Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.399.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant

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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-8004.398.1 and Xcc-8004.399.1 are separated by 276 nucleotidesXcc-8004.399.1 and Xcc-8004.400.1 are separated by 115 nucleotides Xcc-8004.398.1: Xcc-8004.398.1 - Conditioned medium factor, at 383,761 to 385,722 Xcc-8004.398.1 Xcc-8004.399.1: Xcc-8004.399.1 - 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20), at 385,999 to 386,871 Xcc-8004.399.1 Xcc-8004.400.1: Xcc-8004.400.1 - Transcriptional activator MetR, at 386,987 to 387,892 Xcc-8004.400.1 Position (kb) 385 386 387Strain fitness (log2 ratio) -2 -1 0 1 2at 385.001 kb on + strand, within Xcc-8004.398.1at 385.001 kb on + strand, within Xcc-8004.398.1at 385.001 kb on + strand, within Xcc-8004.398.1at 385.001 kb on + strand, within Xcc-8004.398.1at 385.002 kb on - strand, within Xcc-8004.398.1at 385.129 kb on + strand, within Xcc-8004.398.1at 385.256 kb on + strand, within Xcc-8004.398.1at 385.256 kb on + strand, within Xcc-8004.398.1at 385.257 kb on - strand, within Xcc-8004.398.1at 385.331 kb on + strand, within Xcc-8004.398.1at 385.555 kb on + strandat 385.555 kb on + strandat 385.648 kb on + strandat 385.716 kb on + strandat 385.716 kb on + strandat 385.717 kb on - strandat 385.717 kb on - strandat 385.818 kb on - strandat 385.888 kb on + strandat 385.888 kb on + strandat 385.895 kb on + strandat 385.896 kb on - strandat 385.896 kb on - strandat 386.033 kb on + strandat 386.078 kb on + strandat 386.078 kb on + strandat 386.079 kb on - strandat 386.079 kb on - strandat 386.187 kb on - strand, within Xcc-8004.399.1at 386.235 kb on + strand, within Xcc-8004.399.1at 386.235 kb on - strand, within Xcc-8004.399.1at 386.825 kb on + strandat 386.826 kb on - strandat 386.826 kb on - strandat 386.826 kb on - strandat 387.048 kb on + strandat 387.062 kb on - strandat 387.147 kb on + strand, within Xcc-8004.400.1at 387.147 kb on + strand, within Xcc-8004.400.1at 387.147 kb on + strand, within Xcc-8004.400.1at 387.147 kb on + strand, within Xcc-8004.400.1at 387.147 kb on + strand, within Xcc-8004.400.1at 387.147 kb on + strand, within Xcc-8004.400.1at 387.229 kb on + strand, within Xcc-8004.400.1at 387.277 kb on + strand, within Xcc-8004.400.1at 387.277 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.279 kb on + strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.280 kb on - strand, within Xcc-8004.400.1at 387.284 kb on - strand, within Xcc-8004.400.1at 387.351 kb on + strand, within Xcc-8004.400.1at 387.352 kb on - strand, within Xcc-8004.400.1at 387.402 kb on + strand, within Xcc-8004.400.1at 387.403 kb on - strand, within Xcc-8004.400.1at 387.438 kb on + strand, within Xcc-8004.400.1at 387.439 kb on - strand, within Xcc-8004.400.1at 387.553 kb on - strand, within Xcc-8004.400.1at 387.582 kb on + strand, within Xcc-8004.400.1at 387.703 kb on - strand, within Xcc-8004.400.1at 387.703 kb on - strand, within Xcc-8004.400.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant
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385,001 + Xcc-8004.398.1 0.63 -2.2
385,001 + Xcc-8004.398.1 0.63 +0.5
385,001 + Xcc-8004.398.1 0.63 +0.6
385,001 + Xcc-8004.398.1 0.63 -0.3
385,002 - Xcc-8004.398.1 0.63 -0.9
385,129 + Xcc-8004.398.1 0.70 +0.5
385,256 + Xcc-8004.398.1 0.76 +1.0
385,256 + Xcc-8004.398.1 0.76 +0.9
385,257 - Xcc-8004.398.1 0.76 +0.7
385,331 + Xcc-8004.398.1 0.80 -0.0
385,555 + +0.2
385,555 + -0.3
385,648 + +0.5
385,716 + -0.1
385,716 + +2.1
385,717 - -0.8
385,717 - -0.9
385,818 - -0.9
385,888 + +0.3
385,888 + +0.7
385,895 + -2.2
385,896 - -1.7
385,896 - +0.9
386,033 + +1.1
386,078 + +0.1
386,078 + +0.4
386,079 - -0.5
386,079 - -1.4
386,187 - Xcc-8004.399.1 0.22 -0.6
386,235 + Xcc-8004.399.1 0.27 -0.7
386,235 - Xcc-8004.399.1 0.27 -0.4
386,825 + +1.1
386,826 - -1.5
386,826 - -0.4
386,826 - -0.5
387,048 + -1.8
387,062 - -2.7
387,147 + Xcc-8004.400.1 0.18 -0.0
387,147 + Xcc-8004.400.1 0.18 -1.8
387,147 + Xcc-8004.400.1 0.18 -0.2
387,147 + Xcc-8004.400.1 0.18 -0.0
387,147 + Xcc-8004.400.1 0.18 -0.5
387,147 + Xcc-8004.400.1 0.18 +0.2
387,229 + Xcc-8004.400.1 0.27 +0.0
387,277 + Xcc-8004.400.1 0.32 -0.7
387,277 + Xcc-8004.400.1 0.32 -0.0
387,279 + Xcc-8004.400.1 0.32 +0.5
387,279 + Xcc-8004.400.1 0.32 +2.0
387,279 + Xcc-8004.400.1 0.32 +1.0
387,279 + Xcc-8004.400.1 0.32 +1.6
387,279 + Xcc-8004.400.1 0.32 -2.1
387,279 + Xcc-8004.400.1 0.32 -1.1
387,279 + Xcc-8004.400.1 0.32 +0.9
387,280 - Xcc-8004.400.1 0.32 -1.6
387,280 - Xcc-8004.400.1 0.32 +0.9
387,280 - Xcc-8004.400.1 0.32 +0.4
387,280 - Xcc-8004.400.1 0.32 +0.3
387,280 - Xcc-8004.400.1 0.32 +1.0
387,280 - Xcc-8004.400.1 0.32 -0.7
387,280 - Xcc-8004.400.1 0.32 -0.3
387,280 - Xcc-8004.400.1 0.32 +1.1
387,280 - Xcc-8004.400.1 0.32 -0.1
387,284 - Xcc-8004.400.1 0.33 +0.7
387,351 + Xcc-8004.400.1 0.40 +0.9
387,352 - Xcc-8004.400.1 0.40 +0.2
387,402 + Xcc-8004.400.1 0.46 +0.1
387,403 - Xcc-8004.400.1 0.46 -0.4
387,438 + Xcc-8004.400.1 0.50 -0.3
387,439 - Xcc-8004.400.1 0.50 +0.8
387,553 - Xcc-8004.400.1 0.62 +0.2
387,582 + Xcc-8004.400.1 0.66 -0.3
387,703 - Xcc-8004.400.1 0.79 +0.3
387,703 - Xcc-8004.400.1 0.79 +2.1

Or see this region's nucleotide sequence