Strain Fitness in Rhodanobacter denitrificans MT42 around LRK55_RS04000

Experiment: R2A with Nickel (II) chloride 1696 uM

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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 ntLRK55_RS03995 and LRK55_RS04000 are separated by 146 nucleotidesLRK55_RS04000 and LRK55_RS04005 overlap by 8 nucleotidesLRK55_RS04005 and LRK55_RS04010 are separated by 145 nucleotides LRK55_RS03995: LRK55_RS03995 - hypothetical protein, at 847,815 to 849,599 _RS03995 LRK55_RS04000: LRK55_RS04000 - HAMP domain-containing sensor histidine kinase, at 849,746 to 851,014 _RS04000 LRK55_RS04005: LRK55_RS04005 - response regulator transcription factor, at 851,007 to 851,699 _RS04005 LRK55_RS04010: LRK55_RS04010 - TonB-dependent siderophore receptor, at 851,845 to 854,055 _RS04010 Position (kb) 849 850 851 852Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 849.029 kb on - strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.345 kb on + strand, within LRK55_RS03995at 849.346 kb on - strand, within LRK55_RS03995at 849.346 kb on - strand, within LRK55_RS03995at 849.346 kb on - strand, within LRK55_RS03995at 849.346 kb on - strand, within LRK55_RS03995at 849.598 kb on - strandat 849.598 kb on - strandat 849.747 kb on + strandat 849.748 kb on - strandat 849.836 kb on + strandat 849.836 kb on + strandat 849.836 kb on + strandat 849.836 kb on + strandat 849.836 kb on + strandat 849.836 kb on + strandat 849.837 kb on - strandat 849.837 kb on - strandat 849.837 kb on - strandat 849.837 kb on - strandat 849.837 kb on - strandat 849.894 kb on + strand, within LRK55_RS04000at 849.895 kb on - strand, within LRK55_RS04000at 849.895 kb on - strand, within LRK55_RS04000at 849.895 kb on - strand, within LRK55_RS04000at 850.082 kb on + strand, within LRK55_RS04000at 850.082 kb on + strand, within LRK55_RS04000at 850.083 kb on - strand, within LRK55_RS04000at 850.133 kb on + strand, within LRK55_RS04000at 850.133 kb on + strand, within LRK55_RS04000at 850.133 kb on + strand, within LRK55_RS04000at 850.133 kb on + strand, within LRK55_RS04000at 850.133 kb on + strand, within LRK55_RS04000at 850.134 kb on - strand, within LRK55_RS04000at 850.134 kb on - strand, within LRK55_RS04000at 850.134 kb on - strand, within LRK55_RS04000at 850.134 kb on - strand, within LRK55_RS04000at 850.134 kb on - strand, within LRK55_RS04000at 850.266 kb on + strand, within LRK55_RS04000at 850.266 kb on + strand, within LRK55_RS04000at 850.267 kb on - strand, within LRK55_RS04000at 850.267 kb on - strand, within LRK55_RS04000at 850.267 kb on - strand, within LRK55_RS04000at 850.363 kb on + strand, within LRK55_RS04000at 850.364 kb on - strand, within LRK55_RS04000at 850.413 kb on + strand, within LRK55_RS04000at 850.413 kb on + strand, within LRK55_RS04000at 850.413 kb on + strand, within LRK55_RS04000at 850.414 kb on - strand, within LRK55_RS04000at 850.414 kb on - strand, within LRK55_RS04000at 850.414 kb on - strand, within LRK55_RS04000at 850.649 kb on + strand, within LRK55_RS04000at 850.649 kb on + strand, within LRK55_RS04000at 850.650 kb on - strand, within LRK55_RS04000at 850.650 kb on - strand, within LRK55_RS04000at 850.650 kb on - strand, within LRK55_RS04000at 850.650 kb on - strand, within LRK55_RS04000at 850.650 kb on - strand, within LRK55_RS04000at 