Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1960.1

Experiment: Xylemvessel barcodes Location 2 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-8004.1959.1 and Xcc-8004.1960.1 overlap by 4 nucleotidesXcc-8004.1960.1 and Xcc-8004.1961.1 are separated by 39 nucleotidesXcc-8004.1961.1 and Xcc-8004.1962.1 overlap by 4 nucleotides Xcc-8004.1959.1: Xcc-8004.1959.1 - hypothetical protein, at 1,888,755 to 1,890,812 Xcc-8004.1959.1 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 Position (kb) 1890 1891 1892Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1889.816 kb on + strand, within Xcc-8004.1959.1at 1890.511 kb on + strand, within Xcc-8004.1959.1at 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.699 kb on + strandat 1890.700 kb on - strandat 1890.700 kb on - strandat 1890.700 kb on - strandat 1890.700 kb on - strandat 1890.857 kb on + strand, within Xcc-8004.1960.1at 1890.857 kb on + strand, within Xcc-8004.1960.1at 1890.857 kb on + strand, within Xcc-8004.1960.1at 1890.858 kb on - strand, within Xcc-8004.1960.1at 1890.858 kb on - strand, within Xcc-8004.1960.1at 1890.858 kb on - strand, within Xcc-8004.1960.1at 1890.935 kb on + strand, within Xcc-8004.1960.1at 1890.935 kb on + strand, within Xcc-8004.1960.1at 1890.935 kb on + strand, within Xcc-8004.1960.1at 1890.935 kb on + strand, within Xcc-8004.1960.1at 1890.947 kb on + strand, within Xcc-8004.1960.1at 1890.947 kb on + strand, within Xcc-8004.1960.1at 1890.947 kb on + strand, within Xcc-8004.1960.1at 1890.947 kb on + strand, within Xcc-8004.1960.1at 1890.947 kb on + strand, within Xcc-8004.1960.1at 1890.948 kb on - strand, within Xcc-8004.1960.1at 1890.948 kb on - strand, within Xcc-8004.1960.1at 1890.948 kb on - strand, within Xcc-8004.1960.1at 1890.948 kb on - strand, within Xcc-8004.1960.1at 1890.987 kb on - strand, within Xcc-8004.1960.1at 1890.987 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 1891.037 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-8004.1961.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylemvessel barcodes Location 2 4 dpi (25 plantes)
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1,889,816 + Xcc-8004.1959.1 0.52 -0.6
1,890,511 + Xcc-8004.1959.1 0.85 +1.3
1,890,699 + +0.3
1,890,699 + -0.9
1,890,699 + +0.2
1,890,699 + +0.1
1,890,699 + -1.6
1,890,699 + -2.0
1,890,699 + +0.6
1,890,699 + +2.0
1,890,699 + -1.2
1,890,699 + -1.6
1,890,699 + -0.9
1,890,700 - +1.5
1,890,700 - -0.6
1,890,700 - +0.5
1,890,700 - +1.5
1,890,857 + Xcc-8004.1960.1 0.13 -1.4
1,890,857 + Xcc-8004.1960.1 0.13 -2.1
1,890,857 + Xcc-8004.1960.1 0.13 -1.1
1,890,858 - Xcc-8004.1960.1 0.13 -0.6
1,890,858 - Xcc-8004.1960.1 0.13 -2.5
1,890,858 - Xcc-8004.1960.1 0.13 +0.9
1,890,935 + Xcc-8004.1960.1 0.33 +0.4
1,890,935 + Xcc-8004.1960.1 0.33 +0.2
1,890,935 + Xcc-8004.1960.1 0.33 -1.7
1,890,935 + Xcc-8004.1960.1 0.33 -0.5
1,890,947 + Xcc-8004.1960.1 0.36 -0.5
1,890,947 + Xcc-8004.1960.1 0.36 +0.2
1,890,947 + Xcc-8004.1960.1 0.36 +1.1
1,890,947 + Xcc-8004.1960.1 0.36 +0.6
1,890,947 + Xcc-8004.1960.1 0.36 -0.2
1,890,948 - Xcc-8004.1960.1 0.36 +0.4
1,890,948 - Xcc-8004.1960.1 0.36 -0.2
1,890,948 - Xcc-8004.1960.1 0.36 +0.5
1,890,948 - Xcc-8004.1960.1 0.36 +0.4
1,890,987 - Xcc-8004.1960.1 0.47 -0.5
1,890,987 - Xcc-8004.1960.1 0.47 +0.7
1,891,037 + Xcc-8004.1960.1 0.60 -0.1
1,891,037 + Xcc-8004.1960.1 0.60 +0.1
1,891,037 + Xcc-8004.1960.1 0.60 +3.1
1,891,037 + Xcc-8004.1960.1 0.60 -0.2
1,891,037 + Xcc-8004.1960.1 0.60 +0.3
1,891,037 + Xcc-8004.1960.1 0.60 +0.7
1,891,037 + Xcc-8004.1960.1 0.60 -0.7
1,891,037 + Xcc-8004.1960.1 0.60 -0.2
1,891,037 + Xcc-8004.1960.1 0.60 +0.8
1,891,037 + Xcc-8004.1960.1 0.60 -0.7
1,891,038 - Xcc-8004.1960.1 0.60 -2.5
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 +0.4
1,891,038 - Xcc-8004.1960.1 0.60 -0.2
1,891,038 - Xcc-8004.1960.1 0.60 -0.4
1,891,038 - Xcc-8004.1960.1 0.60 -0.6
1,891,038 - Xcc-8004.1960.1 0.60 +1.0
1,891,187 + -0.8
1,891,188 - +1.0
1,891,235 + +0.1
1,891,825 + Xcc-8004.1961.1 0.77 -0.3
1,891,826 - Xcc-8004.1961.1 0.77 -1.4
1,891,826 - Xcc-8004.1961.1 0.77 +0.4
1,891,826 - Xcc-8004.1961.1 0.77 +1.3

Or see this region's nucleotide sequence