Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.890.1

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-8004.889.1 and Xcc-8004.890.1 are separated by 48 nucleotidesXcc-8004.890.1 and Xcc-8004.891.1 overlap by 7 nucleotidesXcc-8004.891.1 and Xcc-8004.892.1 overlap by 169 nucleotides Xcc-8004.889.1: Xcc-8004.889.1 - Type IV secretion system protein VirD4, at 836,807 to 837,520 Xcc-8004.889.1 Xcc-8004.890.1: Xcc-8004.890.1 - Mobile element protein, at 837,569 to 837,832 Xcc-8004.890.1 Xcc-8004.891.1: Xcc-8004.891.1 - Mobile element protein, at 837,826 to 838,671 Xcc-8004.891.1 Xcc-8004.892.1: Xcc-8004.892.1 - Coupling protein VirD4, ATPase required for T-DNA transfer, at 838,503 to 839,714 Xcc-8004.892.1 Position (kb) 837 838Strain fitness (log2 ratio) -1 0 1 2 3at 836.713 kb on - strandat 836.713 kb on - strandat 836.747 kb on + strandat 836.764 kb on + strandat 836.764 kb on + strandat 836.816 kb on - strandat 836.816 kb on - strandat 836.946 kb on - strand, within Xcc-8004.889.1at 837.013 kb on - strand, within Xcc-8004.889.1at 837.013 kb on - strand, within Xcc-8004.889.1at 837.013 kb on - strand, within Xcc-8004.889.1at 837.422 kb on + strand, within Xcc-8004.889.1at 837.422 kb on + strand, within Xcc-8004.889.1at 837.423 kb on - strand, within Xcc-8004.889.1at 837.423 kb on - strand, within Xcc-8004.889.1at 837.423 kb on - strand, within Xcc-8004.889.1at 837.424 kb on + strand, within Xcc-8004.889.1at 837.425 kb on - strand, within Xcc-8004.889.1at 838.669 kb on + strandat 838.754 kb on + strand, within Xcc-8004.892.1at 838.761 kb on + strand, within Xcc-8004.892.1

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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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836,713 - +0.9
836,713 - -0.3
836,747 + +0.0
836,764 + +0.0
836,764 + +0.0
836,816 - +2.3
836,816 - +0.1
836,946 - Xcc-8004.889.1 0.19 +0.4
837,013 - Xcc-8004.889.1 0.29 +0.6
837,013 - Xcc-8004.889.1 0.29 -0.9
837,013 - Xcc-8004.889.1 0.29 -0.1
837,422 + Xcc-8004.889.1 0.86 +0.4
837,422 + Xcc-8004.889.1 0.86 +1.5
837,423 - Xcc-8004.889.1 0.86 +0.3
837,423 - Xcc-8004.889.1 0.86 +0.2
837,423 - Xcc-8004.889.1 0.86 -0.3
837,424 + Xcc-8004.889.1 0.86 +3.0
837,425 - Xcc-8004.889.1 0.87 -0.2
838,669 + -1.3
838,754 + Xcc-8004.892.1 0.21 +0.2
838,761 + Xcc-8004.892.1 0.21 -0.2

Or see this region's nucleotide sequence