Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.480.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant

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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-8004.478.1 and Xcc-8004.479.1 are separated by 4 nucleotidesXcc-8004.479.1 and Xcc-8004.480.1 are separated by 224 nucleotidesXcc-8004.480.1 and Xcc-8004.481.1 are separated by 9 nucleotidesXcc-8004.481.1 and Xcc-8004.482.1 are separated by 27 nucleotides Xcc-8004.478.1: Xcc-8004.478.1 - Protocatechuate 3,4-dioxygenase beta chain (EC 1.13.11.3), at 441,140 to 441,871 Xcc-8004.478.1 Xcc-8004.479.1: Xcc-8004.479.1 - Protocatechuate 3,4-dioxygenase alpha chain (EC 1.13.11.3), at 441,876 to 442,439 Xcc-8004.479.1 Xcc-8004.480.1: Xcc-8004.480.1 - 3-carboxy-cis,cis-muconate cycloisomerase (EC 5.5.1.2), at 442,664 to 444,025 Xcc-8004.480.1 Xcc-8004.481.1: Xcc-8004.481.1 - Beta-ketoadipate enol-lactone hydrolase (EC 3.1.1.24), at 444,035 to 444,817 Xcc-8004.481.1 Xcc-8004.482.1: Xcc-8004.482.1 - 4-carboxymuconolactone decarboxylase (EC 4.1.1.44), at 444,845 to 445,249 Xcc-8004.482.1 Position (kb) 442 443 444 445Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 441.695 kb on + strand, within Xcc-8004.478.1at 441.695 kb on + strand, within Xcc-8004.478.1at 441.695 kb on + strand, within Xcc-8004.478.1at 441.695 kb on + strand, within Xcc-8004.478.1at 441.695 kb on + strand, within Xcc-8004.478.1at 441.695 kb on + strand, within Xcc-8004.478.1at 441.696 kb on - strand, within Xcc-8004.478.1at 441.696 kb on - strand, within Xcc-8004.478.1at 441.696 kb on - strand, within Xcc-8004.478.1at 441.734 kb on + strand, within Xcc-8004.478.1at 441.734 kb on + strand, within Xcc-8004.478.1at 441.734 kb on + strand, within Xcc-8004.478.1at 441.734 kb on + strand, within Xcc-8004.478.1at 441.734 kb on + strand, within Xcc-8004.478.1at 441.735 kb on - strand, within Xcc-8004.478.1at 441.735 kb on - strand, within Xcc-8004.478.1at 441.810 kb on - strandat 441.942 kb on + strand, within Xcc-8004.479.1at 441.942 kb on + strand, within Xcc-8004.479.1at 441.942 kb on + strand, within Xcc-8004.479.1at 441.942 kb on + strand, within Xcc-8004.479.1at 441.943 kb on - strand, within Xcc-8004.479.1at 441.943 kb on - strand, within Xcc-8004.479.1at 442.048 kb on + strand, within Xcc-8004.479.1at 442.048 kb on + strand, within Xcc-8004.479.1at 442.049 kb on - strand, within Xcc-8004.479.1at 442.049 kb on - strand, within Xcc-8004.479.1at 442.049 kb on - strand, within Xcc-8004.479.1at 442.049 kb on - strand, within Xcc-8004.479.1at 442.074 kb on + strand, within Xcc-8004.479.1at 442.074 kb on + strand, within Xcc-8004.479.1at 442.074 kb on + strand, within Xcc-8004.479.1at 442.074 kb on + strand, within Xcc-8004.479.1at 442.074 kb on + strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.075 kb on - strand, within Xcc-8004.479.1at 442.281 kb on + strand, within Xcc-8004.479.1at 442.281 kb on + strand, within Xcc-8004.479.1at 442.383 kb on + strandat 442.383 kb on + strandat 442.383 kb on + strandat 442.384 kb on - strandat 442.384 kb on - strandat 442.384 kb on - strandat 442.384 kb on - strandat 442.434 kb on + strandat 442.434 kb on + strandat 442.435 kb on - strandat 442.475 kb on - strandat 443.152 kb on - strand, within Xcc-8004.480.1at 443.222 kb on - strand, within Xcc-8004.480.1at 443.323 kb on + strand, within