.717 kb on - strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.722 kb on + strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.723 kb on - strand, within LRK54_RS09000at 1960.743 kb on - strand, within LRK54_RS09000at 1960.750 kb on + strand, within LRK54_RS09000at 1960.750 kb on + strand, within LRK54_RS09000at 1960.904 kb on - strandat 1960.904 kb on - strandat 1960.904 kb on - strandat 1960.904 kb on - strandat 1960.927 kb on + strandat 1960.927 kb on + strandat 1960.927 kb on + strandat 1960.928 kb on - strandat 1960.928 kb on - strandat 1960.955 kb on - strandat 1960.962 kb on - strandat 1960.980 kb on + strandat 1960.980 kb on + strandat 1960.980 kb on + strandat 1960.980 kb on + strandat 1960.980 kb on + strandat 1960.981 kb on - strandat 1961.203 kb on + strand, within LRK54_RS09005at 1961.203 kb on + strand, within LRK54_RS09005at 1961.203 kb on + strand, within LRK54_RS09005at 1961.204 kb on - strand, within LRK54_RS09005at 1961.292 kb on - strand, within LRK54_RS09005at 1961.292 kb on - strand, within LRK54_RS09005at 1961.311 kb on + strand, within LRK54_RS09005at 1961.311 kb on + strand, within LRK54_RS09005at 1961.311 kb on + strand, within LRK54_RS09005at 1961.312 kb on - strand, within LRK54_RS09005at 1961.513 kb on - strand, within LRK54_RS09005at 1961.513 kb on - strand, within LRK54_RS09005at 1961.513 kb on - strand, within LRK54_RS09005at 1961.548 kb on + strandat 1961.549 kb on - strandat 1961.549 kb on - strandat 1961.549 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Chromium(III) Chloride Hexahydrate 0.09765625 mM
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1,958,716 + LRK54_RS08995 0.25 -1.6
1,958,717 - LRK54_RS08995 0.25 -0.4
1,958,717 - LRK54_RS08995 0.25 -0.4
1,958,903 + LRK54_RS08995 0.40 -0.7
1,958,903 + LRK54_RS08995 0.40 -0.4
1,958,903 + LRK54_RS08995 0.40 -1.5
1,958,903 + LRK54_RS08995 0.40 +1.6
1,958,903 + LRK54_RS08995 0.40 -0.9
1,958,904 - LRK54_RS08995 0.40 -1.9
1,958,904 - LRK54_RS08995 0.40 +0.6
1,958,904 - LRK54_RS08995 0.40 -0.1
1,958,904 - LRK54_RS08995 0.40 -1.4
1,958,904 - LRK54_RS08995 0.40 -0.5
1,959,095 + LRK54_RS08995 0.57 -0.4
1,959,177 + LRK54_RS08995 0.64 +0.2
1,959,178 - LRK54_RS08995 0.64 +0.6
1,959,201 + LRK54_RS08995 0.66 -1.2
1,959,201 + LRK54_RS08995 0.66 -0.0
1,959,202 - LRK54_RS08995 0.66 +1.2
1,959,202 - LRK54_RS08995 0.66 -0.5
