Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1962.1

Experiment: Xylemvessel barcodes Location 3 4 dpi (25 plantes)

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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 ntXcc-8004.1960.1 and Xcc-8004.1961.1 are separated by 39 nucleotidesXcc-8004.1961.1 and Xcc-8004.1962.1 overlap by 4 nucleotidesXcc-8004.1962.1 and Xcc-8004.1963.1 are separated by 250 nucleotides Xcc-8004.1960.1: Xcc-8004.1960.1 - Glyoxalase family protein, at 1,890,809 to 1,891,189 Xcc-8004.1960.1 Xcc-8004.1961.1: Xcc-8004.1961.1 - tRNA pseudouridine synthase A (EC 4.2.1.70), at 1,891,229 to 1,892,002 Xcc-8004.1961.1 Xcc-8004.1962.1: Xcc-8004.1962.1 - Phosphoribosylanthranilate isomerase (EC 5.3.1.24), at 1,891,999 to 1,892,667 Xcc-8004.1962.1 Xcc-8004.1963.1: Xcc-8004.1963.1 - D-serine dehydratase transcriptional activator, at 1,892,918 to 1,893,814 Xcc-8004.1963.1 Position (kb) 1891 1892 1893Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.037 kb on + strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.038 kb on - strand, within Xcc-8004.1960.1at 1891.187 kb on + strandat 1891.188 kb on - strandat 1891.235 kb on + strandat 1891.825 kb on + strand, within Xcc-8004.1961.1at 1891.826 kb on - strand, within Xcc-8004.1961.1at 1891.826 kb on - strand, within Xcc-8004.1961.1at 1891.826 kb on - strand, within Xcc-8004.1961.1at 1892.308 kb on + strand, within Xcc-8004.1962.1at 1892.308 kb on + strand, within Xcc-8004.1962.1at 1892.309 kb on - strand, within Xcc-8004.1962.1at 1892.309 kb on - strand, within Xcc-8004.1962.1at 1892.666 kb on - strandat 1892.703 kb on + strandat 1892.704 kb on - strandat 1892.795 kb on - strandat 1892.901 kb on + strandat 1892.901 kb on + strandat 1892.902 kb on - strandat 1892.902 kb on - strandat 1893.028 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.229 kb on + strand, within Xcc-8004.1963.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylemvessel barcodes Location 3 4 dpi (25 plantes)
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1,891,037 + Xcc-8004.1960.1 0.60 +2.2
1,891,037 + Xcc-8004.1960.1 0.60 -1.2
1,891,037 + Xcc-8004.1960.1 0.60 -1.0
1,891,037 + Xcc-8004.1960.1 0.60 -1.4
1,891,037 + Xcc-8004.1960.1 0.60 -1.9
1,891,037 + Xcc-8004.1960.1 0.60 -1.0
1,891,037 + Xcc-8004.1960.1 0.60 +1.2
1,891,037 + Xcc-8004.1960.1 0.60 -1.5
1,891,037 + Xcc-8004.1960.1 0.60 -1.2
1,891,037 + Xcc-8004.1960.1 0.60 -0.8
1,891,038 - Xcc-8004.1960.1 0.60 -0.3
1,891,038 - Xcc-8004.1960.1 0.60 -1.3
1,891,038 - Xcc-8004.1960.1 0.60 -0.7
1,891,038 - Xcc-8004.1960.1 0.60 -0.7
1,891,038 - Xcc-8004.1960.1 0.60 -0.8
1,891,038 - Xcc-8004.1960.1 0.60 -0.8
1,891,038 - Xcc-8004.1960.1 0.60 +0.3
1,891,038 - Xcc-8004.1960.1 0.60 -0.2
1,891,187 + +0.7
1,891,188 - +1.6
1,891,235 + +1.9
1,891,825 + Xcc-8004.1961.1 0.77 -1.5
1,891,826 - Xcc-8004.1961.1 0.77 +0.2
1,891,826 - Xcc-8004.1961.1 0.77 -0.1
1,891,826 - Xcc-8004.1961.1 0.77 +0.6
1,892,308 + Xcc-8004.1962.1 0.46 -0.4
1,892,308 + Xcc-8004.1962.1 0.46 +0.6
1,892,309 - Xcc-8004.1962.1 0.46 -3.1
1,892,309 - Xcc-8004.1962.1 0.46 -2.7
1,892,666 - +0.8
1,892,703 + -0.2
1,892,704 - +1.1
1,892,795 - -1.8
1,892,901 + -0.4
1,892,901 + -2.0
1,892,902 - -0.9
1,892,902 - +0.6
1,893,028 + Xcc-8004.1963.1 0.12 +1.1
1,893,132 + Xcc-8004.1963.1 0.24 -2.9
1,893,132 + Xcc-8004.1963.1 0.24 +0.6
1,893,132 + Xcc-8004.1963.1 0.24 -0.4
1,893,132 + Xcc-8004.1963.1 0.24 +0.3
1,893,132 + Xcc-8004.1963.1 0.24 -1.0
1,893,132 + Xcc-8004.1963.1 0.24 -0.9
1,893,132 + Xcc-8004.1963.1 0.24 +0.8
1,893,132 + Xcc-8004.1963.1 0.24 +2.3
1,893,132 + Xcc-8004.1963.1 0.24 -1.2
1,893,132 + Xcc-8004.1963.1 0.24 +0.6
1,893,132 + Xcc-8004.1963.1 0.24 -1.7
1,893,132 + Xcc-8004.1963.1 0.24 -2.5
1,893,133 - Xcc-8004.1963.1 0.24 -0.4
1,893,133 - Xcc-8004.1963.1 0.24 +1.1
1,893,133 - Xcc-8004.1963.1 0.24 -2.2
1,893,133 - Xcc-8004.1963.1 0.24 +1.3
1,893,133 - Xcc-8004.1963.1 0.24 -0.0
1,893,133 - Xcc-8004.1963.1 0.24 +0.3
1,893,133 - Xcc-8004.1963.1 0.24 +1.2
1,893,133 - Xcc-8004.1963.1 0.24 +0.7
1,893,133 - Xcc-8004.1963.1 0.24 +1.0
1,893,229 + Xcc-8004.1963.1 0.35 +1.7

Or see this region's nucleotide sequence