Strain Fitness in Rhodanobacter denitrificans MT42 around LRK55_RS04510

Experiment: R2A_PIPES pH 4.25

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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_RS04505 and LRK55_RS04510 are separated by 223 nucleotidesLRK55_RS04510 and LRK55_RS04515 are separated by 72 nucleotides LRK55_RS04505: LRK55_RS04505 - DsbC family protein, at 959,261 to 960,034 _RS04505 LRK55_RS04510: LRK55_RS04510 - Fe2+-dependent dioxygenase, at 960,258 to 960,932 _RS04510 LRK55_RS04515: LRK55_RS04515 - site-specific tyrosine recombinase XerD, at 961,005 to 961,922 _RS04515 Position (kb) 960 961Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 959.307 kb on + strandat 959.307 kb on + strandat 959.307 kb on + strandat 959.307 kb on + strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.308 kb on - strandat 959.337 kb on + strandat 959.337 kb on + strandat 959.338 kb on - strandat 959.338 kb on - strandat 959.338 kb on - strandat 959.338 kb on - strandat 959.338 kb on - strandat 959.496 kb on + strand, within LRK55_RS04505at 959.496 kb on + strand, within LRK55_RS04505at 959.496 kb on + strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.497 kb on - strand, within LRK55_RS04505at 959.553 kb on + strand, within LRK55_RS04505at 959.553 kb on + strand, within LRK55_RS04505at 959.553 kb on + strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.554 kb on - strand, within LRK55_RS04505at 959.649 kb on + strand, within LRK55_RS04505at 959.649 kb on + strand, within LRK55_RS04505at 959.650 kb on - strand, within LRK55_RS04505at 959.650 kb on - strand, within LRK55_RS04505at 959.650 kb on - strand, within LRK55_RS04505at 959.650 kb on - strand, within LRK55_RS04505at 959.650 kb on - strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.787 kb on + strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.788 kb on - strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.808 kb on + strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.809 kb on - strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.838 kb on + strand, within LRK55_RS04505at 959.839 kb on - strand, within LRK55_RS04505at 959.839 kb on - strand, within LRK55_RS04505at 959.839 kb on - strand, within LRK55_RS04505at 959.839 kb on - strand, within LRK55_RS04505at 960.162 kb on + strandat 960.162 kb on + strandat 960.163 kb on - strandat 960.163 kb on - strandat 960.307 kb on + strandat 960.307 kb on + strandat 960.307 kb on + strandat 960.308 kb on - strandat 960.308 kb on - strandat 960.517 kb on - strand, within LRK55_RS04510at 960.535 kb on - strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.630 kb on + strand, within LRK55_RS04510at 960.631 kb on - strand, within LRK55_RS04510at 960.631 kb on - strand, within LRK55_RS04510at 960.631 kb on - strand, within LRK55_RS04510at 960.631 kb on - strand, within LRK55_RS04510at 960.656 kb on + strand, within LRK55_RS04510at 960.673 kb on - strand, within LRK55_RS04510at 960.673 kb on - strand, within LRK55_RS04510at 960.790 kb on + strand, within LRK55_RS04510at 960.790 kb on + strand, within LRK55_RS04510at 960.791 kb on - strand, within LRK55_RS04510at 960.791 kb on - strand, within LRK55_RS04510at 960.930 kb on + strandat 960.930 