850.795 kb on - strand, within LRK55_RS04000at 850.795 kb on - strand, within LRK55_RS04000at 850.828 kb on - strand, within LRK55_RS04000at 850.828 kb on - strand, within LRK55_RS04000at 850.924 kb on - strandat 850.924 kb on - strandat 850.929 kb on + strandat 850.930 kb on - strandat 850.962 kb on + strandat 850.962 kb on + strandat 850.962 kb on + strandat 850.962 kb on + strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 850.963 kb on - strandat 851.008 kb on + strandat 851.110 kb on + strand, within LRK55_RS04005at 851.110 kb on + strand, within LRK55_RS04005at 851.110 kb on + strand, within LRK55_RS04005at 851.110 kb on + strand, within LRK55_RS04005at 851.111 kb on - strand, within LRK55_RS04005at 851.111 kb on - strand, within LRK55_RS04005at 851.111 kb on - strand, within LRK55_RS04005at 851.111 kb on - strand, within LRK55_RS04005at 851.111 kb on - strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.220 kb on + strand, within LRK55_RS04005at 851.221 kb on - strand, within LRK55_RS04005at 851.221 kb on - strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.285 kb on + strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.286 kb on - strand, within LRK55_RS04005at 851.401 kb on + strand, within LRK55_RS04005at 851.401 kb on + strand, within LRK55_RS04005at 851.402 kb on - strand, within LRK55_RS04005at 851.402 kb on - strand, within LRK55_RS04005at 851.560 kb on + strand, within LRK55_RS04005at 851.560 kb on + strand, within LRK55_RS04005at 851.561 kb on - strand, within LRK55_RS04005at 851.561 kb on - strand, within LRK55_RS04005at 851.618 kb on + strand, within LRK55_RS04005at 851.618 kb on + strand, within LRK55_RS04005at 851.618 kb on + strand, within LRK55_RS04005at 851.618 kb on + strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.619 kb on - strand, within LRK55_RS04005at 851.621 kb on - strand, within LRK55_RS04005at 851.704 kb on - strandat 851.830 kb on + strandat 851.830 kb on + strandat 851.831 kb on - strandat 851.834 kb on - strandat 851.834 kb on - strandat 851.957 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Nickel (II) chloride 1696 uM
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849,029 - LRK55_RS03995 0.68 -0.9
849,345 + LRK55_RS03995 0.86 +0.0
849,345 + LRK55_RS03995 0.86 +0.7
849,345 + LRK55_RS03995 0.86 +1.7
849,345 + LRK55_RS03995 0.86 +0.6
849,345 + LRK55_RS03995 0.86 +1.6
849,345 + LRK55_RS03995 0.86 -1.0
849,346 - LRK55_RS03995 0.86 +0.7
849,346 - LRK55_RS03995 0.86 +1.3
849,346 - LRK55_RS03995 0.86 +0.8
849,346 - LRK55_RS03995 0.86 +0.4
849,598 - +0.6
849,598 - -0.2
849,747 + -2.0
849,748 - +0.4
849,836 + -2.6
849,836 + -1.6
849,836 + +1.3
849,836 + -2.1
849,836 + -0.4
849,836 + -3.4
849,837 - -3.1
849,837 - -3.3
849,837 - -2.6
849,837 - -2.4
849,837 - -0.7
849,894 + LRK55_RS04000 0.12 -0.1
849,895 - LRK55_RS04000 0.12 -2.4
849,895 - LRK55_RS04000 0.12 -2.6
849,895 - LRK55_RS04000 0.12 -1.5
850,082 + LRK55_RS04000 0.26 -1.4
850,082 + LRK55_RS04000 0.26 -2.1
850,083 - LRK55_RS04000 0.27 -2.1
850,133 + LRK55_RS04000 0.30 -2.4
850,133 + LRK55_RS04000 0.30 -1.5
850,133 + LRK55_RS04000 0.30 -1.7
850,133 + LRK55_RS04000 0.30 -1.1
850,133 + LRK55_RS04000 0.30 -1.5
850,134 - LRK55_RS04000 0.31 -4.5
850,134 - LRK55_RS04000 0.31 -3.4
850,134 - LRK55_RS04000 0.31 -1.8
