Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.2533.1

Experiment: R2A with Vogels_fungal_media 0.8X

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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-8004.2529.1 and Xcc-8004.2530.1 are separated by 10 nucleotidesXcc-8004.2530.1 and Xcc-8004.2532.1 are separated by 16 nucleotidesXcc-8004.2532.1 and Xcc-8004.2533.1 overlap by 4 nucleotidesXcc-8004.2533.1 and Xcc-8004.2534.1 are separated by 98 nucleotidesXcc-8004.2534.1 and Xcc-8004.2535.1 overlap by 4 nucleotides Xcc-8004.2529.1: Xcc-8004.2529.1 - FIG01210734: hypothetical protein, at 2,451,723 to 2,452,133 Xcc-8004.2529.1 Xcc-8004.2530.1: Xcc-8004.2530.1 - FIG01210404: hypothetical protein, at 2,452,144 to 2,452,503 Xcc-8004.2530.1 Xcc-8004.2532.1: Xcc-8004.2532.1 - hypothetical protein, at 2,452,520 to 2,452,753 Xcc-8004.2532.1 Xcc-8004.2533.1: Xcc-8004.2533.1 - Candidate type III effector Hop protein, at 2,452,750 to 2,453,130 Xcc-8004.2533.1 Xcc-8004.2534.1: Xcc-8004.2534.1 - putative membrane protein, at 2,453,229 to 2,453,978 Xcc-8004.2534.1 Xcc-8004.2535.1: Xcc-8004.2535.1 - Type IV secretory pathway, VirD4 components, at 2,453,975 to 2,456,164 Xcc-8004.2535.1 Position (kb) 2452 2453 2454Strain fitness (log2 ratio) -2 -1 0 1at 2451.785 kb on + strand, within Xcc-8004.2529.1at 2451.851 kb on - strand, within Xcc-8004.2529.1at 2451.860 kb on + strand, within Xcc-8004.2529.1at 2451.860 kb on + strand, within Xcc-8004.2529.1at 2451.860 kb on + strand, within Xcc-8004.2529.1at 2451.861 kb on - strand, within Xcc-8004.2529.1at 2451.861 kb on - strand, within Xcc-8004.2529.1at 2452.145 kb on + strandat 2452.145 kb on + strandat 2452.196 kb on - strand, within Xcc-8004.2530.1at 2452.196 kb on - strand, within Xcc-8004.2530.1at 2452.262 kb on + strand, within Xcc-8004.2530.1at 2452.263 kb on - strand, within Xcc-8004.2530.1at 2452.263 kb on - strand, within Xcc-8004.2530.1at 2452.271 kb on + strand, within Xcc-8004.2530.1at 2452.271 kb on + strand, within Xcc-8004.2530.1at 2452.280 kb on + strand, within Xcc-8004.2530.1at 2452.280 kb on + strand, within Xcc-8004.2530.1at 2452.281 kb on - strand, within Xcc-8004.2530.1at 2452.281 kb on - strand, within Xcc-8004.2530.1at 2452.346 kb on + strand, within Xcc-8004.2530.1at 2452.346 kb on + strand, within Xcc-8004.2530.1at 2452.346 kb on + strand, within Xcc-8004.2530.1at 2452.346 kb on + strand, within Xcc-8004.2530.1at 2452.346 kb on + strand, within Xcc-8004.2530.1at 2452.347 kb on - strand, within Xcc-8004.2530.1at 2452.347 kb on - strand, within Xcc-8004.2530.1at 2452.347 kb on - strand, within Xcc-8004.2530.1at 2452.366 kb on - strand, within Xcc-8004.2530.1at 2452.366 kb on - strand, within Xcc-8004.2530.1at 2452.491 kb on + strandat 2452.551 kb on + strand, within Xcc-8004.2532.1at 2452.551 kb on + strand, within Xcc-8004.2532.1at 2452.551 kb on + strand, within Xcc-8004.2532.1at 2452.552 kb on - strand, within Xcc-8004.2532.1at 2452.552 kb on - strand, within Xcc-8004.2532.1at 2452.552 kb on - strand, within Xcc-8004.2532.1at 2452.623 kb on + strand, within Xcc-8004.2532.1at 2452.623 kb on + strand, within Xcc-8004.2532.1at 2452.623 kb on + strand, within Xcc-8004.2532.1at 2452.623 kb on + strand, within Xcc-8004.2532.1at 2452.623 kb on + strand, within Xcc-8004.2532.1at 2452.624 kb on - strand, within Xcc-8004.2532.1at 2452.624 kb on - strand, within Xcc-8004.2532.1at 2452.806 kb on - strand, within Xcc-8004.2533.1at 2452.922 kb on + strand, within Xcc-8004.2533.1at 2452.922 kb on + strand, within Xcc-8004.2533.1at 2452.922 kb on + strand, within Xcc-8004.2533.1at 2452.922 kb on + strand, within Xcc-8004.2533.1at 2452.947 kb on + strand, within Xcc-8004.2533.1at 2452.947 kb on + strand, within Xcc-8004.2533.1at 2452.948 kb on - strand, within Xcc-8004.2533.1at 2452.948 kb on - strand, within Xcc-8004.2533.1at 2452.948 kb on - strand, within Xcc-8004.2533.1at 2453.230 kb on + strandat 2453.230 kb on + strandat 2453.230 kb on + strandat 2453.231 kb on - strandat 2453.231 kb on - strandat 2453.236 kb on + strandat 2453.237 kb on - strandat 2453.237 kb on - strandat 2453.338 kb on + strand, within Xcc-8004.2534.1at 2453.338 kb on + strand, within Xcc-8004.2534.1at 2453.339 kb on - strand, within Xcc-8004.2534.1at 2453.339 kb on - strand, within Xcc-8004.2534.1at 2453.392 kb on + strand, within Xcc-8004.2534.1at 2453.393 kb on - strand, within Xcc-8004.2534.1at 2453.396 kb on + strand, within Xcc-8004.2534.1at 2453.396 kb on + strand, within Xcc-8004.2534.1at 2453.397 kb on - strand, within Xcc-8004.2534.1at 2453.557 kb on + strand, within Xcc-8004.2534.1at 2453.557 kb on + strand, within Xcc-8004.2534.1at 2453.557 kb on + strand, within Xcc-8004.2534.1at 2453.557 kb on + strand, within Xcc-8004.2534.1at 2453.557 kb on + strand, within Xcc-8004.2534.1at 2453.558 kb on - strand, within Xcc-8004.2534.1at 2453.558 kb on - strand, within Xcc-8004.2534.1at 2453.558 kb on - strand, within Xcc-8004.2534.1at 2453.558 kb on - strand, within Xcc-8004.2534.1at 2453.576 kb on - strand, within Xcc-8004.2534.1at 2453.576 kb on - strand, within Xcc-8004.2534.1at 2453.585 kb on + strand, within Xcc-8004.2534.1at 2453.586 kb on - strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.590 kb on + strand, within Xcc-8004.2534.1at 2453.591 kb on - strand, within Xcc-8004.2534.1at 2453.594 kb on - strand, within Xcc-8004.2534.1at 2453.594 kb on - strand, within Xcc-8004.2534.1at 2453.594 kb on - strand, within Xcc-8004.2534.1at 2453.909 kb on + strandat 2453.910 kb on - strandat 2453.910 kb on - strandat 2454.005 kb on + strandat 2454.006 kb on - strandat 2454.099 kb on + strandat 2454.099 kb on + strandat 2454.100 kb on - strandat 2454.126 kb on + strandat 2454.126 kb on + strandat 2454.127 kb on - strandat 2454.127 kb on - strandat 2454.127 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Vogels_fungal_media 0.8X
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2,451,785 + Xcc-8004.2529.1 0.15 -1.1
2,451,851 - Xcc-8004.2529.1 0.31 +0.3
2,451,860 + Xcc-8004.2529.1 0.33 -0.3
2,451,860 + Xcc-8004.2529.1 0.33 -1.1
2,451,860 + Xcc-8004.2529.1 0.33 -0.5
2,451,861 - Xcc-8004.2529.1 0.34 +1.7
2,451,861 - Xcc-8004.2529.1 0.34 +0.0
2,452,145 + +0.4
2,452,145 + +1.4
2,452,196 - Xcc-8004.2530.1 0.14 -1.4
2,452,196 - Xcc-8004.2530.1 0.14 +1.2
2,452,262 + Xcc-8004.2530.1 0.33 +0.8
2,452,263 - Xcc-8004.2530.1 0.33 +0.5
2,452,263 - Xcc-8004.2530.1 0.33 +0.4
