Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.4001.1

Experiment: Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X

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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-8004.3999.1 and Xcc-8004.4000.1 are separated by 96 nucleotidesXcc-8004.4000.1 and Xcc-8004.4001.1 are separated by 111 nucleotidesXcc-8004.4001.1 and Xcc-8004.4002.1 are separated by 7 nucleotides Xcc-8004.3999.1: Xcc-8004.3999.1 - LSU ribosomal protein L32p, at 3,875,725 to 3,875,919 Xcc-8004.3999.1 Xcc-8004.4000.1: Xcc-8004.4000.1 - COG1399 protein, clustered with ribosomal protein L32p, at 3,876,016 to 3,876,525 Xcc-8004.4000.1 Xcc-8004.4001.1: Xcc-8004.4001.1 - FIG146278: Maf/YceF/YhdE family protein, at 3,876,637 to 3,877,215 Xcc-8004.4001.1 Xcc-8004.4002.1: Xcc-8004.4002.1 - FIG01211730: hypothetical protein, at 3,877,223 to 3,878,842 Xcc-8004.4002.1 Position (kb) 3876 3877 3878Strain fitness (log2 ratio) -2 -1 0 1 2 3at 3875.682 kb on - strandat 3875.682 kb on - strandat 3875.682 kb on - strandat 3875.682 kb on - strandat 3876.210 kb on - strand, within Xcc-8004.4000.1at 3876.348 kb on - strand, within Xcc-8004.4000.1at 3876.348 kb on - strand, within Xcc-8004.4000.1at 3876.348 kb on - strand, within Xcc-8004.4000.1at 3876.390 kb on - strand, within Xcc-8004.4000.1at 3876.446 kb on - strand, within Xcc-8004.4000.1at 3876.446 kb on - strand, within Xcc-8004.4000.1at 3876.446 kb on - strand, within Xcc-8004.4000.1at 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.526 kb on - strandat 3876.673 kb on + strandat 3877.048 kb on + strand, within Xcc-8004.4001.1at 3877.048 kb on + strand, within Xcc-8004.4001.1at 3877.049 kb on - strand, within Xcc-8004.4001.1at 3877.049 kb on - strand, within Xcc-8004.4001.1at 3877.131 kb on + strand, within Xcc-8004.4001.1at 3877.255 kb on - strandat 3877.323 kb on + strandat 3877.323 kb on + strandat 3877.323 kb on + strandat 3877.323 kb on + strandat 3877.662 kb on + strand, within Xcc-8004.4002.1at 3877.662 kb on + strand, within Xcc-8004.4002.1at 3877.663 kb on - strand, within Xcc-8004.4002.1at 3877.938 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.974 kb on + strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3877.975 kb on - strand, within Xcc-8004.4002.1at 3878.082 kb on + strand, within Xcc-8004.4002.1at 3878.082 kb on + strand, within Xcc-8004.4002.1at 3878.083 kb on - strand, within Xcc-8004.4002.1at 3878.083 kb on - strand, within Xcc-8004.4002.1at 3878.083 kb on - strand, within Xcc-8004.4002.1at 3878.083 kb on - strand, within Xcc-8004.4002.1at 3878.126 kb on - strand, within Xcc-8004.4002.1at 3878.126 kb on - strand, within Xcc-8004.4002.1at 3878.143 kb on + strand, within Xcc-8004.4002.1at 3878.143 kb on + strand, within Xcc-8004.4002.1at 3878.144 kb on - strand, within Xcc-8004.4002.1at 3878.144 kb on - strand, within Xcc-8004.4002.1at 3878.144 kb on - strand, within Xcc-8004.4002.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X
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3,875,682 - +0.6
3,875,682 - +0.5
3,875,682 - +0.7
3,875,682 - +0.5
3,876,210 - Xcc-8004.4000.1 0.38 -0.9
3,876,348 - Xcc-8004.4000.1 0.65 +0.1
3,876,348 - Xcc-8004.4000.1 0.65 +0.1
3,876,348 - Xcc-8004.4000.1 0.65 +1.3
3,876,390 - Xcc-8004.4000.1 0.73 +2.1
3,876,446 - Xcc-8004.4000.1 0.84 +0.1
3,876,446 - Xcc-8004.4000.1 0.84 -0.4
3,876,446 - Xcc-8004.4000.1 0.84 -0.3
3,876,526 - +0.0
3,876,526 - +3.1
3,876,526 - -1.0
3,876,526 - +0.6
3,876,526 - -1.0
3,876,526 - -0.6
3,876,526 - -0.0
3,876,673 + +0.9
3,877,048 + Xcc-8004.4001.1 0.71 +1.1
3,877,048 + Xcc-8004.4001.1 0.71 -0.0
3,877,049 - Xcc-8004.4001.1 0.71 -0.6
3,877,049 - Xcc-8004.4001.1 0.71 -1.3
3,877,131 + Xcc-8004.4001.1 0.85 -1.4
3,877,255 - +0.3
3,877,323 + +0.8
3,877,323 + -1.2
3,877,323 + +0.2
3,877,323 + +0.5
3,877,662 + Xcc-8004.4002.1 0.27 +0.1
3,877,662 + Xcc-8004.4002.1 0.27 +0.8
3,877,663 - Xcc-8004.4002.1 0.27 -0.1
3,877,938 + Xcc-8004.4002.1 0.44 -0.7
3,877,974 + Xcc-8004.4002.1 0.46 +0.5
3,877,974 + Xcc-8004.4002.1 0.46 -1.1
3,877,974 + Xcc-8004.4002.1 0.46 +0.9
3,877,974 + Xcc-8004.4002.1 0.46 +0.1
3,877,974 + Xcc-8004.4002.1 0.46 +0.6
3,877,974 + Xcc-8004.4002.1 0.46 +0.1
3,877,974 + Xcc-8004.4002.1 0.46 -0.0
3,877,974 + Xcc-8004.4002.1 0.46 -0.5
3,877,975 - Xcc-8004.4002.1 0.46 -0.9
3,877,975 - Xcc-8004.4002.1 0.46 -0.1
3,877,975 - Xcc-8004.4002.1 0.46 -0.6
3,877,975 - Xcc-8004.4002.1 0.46 -0.2
3,877,975 - Xcc-8004.4002.1 0.46 -1.8
3,877,975 - Xcc-8004.4002.1 0.46 -0.0
3,878,082 + Xcc-8004.4002.1 0.53 -0.2
3,878,082 + Xcc-8004.4002.1 0.53 -0.2
3,878,083 - Xcc-8004.4002.1 0.53 -1.0
3,878,083 - Xcc-8004.4002.1 0.53 -0.6
3,878,083 - Xcc-8004.4002.1 0.53 -0.0
3,878,083 - Xcc-8004.4002.1 0.53 -0.5
3,878,126 - Xcc-8004.4002.1 0.56 +1.8
3,878,126 - Xcc-8004.4002.1 0.56 +0.2
3,878,143 + Xcc-8004.4002.1 0.57 -0.0
3,878,143 + Xcc-8004.4002.1 0.57 +0.2
3,878,144 - Xcc-8004.4002.1 0.57 -0.1
3,878,144 - Xcc-8004.4002.1 0.57 +0.1
3,878,144 - Xcc-8004.4002.1 0.57 -0.8

Or see this region's nucleotide sequence