850,134 - LRK55_RS04000 0.31 -2.0
850,134 - LRK55_RS04000 0.31 +0.8
850,266 + LRK55_RS04000 0.41 -1.4
850,266 + LRK55_RS04000 0.41 -3.4
850,267 - LRK55_RS04000 0.41 -1.9
850,267 - LRK55_RS04000 0.41 -0.5
850,267 - LRK55_RS04000 0.41 -1.5
850,363 + LRK55_RS04000 0.49 -1.6
850,364 - LRK55_RS04000 0.49 -1.2
850,413 + LRK55_RS04000 0.53 -1.0
850,413 + LRK55_RS04000 0.53 -2.4
850,413 + LRK55_RS04000 0.53 -0.7
850,414 - LRK55_RS04000 0.53 -0.8
850,414 - LRK55_RS04000 0.53 -0.8
850,414 - LRK55_RS04000 0.53 -2.4
850,649 + LRK55_RS04000 0.71 -3.7
850,649 + LRK55_RS04000 0.71 -4.2
850,650 - LRK55_RS04000 0.71 -0.4
850,650 - LRK55_RS04000 0.71 -1.7
850,650 - LRK55_RS04000 0.71 -2.0
850,650 - LRK55_RS04000 0.71 -1.2
850,650 - LRK55_RS04000 0.71 -2.8
850,795 - LRK55_RS04000 0.83 -0.7
850,795 - LRK55_RS04000 0.83 -2.1
850,828 - LRK55_RS04000 0.85 -1.2
850,828 - LRK55_RS04000 0.85 -1.4
850,924 - -3.6
850,924 - -1.0
850,929 + -2.9
850,930 - -2.0
850,962 + +0.3
850,962 + -2.0
850,962 + -3.1
850,962 + -1.0
850,963 - -2.1
850,963 - -0.7
850,963 - -1.0
850,963 - -1.0
850,963 - -1.6
850,963 - -2.1
850,963 - -1.4
850,963 - -1.7
851,008 + -1.9
851,110 + LRK55_RS04005 0.15 +0.0
851,110 + LRK55_RS04005 0.15 -1.2
851,110 + LRK55_RS04005 0.15 -2.8
851,110 + LRK55_RS04005 0.15 -1.8
851,111 - LRK55_RS04005 0.15 -2.7
851,111 - LRK55_RS04005 0.15 -0.2
851,111 - LRK55_RS04005 0.15 -1.2
851,111 - LRK55_RS04005 0.15 +1.3
851,111 - LRK55_RS04005 0.15 -1.7
851,220 + LRK55_RS04005 0.31 -0.9
851,220 + LRK55_RS04005 0.31 -2.9
851,220 + LRK55_RS04005 0.31 -2.1
851,220 + LRK55_RS04005 0.31 -2.1
851,220 + LRK55_RS04005 0.31 -1.2
851,220 + LRK55_RS04005 0.31 -2.3
851,220 + LRK55_RS04005 0.31 -2.3
851,220 + LRK55_RS04005 0.31 -3.4
851,220 + LRK55_RS04005 0.31 -3.6
851,220 + LRK55_RS04005 0.31 -1.5
851,220 + LRK55_RS04005 0.31 -3.7
851,221 - LRK55_RS04005 0.31 -1.8
851,221 - LRK55_RS04005 0.31 -0.5
851,285 + LRK55_RS04005 0.40 -1.2
851,285 + LRK55_RS04005 0.40 -3.7
851,285 + LRK55_RS04005 0.40 -2.5
851,285 + LRK55_RS04005 0.40 +0.0
851,285 + LRK55_RS04005 0.40 +0.5
851,285 + LRK55_RS04005 0.40 -3.7
851,285 + LRK55_RS04005 0.40 -1.2
851,285 + LRK55_RS04005 0.40 -2.3
851,285 + LRK55_RS04005 0.40 -3.5
851,286 - LRK55_RS04005 0.40 -3.8
851,286 - LRK55_RS04005 0.40 -0.7
851,286 - LRK55_RS04005 0.40 -0.5
851,286 - LRK55_RS04005 0.40 -1.9
851,286 - LRK55_RS04005 0.40 -3.1
851,286 - LRK55_RS04005 0.40 -1.5
851,286 - LRK55_RS04005 0.40 -1.7
851,286 - LRK55_RS04005 0.40 -3.1
851,286 - LRK55_RS04005 0.40 -0.8
851,286 - LRK55_RS04005 0.40 -1.3
851,401 + LRK55_RS04005 0.57 -2.5
851,401 + LRK55_RS04005 0.57 -1.1
851,402 - LRK55_RS04005 0.57 -3.0
851,402 - LRK55_RS04005 0.57 -2.7
851,560 + LRK55_RS04005 0.80 -2.3
851,560 + LRK55_RS04005 0.80 -1.5
851,561 - LRK55_RS04005 0.80 +0.3
851,561 - LRK55_RS04005 0.80 -1.7
851,618 + LRK55_RS04005 0.88 -1.8
851,618 + LRK55_RS04005 0.88 -2.4
851,618 + LRK55_RS04005 0.88 -1.9
851,618 + LRK55_RS04005 0.88 -2.1
851,619 - LRK55_RS04005 0.88 -2.3
851,619 - LRK55_RS04005 0.88 -0.9
851,619 - LRK55_RS04005 0.88 -1.7
851,619 - LRK55_RS04005 0.88 -2.4
851,619 - LRK55_RS04005 0.88 -2.8
851,619 - LRK55_RS04005 0.88 -2.7
851,621 - LRK55_RS04005 0.89 -2.8
851,704 - -0.9
851,830 + -0.2
851,830 + -0.1
851,831 - -2.4
851,834 - -1.8
851,834 - -1.0
851,957 - -0.2

Or see this region's nucleotide sequence