2,452,271 + Xcc-8004.2530.1 0.35 +0.4
2,452,271 + Xcc-8004.2530.1 0.35 +1.4
2,452,280 + Xcc-8004.2530.1 0.38 +0.1
2,452,280 + Xcc-8004.2530.1 0.38 +0.4
2,452,281 - Xcc-8004.2530.1 0.38 -0.1
2,452,281 - Xcc-8004.2530.1 0.38 -0.8
2,452,346 + Xcc-8004.2530.1 0.56 +0.0
2,452,346 + Xcc-8004.2530.1 0.56 +0.5
2,452,346 + Xcc-8004.2530.1 0.56 -0.1
2,452,346 + Xcc-8004.2530.1 0.56 +1.0
2,452,346 + Xcc-8004.2530.1 0.56 +0.1
2,452,347 - Xcc-8004.2530.1 0.56 +1.2
2,452,347 - Xcc-8004.2530.1 0.56 +0.3
2,452,347 - Xcc-8004.2530.1 0.56 -1.7
2,452,366 - Xcc-8004.2530.1 0.62 +1.2
2,452,366 - Xcc-8004.2530.1 0.62 -0.1
2,452,491 + +0.5
2,452,551 + Xcc-8004.2532.1 0.13 +1.4
2,452,551 + Xcc-8004.2532.1 0.13 +0.5
2,452,551 + Xcc-8004.2532.1 0.13 -1.3
2,452,552 - Xcc-8004.2532.1 0.14 -0.5
2,452,552 - Xcc-8004.2532.1 0.14 +0.7
2,452,552 - Xcc-8004.2532.1 0.14 -2.3
2,452,623 + Xcc-8004.2532.1 0.44 -0.2
2,452,623 + Xcc-8004.2532.1 0.44 -0.4
2,452,623 + Xcc-8004.2532.1 0.44 +0.9
2,452,623 + Xcc-8004.2532.1 0.44 +0.0
2,452,623 + Xcc-8004.2532.1 0.44 -0.3
2,452,624 - Xcc-8004.2532.1 0.44 +0.3
2,452,624 - Xcc-8004.2532.1 0.44 -1.6
2,452,806 - Xcc-8004.2533.1 0.15 +0.2
2,452,922 + Xcc-8004.2533.1 0.45 -1.2
2,452,922 + Xcc-8004.2533.1 0.45 +0.1
2,452,922 + Xcc-8004.2533.1 0.45 -0.8
2,452,922 + Xcc-8004.2533.1 0.45 -2.0
2,452,947 + Xcc-8004.2533.1 0.52 +0.7
2,452,947 + Xcc-8004.2533.1 0.52 -0.7
2,452,948 - Xcc-8004.2533.1 0.52 -1.0
2,452,948 - Xcc-8004.2533.1 0.52 +0.0
2,452,948 - Xcc-8004.2533.1 0.52 -0.9
2,453,230 + -0.3
2,453,230 + -0.5
2,453,230 + -1.0
2,453,231 - +0.3
2,453,231 - +0.2
2,453,236 + +0.9
2,453,237 - -0.1
2,453,237 - -0.7
2,453,338 + Xcc-8004.2534.1 0.15 -1.5
2,453,338 + Xcc-8004.2534.1 0.15 -1.2
2,453,339 - Xcc-8004.2534.1 0.15 +0.4
2,453,339 - Xcc-8004.2534.1 0.15 +0.6
2,453,392 + Xcc-8004.2534.1 0.22 +0.0
2,453,393 - Xcc-8004.2534.1 0.22 +0.8
2,453,396 + Xcc-8004.2534.1 0.22 -0.4
2,453,396 + Xcc-8004.2534.1 0.22 -2.2
2,453,397 - Xcc-8004.2534.1 0.22 +0.3
2,453,557 + Xcc-8004.2534.1 0.44 -1.5
2,453,557 + Xcc-8004.2534.1 0.44 +0.3
2,453,557 + Xcc-8004.2534.1 0.44 +1.3
2,453,557 + Xcc-8004.2534.1 0.44 -1.0
2,453,557 + Xcc-8004.2534.1 0.44 -0.6
2,453,558 - Xcc-8004.2534.1 0.44 +0.2
2,453,558 - Xcc-8004.2534.1 0.44 -0.3
2,453,558 - Xcc-8004.2534.1 0.44 -2.5
2,453,558 - Xcc-8004.2534.1 0.44 +0.7
2,453,576 - Xcc-8004.2534.1 0.46 -1.8
2,453,576 - Xcc-8004.2534.1 0.46 +0.2
2,453,585 + Xcc-8004.2534.1 0.47 +0.0
2,453,586 - Xcc-8004.2534.1 0.48 -1.5
2,453,590 + Xcc-8004.2534.1 0.48 +0.8
2,453,590 + Xcc-8004.2534.1 0.48 +0.1
2,453,590 + Xcc-8004.2534.1 0.48 +0.4
2,453,590 + Xcc-8004.2534.1 0.48 +0.4
2,453,590 + Xcc-8004.2534.1 0.48 +0.2
2,453,590 + Xcc-8004.2534.1 0.48 +0.0
2,453,590 + Xcc-8004.2534.1 0.48 -1.3
2,453,590 + Xcc-8004.2534.1 0.48 -0.4
2,453,590 + Xcc-8004.2534.1 0.48 -0.2
2,453,591 - Xcc-8004.2534.1 0.48 +0.0
2,453,594 - Xcc-8004.2534.1 0.49 -1.5
2,453,594 - Xcc-8004.2534.1 0.49 +0.1
2,453,594 - Xcc-8004.2534.1 0.49 -0.5
2,453,909 + +0.8
2,453,910 - +1.0
2,453,910 - +0.3
2,454,005 + -0.2
2,454,006 - -0.3
2,454,099 + -1.1
2,454,099 + +0.2
2,454,100 - -0.4
2,454,126 + +1.2
2,454,126 + +0.7
2,454,127 - +0.8
2,454,127 - -0.7
2,454,127 - +0.5

Or see this region's nucleotide sequence