Strain Fitness in Rhodanobacter denitrificans MT42 around LRK55_RS00300

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_RS00290 and LRK55_RS00295 are separated by 54 nucleotidesLRK55_RS00295 and LRK55_RS00300 overlap by 4 nucleotidesLRK55_RS00300 and LRK55_RS00305 are separated by 121 nucleotides LRK55_RS00290: LRK55_RS00290 - hypothetical protein, at 53,820 to 54,038 _RS00290 LRK55_RS00295: LRK55_RS00295 - hypothetical protein, at 54,093 to 54,839 _RS00295 LRK55_RS00300: LRK55_RS00300 - RNA polymerase sigma factor, at 54,836 to 55,327 _RS00300 LRK55_RS00305: LRK55_RS00305 - S8 family serine peptidase, at 55,449 to 56,696 _RS00305 Position (kb) 54 55 56Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 53.952 kb on + strand, within LRK55_RS00290at 53.953 kb on - strand, within LRK55_RS00290at 53.953 kb on - strand, within LRK55_RS00290at 53.953 kb on - strand, within LRK55_RS00290at 53.953 kb on - strand, within LRK55_RS00290at 54.436 kb on + strand, within LRK55_RS00295at 54.436 kb on + strand, within LRK55_RS00295at 54.436 kb on + strand, within LRK55_RS00295at 54.436 kb on + strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.437 kb on - strand, within LRK55_RS00295at 54.459 kb on + strand, within LRK55_RS00295at 54.459 kb on + strand, within LRK55_RS00295at 54.460 kb on - strand, within LRK55_RS00295at 54.460 kb on - strand, within LRK55_RS00295at 54.460 kb on - strand, within LRK55_RS00295at 54.460 kb on - strand, within LRK55_RS00295at 54.460 kb on - strand, within LRK55_RS00295at 54.805 kb on + strandat 54.805 kb on + strandat 54.805 kb on + strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.806 kb on - strandat 54.939 kb on + strand, within LRK55_RS00300at 54.939 kb on + strand, within LRK55_RS00300at 54.940 kb on - strand, within LRK55_RS00300at 54.940 kb on - strand, within LRK55_RS00300at 55.148 kb on + strand, within LRK55_RS00300at 55.148 kb on + strand, within LRK55_RS00300at 55.342 kb on + strandat 55.342 kb on + strandat 55.342 kb on + strandat 55.342 kb on + strandat 55.342 kb on + strandat 55.342 kb on + strandat 55.343 kb on - strandat 55.343 kb on - strandat 55.343 kb on - strandat 55.397 kb on + strandat 55.398 kb on - strandat 55.398 kb on - strandat 55.398 kb on - strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.413 kb on + strandat 55.414 kb on - strandat 55.414 kb on - strandat 55.414 kb on - strandat 55.414 kb on - strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.567 kb on + strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.568 kb on - strandat 55.880 kb on + strand, within LRK55_RS00305at 55.881 kb on - strand, within LRK55_RS00305at 55.881 kb on - strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.935 kb on + strand, within LRK55_RS00305at 55.936 kb on - strand, within LRK55_RS00305at 55.936 kb on - strand, within LRK55_RS00305at 55.936 kb on - strand, within LRK55_RS00305at 55.936 kb on - strand, within LRK55_RS00305at 55.936 kb on - strand, within LRK55_RS00305at 55.947 kb on + strand, within LRK55_RS00305at 55.947 kb on + strand, within LRK55_RS00305at 55.947 kb on + strand, within LRK55_RS00305at 55.947 kb on + strand, within LRK55_RS00305at 55.948 kb on - strand, within LRK55_RS00305at 55.948 kb on - strand, within LRK55_RS00305at 55.948 kb on - strand, within LRK55_RS00305at 55.948 kb on - strand, within LRK55_RS00305at 55.948 kb on - strand, within LRK55_RS00305at 56.172 kb on + strand, within LRK55_RS00305at 56.172 kb on + strand, within LRK55_RS00305at 56.172 kb on + strand, within LRK55_RS00305at 56.172 kb on + strand, within LRK55_RS00305at 56.173 kb on - strand, within LRK55_RS00305