1,959,208 - LRK54_RS08995 0.66 +0.2
1,959,208 - LRK54_RS08995 0.66 -0.1
1,959,363 + LRK54_RS08995 0.79 -2.0
1,959,363 + LRK54_RS08995 0.79 -0.9
1,959,364 - LRK54_RS08995 0.79 +0.3
1,959,364 - LRK54_RS08995 0.79 -0.8
1,959,364 - LRK54_RS08995 0.79 +0.4
1,959,364 - LRK54_RS08995 0.79 +1.3
1,959,364 - LRK54_RS08995 0.79 -0.6
1,959,678 + -0.5
1,959,678 + -2.5
1,959,678 + +0.6
1,959,679 - +0.1
1,959,679 - -1.1
1,959,679 - +2.9
1,959,780 - -0.6
1,959,892 + LRK54_RS09000 0.17 -0.5
1,959,892 + LRK54_RS09000 0.17 -2.6
1,959,892 + LRK54_RS09000 0.17 -0.9
1,959,941 + LRK54_RS09000 0.21 -1.0
1,959,941 + LRK54_RS09000 0.21 -0.1
1,959,941 + LRK54_RS09000 0.21 +1.6
1,960,065 - LRK54_RS09000 0.31 -0.1
1,960,125 + LRK54_RS09000 0.36 -0.5
1,960,125 + LRK54_RS09000 0.36 -1.0
1,960,126 - LRK54_RS09000 0.36 +0.4
1,960,126 - LRK54_RS09000 0.36 +0.6
1,960,126 - LRK54_RS09000 0.36 -0.1
1,960,126 - LRK54_RS09000 0.36 -0.2
1,960,126 - LRK54_RS09000 0.36 -2.1
1,960,126 - LRK54_RS09000 0.36 -0.7
1,960,126 - LRK54_RS09000 0.36 +1.6
1,960,162 + LRK54_RS09000 0.39 -0.2
1,960,206 - LRK54_RS09000 0.43 -1.0
1,960,226 + LRK54_RS09000 0.44 +0.6
1,960,226 + LRK54_RS09000 0.44 +1.6
1,960,226 + LRK54_RS09000 0.44 +0.4
1,960,227 - LRK54_RS09000 0.44 +0.6
1,960,244 + LRK54_RS09000 0.46 +0.2
1,960,244 + LRK54_RS09000 0.46 +0.6
1,960,245 - LRK54_RS09000 0.46 -0.7
1,960,245 - LRK54_RS09000 0.46 -1.8
1,960,332 + LRK54_RS09000 0.53 -0.4
1,960,332 + LRK54_RS09000 0.53 +0.2
1,960,332 + LRK54_RS09000 0.53 -0.9
1,960,396 + LRK54_RS09000 0.58 +0.4
1,960,496 + LRK54_RS09000 0.67 -1.4
1,960,496 + LRK54_RS09000 0.67 -0.8
1,960,496 + LRK54_RS09000 0.67 +0.1
1,960,497 - LRK54_RS09000 0.67 -0.5
1,960,581 + LRK54_RS09000 0.74 -2.5
1,960,581 + LRK54_RS09000 0.74 -2.2
1,960,581 + LRK54_RS09000 0.74 +0.6
1,960,582 - LRK54_RS09000 0.74 +0.6
1,960,617 + LRK54_RS09000 0.77 +0.2
1,960,617 + LRK54_RS09000 0.77 -1.9
1,960,617 + LRK54_RS09000 0.77 +0.2
1,960,617 + LRK54_RS09000 0.77 -0.7
1,960,617 + LRK54_RS09000 0.77 +0.1
1,960,618 - LRK54_RS09000 0.77 -1.5
1,960,618 - LRK54_RS09000 0.77 +0.4
1,960,618 - LRK54_RS09000 0.77 +3.2
1,960,618 - LRK54_RS09000 0.77 -1.0
1,960,618 - LRK54_RS09000 0.77 +0.2
1,960,646 + LRK54_RS09000 0.79 +1.6
1,960,646 + LRK54_RS09000 0.79 -0.4
1,960,646 + LRK54_RS09000 0.79 -0.5
1,960,646 + LRK54_RS09000 0.79 +0.9
1,960,646 + LRK54_RS09000 0.79 -1.8
