Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.411.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

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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-8004.409.1 and Xcc-8004.410.1 are separated by 303 nucleotidesXcc-8004.410.1 and Xcc-8004.411.1 overlap by 4 nucleotidesXcc-8004.411.1 and Xcc-8004.412.1 are separated by 19 nucleotidesXcc-8004.412.1 and Xcc-8004.413.1 overlap by 4 nucleotides Xcc-8004.409.1: Xcc-8004.409.1 - hypothetical protein, at 396,225 to 396,419 Xcc-8004.409.1 Xcc-8004.410.1: Xcc-8004.410.1 - putative; ORF located using Glimmer/Genemark, at 396,723 to 397,223 Xcc-8004.410.1 Xcc-8004.411.1: Xcc-8004.411.1 - Methyl-accepting chemotaxis protein I (serine chemoreceptor protein), at 397,220 to 399,331 Xcc-8004.411.1 Xcc-8004.412.1: Xcc-8004.412.1 - Putative protein-S-isoprenylcysteine methyltransferase, at 399,351 to 399,899 Xcc-8004.412.1 Xcc-8004.413.1: Xcc-8004.413.1 - FIG01211305: hypothetical protein, at 399,896 to 400,438 Xcc-8004.413.1 Position (kb) 397 398 399 400Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 396.228 kb on + strandat 396.228 kb on + strandat 396.228 kb on + strandat 396.228 kb on + strandat 396.228 kb on + strandat 396.228 kb on + strandat 396.228 kb on + strandat 396.229 kb on - strandat 396.229 kb on - strandat 396.307 kb on - strand, within Xcc-8004.409.1at 396.385 kb on - strand, within Xcc-8004.409.1at 396.385 kb on - strand, within Xcc-8004.409.1at 396.385 kb on - strand, within Xcc-8004.409.1at 396.396 kb on + strand, within Xcc-8004.409.1at 396.440 kb on + strandat 396.440 kb on + strandat 396.440 kb on + strandat 396.440 kb on + strandat 396.440 kb on + strandat 396.441 kb on - strandat 396.558 kb on + strandat 396.558 kb on + strandat 396.649 kb on + strandat 396.730 kb on + strandat 397.041 kb on + strand, within Xcc-8004.410.1at 397.081 kb on - strand, within Xcc-8004.410.1at 397.268 kb on + strandat 397.269 kb on - strandat 397.323 kb on + strandat 397.323 kb on + strandat 397.323 kb on + strandat 397.324 kb on - strandat 397.324 kb on - strandat 397.562 kb on + strand, within Xcc-8004.411.1at 397.562 kb on + strand, within Xcc-8004.411.1at 397.562 kb on + strand, within Xcc-8004.411.1at 397.562 kb on + strand, within Xcc-8004.411.1at 397.562 kb on + strand, within Xcc-8004.411.1at 397.562 kb on + strand, within Xcc-8004.411.1at 397.563 kb on - strand, within Xcc-8004.411.1at 397.563 kb on - strand, within Xcc-8004.411.1at 397.563 kb on - strand, within Xcc-8004.411.1at 397.628 kb on + strand, within Xcc-8004.411.1at 397.628 kb on + strand, within Xcc-8004.411.1at 397.628 kb on + strand, within Xcc-8004.411.1at 397.709 kb on + strand, within Xcc-8004.411.1at 398.934 kb on + strand, within Xcc-8004.411.1at 399.192 kb on + strandat 399.192 kb on + strandat 399.349 kb on + strandat 399.385 kb on + strandat 399.386 kb on - strandat 399.457 kb on + strand, within Xcc-8004.412.1at 399.458 kb on - strand, within Xcc-8004.412.1at 399.458 kb on - strand, within Xcc-8004.412.1at 399.458 kb on - strand, within Xcc-8004.412.1at 399.535 kb on + strand, within Xcc-8004.412.1at 399.535 kb on + strand, within Xcc-8004.412.1at 399.536 kb on - strand, within Xcc-8004.412.1at 399.536 kb on - strand, within Xcc-8004.412.1at 399.553 kb on + strand, within Xcc-8004.412.1at 399.554 