Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3853.1

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-8004.3851.1 and Xcc-8004.3852.1 are separated by 139 nucleotidesXcc-8004.3852.1 and Xcc-8004.3853.1 are separated by 34 nucleotidesXcc-8004.3853.1 and Xcc-8004.3854.1 are separated by 1 nucleotidesXcc-8004.3854.1 and Xcc-8004.3855.1 are separated by 63 nucleotides Xcc-8004.3851.1: Xcc-8004.3851.1 - putative; ORF located using Glimmer/Genemark, at 3,722,870 to 3,723,049 Xcc-8004.3851.1 Xcc-8004.3852.1: Xcc-8004.3852.1 - D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4), at 3,723,189 to 3,723,986 Xcc-8004.3852.1 Xcc-8004.3853.1: Xcc-8004.3853.1 - DNA-3-methyladenine glycosylase II (EC 3.2.2.21), at 3,724,021 to 3,724,695 Xcc-8004.3853.1 Xcc-8004.3854.1: Xcc-8004.3854.1 - COG2363, at 3,724,697 to 3,725,101 Xcc-8004.3854.1 Xcc-8004.3855.1: Xcc-8004.3855.1 - FIG01209965: hypothetical protein, at 3,725,165 to 3,726,346 Xcc-8004.3855.1 Position (kb) 3724 3725Strain fitness (log2 ratio) -3 -2 -1 0 1at 3723.030 kb on + strand, within Xcc-8004.3851.1at 3723.031 kb on - strand, within Xcc-8004.3851.1at 3723.133 kb on + strandat 3723.133 kb on + strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.171 kb on + strandat 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.519 kb on + strand, within Xcc-8004.3852.1at 3723.519 kb on + strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.705 kb on + strand, within Xcc-8004.3852.1at 3723.705 kb on + strand, within Xcc-8004.3852.1at 3723.706 kb on - strand, within Xcc-8004.3852.1at 3724.059 kb on + strandat 3724.059 kb on + strandat 3724.086 kb on - strandat 3724.097 kb on + strand, within Xcc-8004.3853.1at 3724.098 kb on - strand, within Xcc-8004.3853.1at 3724.842 kb on + strand, within Xcc-8004.3854.1at 3724.842 kb on + strand, within Xcc-8004.3854.1at 3724.842 kb on + strand, within Xcc-8004.3854.1at 3724.843 kb on - strand, within Xcc-8004.3854.1at 3724.917 kb on + strand, within Xcc-8004.3854.1at 3724.917 kb on + strand, within Xcc-8004.3854.1at 3724.977 kb on + strand, within Xcc-8004.3854.1at 3724.978 kb on - strand, within Xcc-8004.3854.1at 3725.166 kb on + strandat 3725.166 kb on + strandat 3725.166 kb on + strandat 3725.181 kb on + strandat 3725.190 kb on + strandat 3725.190 kb on + strandat 3725.190 kb on + strandat 3725.190 kb on + strandat 3725.190 kb on + strandat 3725.191 kb on - strandat 3725.191 kb on - strandat 3725.191 kb on - strandat 3725.191 kb on - strandat 3725.191 kb on - strandat 3725.191 kb on - strandat 3725.194 kb on + strandat 3725.195 kb on - strandat 3725.195 kb on - strandat 3725.242 kb on - strandat 3725.242 kb on - strandat 3725.297 kb on - strand, within Xcc-8004.3855.1at 3725.297 kb on - strand, within Xcc-8004.3855.1at 3725.331 kb on + strand, within Xcc-8004.3855.1at 3725.331 kb on + strand, within Xcc-8004.3855.1at 3725.331 kb on + strand, within Xcc-8004.3855.1at 3725.331 kb on + strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.332 kb on - strand, within Xcc-8004.3855.1at 3725.370 kb on + strand, within Xcc-8004.3855.1at 3725.562 kb on + strand, within Xcc-8004.3855.1at 3725.562 kb on + strand, within Xcc-8004.3855.1at 3725.562 kb on + strand, within Xcc-8004.3855.1at 3725.562 kb on + strand, within Xcc-8004.3855.1at 3725.563 kb on - strand, within Xcc-8004.3855.1at 3725.563 kb on - strand, within Xcc-8004.3855.1at 3725.563 kb on - strand, within Xcc-8004.3855.1