kb on + strandat 960.930 kb on + strandat 960.930 kb on + strandat 960.930 kb on + strandat 960.930 kb on + strandat 960.930 kb on + strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.931 kb on - strandat 960.971 kb on + strandat 960.971 kb on + strandat 960.971 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.066 kb on + strandat 961.067 kb on - strandat 961.067 kb on - strandat 961.067 kb on - strandat 961.067 kb on - strandat 961.067 kb on - strandat 961.327 kb on + strand, within LRK55_RS04515at 961.327 kb on + strand, within LRK55_RS04515at 961.327 kb on + strand, within LRK55_RS04515at 961.327 kb on + strand, within LRK55_RS04515at 961.327 kb on + strand, within LRK55_RS04515at 961.327 kb on + strand, within LRK55_RS04515at 961.328 kb on - strand, within LRK55_RS04515at 961.328 kb on - strand, within LRK55_RS04515at 961.328 kb on - strand, within LRK55_RS04515at 961.328 kb on - strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.474 kb on + strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.475 kb on - strand, within LRK55_RS04515at 961.655 kb on - strand, within LRK55_RS04515at 961.657 kb on + strand, within LRK55_RS04515at 961.896 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A_PIPES pH 4.25
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959,307 + -1.8
959,307 + -1.9
959,307 + -2.4
959,307 + +1.5
959,308 - -2.3
959,308 - +0.5
959,308 - -1.2
959,308 - -0.4
959,308 - -0.3
959,308 - +0.8
959,308 - -0.7
959,337 + -1.3
959,337 + -0.1
959,338 - -3.0
959,338 - -2.4
959,338 - -0.6
959,338 - +0.3
959,338 - -2.2
959,496 + LRK55_RS04505 0.30 -2.4
959,496 + LRK55_RS04505 0.30 -0.8
959,496 + LRK55_RS04505 0.30 -0.1
959,497 - LRK55_RS04505 0.30 -0.3
959,497 - LRK55_RS04505 0.30 -1.8
959,497 - LRK55_RS04505 0.30 +0.4
959,497 - LRK55_RS04505 0.30 -2.0
959,497 - LRK55_RS04505 0.30 -3.8
959,497 - LRK55_RS04505 0.30 -0.7
959,497 - LRK55_RS04505 0.30 +0.5
959,553 + LRK55_RS04505 0.38 -0.3
959,553 + LRK55_RS04505 0.38 -3.8
959,553 + LRK55_RS04505 0.38 +0.3
959,554 - LRK55_RS04505 0.38 -1.5
959,554 - LRK55_RS04505 0.38 -0.3
959,554 - LRK55_RS04505 0.38 -1.3
959,554 - LRK55_RS04505 0.38 -0.4
959,554 - LRK55_RS04505 0.38 +0.9
959,554 - LRK55_RS04505 0.38 +0.8
959,649 + LRK55_RS04505 0.50 -2.1
959,649 + LRK55_RS04505 0.50 -0.7
959,650 - LRK55_RS04505 0.50 +1.0
959,650 - LRK55_RS04505 0.50 -0.2
959,650 - LRK55_RS04505 0.50 +0.2
959,650 - LRK55_RS04505 0.50 +2.1
959,650 - LRK55_RS04505 0.50 -0.9
959,787 + LRK55_RS04505 0.68 -1.3
959,787 + LRK55_RS04505 0.68 -1.3
959,787 + LRK55_RS04505 0.68 -0.7
959,787 + LRK55_RS04505 0.68 +0.1
959,787 + LRK55_RS04505 0.68 -0.8
959,787 + LRK55_RS04505 0.68 -0.0
959,787 + LRK55_RS04505 0.68 -1.9
959,787 + LRK55_RS04505 0.68 -1.1
959,787 + LRK55_RS04505 0.68 +1.0
959,788 - LRK55_RS04505 0.68 -1.5
959,788 - LRK55_RS04505 0.68 +0.5
959,788 - LRK55_RS04505 0.68 -2.3
959,788 - LRK55_RS04505 0.68 -1.4
959,788 - LRK55_RS04505 0.68 -1.2
959,788 - LRK55_RS04505 0.68 -2.5
959,788 - LRK55_RS04505 0.68 -1.9
959,788 - LRK55_RS04505 0.68 -1.2
959,788 - LRK55_RS04505 0.68 -2.9
959,788 - LRK55_RS04505 0.68 -0.9
959,788 - LRK55_RS04505 0.68 +1.7
959,788 - LRK55_RS04505 0.68 -3.6
959,788 - LRK55_RS04505 0.68 -3.6
959,788 - LRK55_RS04505 0.68 -0.4