kb on - strand, within Xcc-8004.412.1at 399.767 kb on + strand, within Xcc-8004.412.1at 399.926 kb on + strandat 399.926 kb on + strandat 399.926 kb on + strandat 399.996 kb on + strand, within Xcc-8004.413.1at 399.996 kb on + strand, within Xcc-8004.413.1at 400.086 kb on + strand, within Xcc-8004.413.1at 400.086 kb on + strand, within Xcc-8004.413.1at 400.087 kb on - strand, within Xcc-8004.413.1at 400.087 kb on - strand, within Xcc-8004.413.1at 400.211 kb on + strand, within Xcc-8004.413.1at 400.211 kb on + strand, within Xcc-8004.413.1at 400.212 kb on - strand, within Xcc-8004.413.1at 400.212 kb on - strand, within Xcc-8004.413.1at 400.212 kb on - strand, within Xcc-8004.413.1at 400.264 kb on + strand, within Xcc-8004.413.1at 400.264 kb on + strand, within Xcc-8004.413.1at 400.265 kb on - strand, within Xcc-8004.413.1at 400.317 kb on + strand, within Xcc-8004.413.1at 400.318 kb on - strand, within Xcc-8004.413.1at 400.318 kb on - strand, within Xcc-8004.413.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
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396,228 + +0.3
396,228 + +3.3
396,228 + -0.7
396,228 + +0.5
396,228 + -0.4
396,228 + +3.1
396,228 + -1.0
396,229 - +1.9
396,229 - -0.8
396,307 - Xcc-8004.409.1 0.42 -0.3
396,385 - Xcc-8004.409.1 0.82 -3.0
396,385 - Xcc-8004.409.1 0.82 -0.0
396,385 - Xcc-8004.409.1 0.82 +1.1
396,396 + Xcc-8004.409.1 0.88 +0.7
396,440 + +0.0
396,440 + +0.2
396,440 + +0.2
396,440 + -0.7
396,440 + +0.1
396,441 - -0.4
396,558 + -0.9
396,558 + -1.0
396,649 + -2.0
396,730 + -0.6
397,041 + Xcc-8004.410.1 0.63 +1.2
397,081 - Xcc-8004.410.1 0.71 -2.4
397,268 + +0.1
397,269 - -0.7
397,323 + -0.7
397,323 + +0.4
397,323 + -2.5
397,324 - +1.2
397,324 - -1.4
397,562 + Xcc-8004.411.1 0.16 +0.1
397,562 + Xcc-8004.411.1 0.16 -0.1
397,562 + Xcc-8004.411.1 0.16 +1.8
397,562 + Xcc-8004.411.1 0.16 +0.4
397,562 + Xcc-8004.411.1 0.16 +2.1
397,562 + Xcc-8004.411.1 0.16 +0.2
397,563 - Xcc-8004.411.1 0.16 -0.6
397,563 - Xcc-8004.411.1 0.16 -0.6
397,563 - Xcc-8004.411.1 0.16 -1.6
397,628 + Xcc-8004.411.1 0.19 +1.3
397,628 + Xcc-8004.411.1 0.19 +0.4
397,628 + Xcc-8004.411.1 0.19 +0.4
397,709 + Xcc-8004.411.1 0.23 +1.3
398,934 + Xcc-8004.411.1 0.81 -0.0
399,192 + +1.0
399,192 + -1.4
399,349 + +2.3
399,385 + +1.4
399,386 - -1.1
399,457 + Xcc-8004.412.1 0.19 +2.5
399,458 - Xcc-8004.412.1 0.19 +1.0
399,458 - Xcc-8004.412.1 0.19 +1.3
399,458 - Xcc-8004.412.1 0.19 -2.2
399,535 + Xcc-8004.412.1 0.34 -3.2
399,535 + Xcc-8004.412.1 0.34 -1.5
399,536 - Xcc-8004.412.1 0.34 -1.9
399,536 - Xcc-8004.412.1 0.34 +1.7
399,553 + Xcc-8004.412.1 0.37 -1.7
399,554 - Xcc-8004.412.1 0.37 -0.4
399,767 + Xcc-8004.412.1 0.76 -2.9
399,926 + -0.6
399,926 + +1.5
399,926 + +0.3
399,996 + Xcc-8004.413.1 0.18 -0.2
399,996 + Xcc-8004.413.1 0.18 -0.8
400,086 + Xcc-8004.413.1 0.35 -0.6
400,086 + Xcc-8004.413.1 0.35 +0.3
400,087 - Xcc-8004.413.1 0.35 -1.0
400,087 - Xcc-8004.413.1 0.35 -0.4
400,211 + Xcc-8004.413.1 0.58 +0.5
400,211 + Xcc-8004.413.1 0.58 +0.9
400,212 - Xcc-8004.413.1 0.58 +0.8
400,212 - Xcc-8004.413.1 0.58 -0.0
400,212 - Xcc-8004.413.1 0.58 +0.3
400,264 + Xcc-8004.413.1 0.68 +0.2
400,264 + Xcc-8004.413.1 0.68 +0.5
400,265 - Xcc-8004.413.1 0.68 -2.2
400,317 + Xcc-8004.413.1 0.78 +1.1
400,318 - Xcc-8004.413.1 0.78 +0.2
400,318 - Xcc-8004.413.1 0.78 -0.7

Or see this region's nucleotide sequence