Xcc-8004.480.1at 443.323 kb on + strand, within Xcc-8004.480.1at 443.323 kb on + strand, within Xcc-8004.480.1at 443.324 kb on - strand, within Xcc-8004.480.1at 443.778 kb on - strand, within Xcc-8004.480.1at 443.834 kb on - strand, within Xcc-8004.480.1at 443.834 kb on - strand, within Xcc-8004.480.1at 444.556 kb on - strand, within Xcc-8004.481.1at 444.556 kb on - strand, within Xcc-8004.481.1at 444.575 kb on + strand, within Xcc-8004.481.1at 444.576 kb on - strand, within Xcc-8004.481.1at 444.576 kb on - strand, within Xcc-8004.481.1at 444.576 kb on - strand, within Xcc-8004.481.1at 444.707 kb on + strand, within Xcc-8004.481.1at 444.707 kb on + strand, within Xcc-8004.481.1at 444.729 kb on - strand, within Xcc-8004.481.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant
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441,695 + Xcc-8004.478.1 0.76 -0.8
441,695 + Xcc-8004.478.1 0.76 +1.2
441,695 + Xcc-8004.478.1 0.76 +1.2
441,695 + Xcc-8004.478.1 0.76 -1.8
441,695 + Xcc-8004.478.1 0.76 +0.5
441,695 + Xcc-8004.478.1 0.76 +0.0
441,696 - Xcc-8004.478.1 0.76 +1.2
441,696 - Xcc-8004.478.1 0.76 +2.8
441,696 - Xcc-8004.478.1 0.76 +0.2
441,734 + Xcc-8004.478.1 0.81 -0.0
441,734 + Xcc-8004.478.1 0.81 -0.6
441,734 + Xcc-8004.478.1 0.81 -2.0
441,734 + Xcc-8004.478.1 0.81 -0.3
441,734 + Xcc-8004.478.1 0.81 -1.3
441,735 - Xcc-8004.478.1 0.81 +0.1
441,735 - Xcc-8004.478.1 0.81 +0.7
441,810 - +0.5
441,942 + Xcc-8004.479.1 0.12 +0.9
441,942 + Xcc-8004.479.1 0.12 +1.3
441,942 + Xcc-8004.479.1 0.12 -0.9
441,942 + Xcc-8004.479.1 0.12 +2.0
441,943 - Xcc-8004.479.1 0.12 -1.5
441,943 - Xcc-8004.479.1 0.12 +1.7
442,048 + Xcc-8004.479.1 0.30 -0.2
442,048 + Xcc-8004.479.1 0.30 -2.0
442,049 - Xcc-8004.479.1 0.31 -2.0
442,049 - Xcc-8004.479.1 0.31 +1.6
442,049 - Xcc-8004.479.1 0.31 +0.1
442,049 - Xcc-8004.479.1 0.31 +0.6
442,074 + Xcc-8004.479.1 0.35 -1.5
442,074 + Xcc-8004.479.1 0.35 -1.4
442,074 + Xcc-8004.479.1 0.35 +0.5
442,074 + Xcc-8004.479.1 0.35 -0.2
442,074 + Xcc-8004.479.1 0.35 -1.9
442,075 - Xcc-8004.479.1 0.35 +1.2
442,075 - Xcc-8004.479.1 0.35 -1.1
442,075 - Xcc-8004.479.1 0.35 +0.2
442,075 - Xcc-8004.479.1 0.35 +0.4
442,075 - Xcc-8004.479.1 0.35 -2.9
442,075 - Xcc-8004.479.1 0.35 +0.0
442,075 - Xcc-8004.479.1 0.35 +0.6
442,075 - Xcc-8004.479.1 0.35 -0.3
442,075 - Xcc-8004.479.1 0.35 +0.3
442,075 - Xcc-8004.479.1 0.35 +1.4
442,075 - Xcc-8004.479.1 0.35 -0.9
442,075 - Xcc-8004.479.1 0.35 +2.8
442,075 - Xcc-8004.479.1 0.35 -1.2
442,281 + Xcc-8004.479.1 0.72 +0.4
442,281 + Xcc-8004.479.1 0.72 -1.2
442,383 + -0.8
442,383 + +0.5
442,383 + -0.8
442,384 - +0.5
442,384 - +0.4
442,384 - +1.2
442,384 - +1.6
442,434 + -1.6
442,434 + +1.2
442,435 - -0.8
442,475 - +1.2
443,152 - Xcc-8004.480.1 0.36 +0.6
443,222 - Xcc-8004.480.1 0.41 +0.5
443,323 + Xcc-8004.480.1 0.48 -1.3
443,323 + Xcc-8004.480.1 0.48 -0.2
443,323 + Xcc-8004.480.1 0.48 -0.3
443,324 - Xcc-8004.480.1 0.48 +0.5
443,778 - Xcc-8004.480.1 0.82 +0.1
443,834 - Xcc-8004.480.1 0.86 +1.3
443,834 - Xcc-8004.480.1 0.86 -1.1
444,556 - Xcc-8004.481.1 0.67 -0.0
444,556 - Xcc-8004.481.1 0.67 -1.1
444,575 + Xcc-8004.481.1 0.69 -3.0
444,576 - Xcc-8004.481.1 0.69 -0.4
444,576 - Xcc-8004.481.1 0.69 -0.3
444,576 - Xcc-8004.481.1 0.69 +0.3
444,707 + Xcc-8004.481.1 0.86 +0.8
444,707 + Xcc-8004.481.1 0.86 +0.9
444,729 - Xcc-8004.481.1 0.89 -0.2

Or see this region's nucleotide sequence