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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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3,723,030 + Xcc-8004.3851.1 0.89 +0.6
3,723,031 - Xcc-8004.3851.1 0.89 +0.7
3,723,133 + +0.3
3,723,133 + -0.3
3,723,134 - -0.6
3,723,134 - -0.1
3,723,134 - -0.4
3,723,134 - -1.6
3,723,171 + -1.1
3,723,330 + Xcc-8004.3852.1 0.18 -0.3
3,723,330 + Xcc-8004.3852.1 0.18 -2.2
3,723,330 + Xcc-8004.3852.1 0.18 -2.3
3,723,330 + Xcc-8004.3852.1 0.18 -0.5
3,723,519 + Xcc-8004.3852.1 0.41 -0.4
3,723,519 + Xcc-8004.3852.1 0.41 -1.2
3,723,520 - Xcc-8004.3852.1 0.41 -0.5
3,723,520 - Xcc-8004.3852.1 0.41 -0.3
3,723,520 - Xcc-8004.3852.1 0.41 +0.3
3,723,520 - Xcc-8004.3852.1 0.41 +0.6
3,723,520 - Xcc-8004.3852.1 0.41 -2.2
3,723,520 - Xcc-8004.3852.1 0.41 -0.7
3,723,705 + Xcc-8004.3852.1 0.65 +0.5
3,723,705 + Xcc-8004.3852.1 0.65 -3.2
3,723,706 - Xcc-8004.3852.1 0.65 -0.9
3,724,059 + -1.9
3,724,059 + -0.6
3,724,086 - +0.6
3,724,097 + Xcc-8004.3853.1 0.11 +0.7
3,724,098 - Xcc-8004.3853.1 0.11 +0.1
3,724,842 + Xcc-8004.3854.1 0.36 +1.1
3,724,842 + Xcc-8004.3854.1 0.36 -0.2
3,724,842 + Xcc-8004.3854.1 0.36 +1.6
3,724,843 - Xcc-8004.3854.1 0.36 -0.4
3,724,917 + Xcc-8004.3854.1 0.54 -0.3
3,724,917 + Xcc-8004.3854.1 0.54 +0.7
3,724,977 + Xcc-8004.3854.1 0.69 -0.8
3,724,978 - Xcc-8004.3854.1 0.69 -0.3
3,725,166 + +0.4
3,725,166 + -0.6
3,725,166 + -0.2
3,725,181 + -2.5
3,725,190 + -0.6
3,725,190 + -1.7
3,725,190 + -0.5
3,725,190 + -1.6
3,725,190 + -1.5
3,725,191 - -2.7
3,725,191 - -1.8
3,725,191 - -0.8
3,725,191 - -1.5
3,725,191 - -0.7
3,725,191 - -2.2
3,725,194 + +1.1
3,725,195 - -2.5
3,725,195 - -2.0
3,725,242 - -1.3
3,725,242 - -2.4
3,725,297 - Xcc-8004.3855.1 0.11 -1.6
3,725,297 - Xcc-8004.3855.1 0.11 -1.4
3,725,331 + Xcc-8004.3855.1 0.14 -2.7
3,725,331 + Xcc-8004.3855.1 0.14 -1.1
3,725,331 + Xcc-8004.3855.1 0.14 -0.1
3,725,331 + Xcc-8004.3855.1 0.14 -1.6
3,725,332 - Xcc-8004.3855.1 0.14 -2.3
3,725,332 - Xcc-8004.3855.1 0.14 -1.3
3,725,332 - Xcc-8004.3855.1 0.14 -1.5
3,725,332 - Xcc-8004.3855.1 0.14 -0.8
3,725,332 - Xcc-8004.3855.1 0.14 -2.4
3,725,332 - Xcc-8004.3855.1 0.14 -1.5
3,725,370 + Xcc-8004.3855.1 0.17 -3.4
3,725,562 + Xcc-8004.3855.1 0.34 +0.1
3,725,562 + Xcc-8004.3855.1 0.34 -1.5
3,725,562 + Xcc-8004.3855.1 0.34 -2.7
3,725,562 + Xcc-8004.3855.1 0.34 -1.3
3,725,563 - Xcc-8004.3855.1 0.34 -1.5
3,725,563 - Xcc-8004.3855.1 0.34 -1.8
3,725,563 - Xcc-8004.3855.1 0.34 -2.2

Or see this region's nucleotide sequence