1,960,647 - LRK54_RS09000 0.79 -1.7
1,960,647 - LRK54_RS09000 0.79 -0.1
1,960,647 - LRK54_RS09000 0.79 -1.1
1,960,647 - LRK54_RS09000 0.79 +0.3
1,960,647 - LRK54_RS09000 0.79 -0.8
1,960,685 + LRK54_RS09000 0.82 -1.9
1,960,685 + LRK54_RS09000 0.82 +1.2
1,960,685 + LRK54_RS09000 0.82 -0.9
1,960,686 - LRK54_RS09000 0.82 -0.8
1,960,686 - LRK54_RS09000 0.82 -1.4
1,960,716 + LRK54_RS09000 0.85 -1.4
1,960,716 + LRK54_RS09000 0.85 +1.6
1,960,716 + LRK54_RS09000 0.85 -0.6
1,960,717 - LRK54_RS09000 0.85 -1.9
1,960,717 - LRK54_RS09000 0.85 +1.2
1,960,717 - LRK54_RS09000 0.85 -0.6
1,960,717 - LRK54_RS09000 0.85 -0.7
1,960,717 - LRK54_RS09000 0.85 +0.4
1,960,717 - LRK54_RS09000 0.85 -2.8
1,960,717 - LRK54_RS09000 0.85 +0.2
1,960,722 + LRK54_RS09000 0.85 -0.2
1,960,722 + LRK54_RS09000 0.85 -0.4
1,960,722 + LRK54_RS09000 0.85 +0.4
1,960,722 + LRK54_RS09000 0.85 -1.6
1,960,722 + LRK54_RS09000 0.85 -0.5
1,960,722 + LRK54_RS09000 0.85 -1.6
1,960,722 + LRK54_RS09000 0.85 -1.5
1,960,722 + LRK54_RS09000 0.85 -0.1
1,960,722 + LRK54_RS09000 0.85 +0.6
1,960,722 + LRK54_RS09000 0.85 +0.9
1,960,723 - LRK54_RS09000 0.85 -0.6
1,960,723 - LRK54_RS09000 0.85 +0.2
1,960,723 - LRK54_RS09000 0.85 +1.2
1,960,723 - LRK54_RS09000 0.85 -1.1
1,960,723 - LRK54_RS09000 0.85 -0.7
1,960,723 - LRK54_RS09000 0.85 -1.5
1,960,723 - LRK54_RS09000 0.85 -1.9
1,960,723 - LRK54_RS09000 0.85 +1.6
1,960,723 - LRK54_RS09000 0.85 -0.9
1,960,743 - LRK54_RS09000 0.87 +0.9
1,960,750 + LRK54_RS09000 0.88 +0.2
1,960,750 + LRK54_RS09000 0.88 -0.5
1,960,904 - +0.9
1,960,904 - -0.4
1,960,904 - +2.2
1,960,904 - -0.8
1,960,927 + -1.5
1,960,927 + -0.8
1,960,927 + -1.8
1,960,928 - -0.1
1,960,928 - -0.4
1,960,955 - -1.5
1,960,962 - -1.7
1,960,980 + +0.9
1,960,980 + +1.2
1,960,980 + -0.9
1,960,980 + +0.6
1,960,980 + +2.2
1,960,981 - -0.4
1,961,203 + LRK54_RS09005 0.41 +0.1
1,961,203 + LRK54_RS09005 0.41 +0.3
1,961,203 + LRK54_RS09005 0.41 -2.2
1,961,204 - LRK54_RS09005 0.41 -2.6
1,961,292 - LRK54_RS09005 0.54 -0.9
1,961,292 - LRK54_RS09005 0.54 -1.7
1,961,311 + LRK54_RS09005 0.57 -1.1
1,961,311 + LRK54_RS09005 0.57 -2.1
1,961,311 + LRK54_RS09005 0.57 -2.2
1,961,312 - LRK54_RS09005 0.57 +1.2
1,961,513 - LRK54_RS09005 0.87 -0.2
1,961,513 - LRK54_RS09005 0.87 -2.8
1,961,513 - LRK54_RS09005 0.87 -0.8
1,961,548 + -0.7
1,961,549 - -0.2
1,961,549 - -2.7
1,961,549 - -1.4

Or see this region's nucleotide sequence