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A_PIPES pH 4.25
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53,952 + LRK55_RS00290 0.60 +0.6
53,953 - LRK55_RS00290 0.61 +2.2
53,953 - LRK55_RS00290 0.61 +1.9
53,953 - LRK55_RS00290 0.61 -1.7
53,953 - LRK55_RS00290 0.61 +1.4
54,436 + LRK55_RS00295 0.46 -1.8
54,436 + LRK55_RS00295 0.46 -3.0
54,436 + LRK55_RS00295 0.46 -1.8
54,436 + LRK55_RS00295 0.46 -0.7
54,437 - LRK55_RS00295 0.46 -2.0
54,437 - LRK55_RS00295 0.46 -2.2
54,437 - LRK55_RS00295 0.46 -1.9
54,437 - LRK55_RS00295 0.46 -1.8
54,437 - LRK55_RS00295 0.46 -1.8
54,437 - LRK55_RS00295 0.46 -0.6
54,459 + LRK55_RS00295 0.49 -2.4
54,459 + LRK55_RS00295 0.49 +0.0
54,460 - LRK55_RS00295 0.49 -1.1
54,460 - LRK55_RS00295 0.49 -1.4
54,460 - LRK55_RS00295 0.49 -3.3
54,460 - LRK55_RS00295 0.49 -1.0
54,460 - LRK55_RS00295 0.49 -2.8
54,805 + -1.2
54,805 + -1.5
54,805 + -1.2
54,806 - -1.4
54,806 - -2.5
54,806 - -2.7
54,806 - -1.2
54,806 - -1.8
54,806 - -0.7
54,806 - -1.4
54,806 - -2.1
54,806 - -1.2
54,939 + LRK55_RS00300 0.21 +2.2
54,939 + LRK55_RS00300 0.21 -1.4
54,940 - LRK55_RS00300 0.21 -0.8
54,940 - LRK55_RS00300 0.21 -0.5
55,148 + LRK55_RS00300 0.63 +0.8
55,148 + LRK55_RS00300 0.63 -2.8
55,342 + -0.1
55,342 + +3.0
55,342 + +0.6
55,342 + -0.4
55,342 + +1.6
55,342 + -0.8
55,343 - -0.7
55,343 - +1.9
55,343 - +0.6
55,397 + +0.6
55,398 - -1.2
55,398 - +1.1
55,398 - -1.0
55,413 + +0.6
55,413 + +0.7
55,413 + +1.7
55,413 + -1.4
55,413 + -1.1
55,413 + +2.4
55,413 + -1.9
55,413 + -1.6
55,413 + -1.0
55,413 + +1.5
55,413 + +0.2
55,414 - +0.9
55,414 - -0.8
55,414 - -2.1
55,414 - -0.2
55,567 + -3.2
55,567 + -1.2
55,567 + +0.3
55,567 + +3.6
55,567 + -0.1
55,567 + -3.1
55,567 + -1.5
55,567 + -1.0
55,567 + +0.1
55,567 + -2.9
55,567 + -0.6
55,567 + +0.7
55,567 + +0.6
55,567 + -1.7
55,567 + -1.2
55,568 - +0.1
55,568 - +0.6
55,568 - -1.4
55,568 - +1.4
55,568 - -3.4
55,568 - -0.4
55,568 - -0.0
55,880 + LRK55_RS00305 0.35 +0.9
55,881 - LRK55_RS00305 0.35 +1.9
55,881 - LRK55_RS00305 0.35 -0.7
55,935 + LRK55_RS00305 0.39 +1.4
55,935 + LRK55_RS00305 0.39 +1.5
55,935 + LRK55_RS00305 0.39 +1.0
55,935 + LRK55_RS00305 0.39 -0.4
55,935 + LRK55_RS00305 0.39 +0.6
55,935 + LRK55_RS00305 0.39 -2.0
55,935 + LRK55_RS00305 0.39 +0.8
55,935 + LRK55_RS00305 0.39 +0.2
55,935 + LRK55_RS00305 0.39 -2.6
55,935 + LRK55_RS00305 0.39 -1.0
55,935 + LRK55_RS00305 0.39 +1.0
55,936 - LRK55_RS00305 0.39 +0.8
55,936 - LRK55_RS00305 0.39 -2.2
55,936 - LRK55_RS00305 0.39 -1.4
55,936 - LRK55_RS00305 0.39 +1.4
55,936 - LRK55_RS00305 0.39 -2.2
55,947 + LRK55_RS00305 0.40 -1.0
55,947 + LRK55_RS00305 0.40 +2.0
55,947 + LRK55_RS00305 0.40 +0.9
55,947 + LRK55_RS00305 0.40 -2.4
55,948 - LRK55_RS00305 0.40 -2.1
55,948 - LRK55_RS00305 0.40 -0.7
55,948 - LRK55_RS00305 0.40 +2.8
55,948 - LRK55_RS00305 0.40 -0.4
55,948 - LRK55_RS00305 0.40 +2.5
56,172 + LRK55_RS00305 0.58 +1.2
56,172 + LRK55_RS00305 0.58 -2.5
56,172 + LRK55_RS00305 0.58 +0.2
56,172 + LRK55_RS00305 0.58 -1.9
56,173 - LRK55_RS00305 0.58 +0.6

Or see this region's nucleotide sequence