959,808 + LRK55_RS04505 0.71 -1.5
959,808 + LRK55_RS04505 0.71 -1.7
959,808 + LRK55_RS04505 0.71 +0.1
959,808 + LRK55_RS04505 0.71 -0.5
959,808 + LRK55_RS04505 0.71 -1.1
959,808 + LRK55_RS04505 0.71 +0.0
959,808 + LRK55_RS04505 0.71 +0.8
959,808 + LRK55_RS04505 0.71 -2.2
959,808 + LRK55_RS04505 0.71 -2.1
959,809 - LRK55_RS04505 0.71 +0.2
959,809 - LRK55_RS04505 0.71 -1.0
959,809 - LRK55_RS04505 0.71 -1.9
959,809 - LRK55_RS04505 0.71 -2.2
959,809 - LRK55_RS04505 0.71 +0.0
959,809 - LRK55_RS04505 0.71 -1.3
959,838 + LRK55_RS04505 0.75 -1.2
959,838 + LRK55_RS04505 0.75 -0.5
959,838 + LRK55_RS04505 0.75 +0.3
959,838 + LRK55_RS04505 0.75 -0.3
959,838 + LRK55_RS04505 0.75 +1.2
959,838 + LRK55_RS04505 0.75 -0.5
959,839 - LRK55_RS04505 0.75 -2.0
959,839 - LRK55_RS04505 0.75 -0.9
959,839 - LRK55_RS04505 0.75 -1.1
959,839 - LRK55_RS04505 0.75 -0.3
960,162 + +0.6
960,162 + -3.0
960,163 - -0.1
960,163 - -0.5
960,307 + +0.2
960,307 + -0.1
960,307 + +1.9
960,308 - -0.4
960,308 - +0.3
960,517 - LRK55_RS04510 0.38 +1.2
960,535 - LRK55_RS04510 0.41 -0.9
960,630 + LRK55_RS04510 0.55 -2.6
960,630 + LRK55_RS04510 0.55 +0.5
960,630 + LRK55_RS04510 0.55 -2.7
960,630 + LRK55_RS04510 0.55 -1.1
960,630 + LRK55_RS04510 0.55 +0.9
960,630 + LRK55_RS04510 0.55 -1.3
960,630 + LRK55_RS04510 0.55 -1.8
960,631 - LRK55_RS04510 0.55 -2.9
960,631 - LRK55_RS04510 0.55 +1.6
960,631 - LRK55_RS04510 0.55 -0.4
960,631 - LRK55_RS04510 0.55 +1.7
960,656 + LRK55_RS04510 0.59 -1.4
960,673 - LRK55_RS04510 0.61 -0.4
960,673 - LRK55_RS04510 0.61 -0.3
960,790 + LRK55_RS04510 0.79 -0.7
960,790 + LRK55_RS04510 0.79 +1.4
960,791 - LRK55_RS04510 0.79 -2.1
960,791 - LRK55_RS04510 0.79 -1.3
960,930 + +0.8
960,930 + +1.9
960,930 + -2.2
960,930 + +2.2
960,930 + -2.4
960,930 + +0.7
960,930 + +2.0
960,931 - -2.8
960,931 - -0.6
960,931 - -2.5
960,931 - -1.5
960,931 - +2.2
960,931 - -2.5
960,931 - +0.8
960,931 - +1.4
960,931 - +0.2
960,931 - +1.3
960,931 - -0.4
960,931 - -0.7
960,971 + -0.8
960,971 + -2.9
960,971 + +0.1
961,066 + -0.9
961,066 + -1.3
961,066 + -2.5
961,066 + -3.0
961,066 + -2.7
961,066 + -0.7
961,066 + -1.5
961,067 - -0.7
961,067 - +2.2
961,067 - +1.3
961,067 - -0.9
961,067 - +1.3
961,327 + LRK55_RS04515 0.35 -0.9
961,327 + LRK55_RS04515 0.35 -1.1
961,327 + LRK55_RS04515 0.35 -1.9
961,327 + LRK55_RS04515 0.35 -1.1
961,327 + LRK55_RS04515 0.35 -1.8
961,327 + LRK55_RS04515 0.35 -3.1
961,328 - LRK55_RS04515 0.35 +1.7
961,328 - LRK55_RS04515 0.35 -3.0
961,328 - LRK55_RS04515 0.35 -1.5
961,328 - LRK55_RS04515 0.35 +0.8
961,474 + LRK55_RS04515 0.51 -1.4
961,474 + LRK55_RS04515 0.51 -0.3
961,474 + LRK55_RS04515 0.51 -0.7
961,474 + LRK55_RS04515 0.51 -0.7
961,474 + LRK55_RS04515 0.51 -2.0
961,474 + LRK55_RS04515 0.51 +0.9
961,474 + LRK55_RS04515 0.51 -1.8
961,474 + LRK55_RS04515 0.51 -0.7
961,475 - LRK55_RS04515 0.51 -1.7
961,475 - LRK55_RS04515 0.51 +0.3
961,475 - LRK55_RS04515 0.51 -1.1
961,475 - LRK55_RS04515 0.51 -0.7
961,475 - LRK55_RS04515 0.51 -1.9
961,475 - LRK55_RS04515 0.51 -2.5
961,475 - LRK55_RS04515 0.51 -1.7
961,475 - LRK55_RS04515 0.51 -3.4
961,475 - LRK55_RS04515 0.51 -2.3
961,475 - LRK55_RS04515 0.51 -1.5
961,655 - LRK55_RS04515 0.71 -3.0
961,657 + LRK55_RS04515 0.71 -2.8
961,896 - +0.5

Or see this region's nucleotide sequence