Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.478.1

Experiment: Plant=Cauliflower; Treatment=None; Sample=Mesophyll; Collection=Direct; Time=3_days

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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-8004.477.1 and Xcc-8004.478.1 are separated by 78 nucleotidesXcc-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 nucleotides Xcc-8004.477.1: Xcc-8004.477.1 - Acetyl-CoA acetyltransferase (EC 2.3.1.9) @ Beta-ketoadipyl CoA thiolase (EC 2.3.1.-), at 439,853 to 441,061 Xcc-8004.477.1 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 Position (kb) 441 442Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 440.372 kb on + strand, within Xcc-8004.477.1at 440.372 kb on + strand, within Xcc-8004.477.1at 440.373 kb on - strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.735 kb on + strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 440.736 kb on - strand, within Xcc-8004.477.1at 441.016 kb on + strandat 441.036 kb on + strandat 441.036 kb on + strandat 441.222 kb on - strand, within Xcc-8004.478.1at 441.237 kb on - strand, within Xcc-8004.478.1at 441.442 kb on + strand, within Xcc-8004.478.1at 441.442 kb on + strand, within Xcc-8004.478.1at 441.442 kb on + strand, within Xcc-8004.478.1at 441.443 kb on - strand, within Xcc-8004.478.1at 441.443 kb on - strand, within Xcc-8004.478.1at 441.617 kb on + strand, within Xcc-8004.478.1at 441.617 kb on + strand, within Xcc-8004.478.1at 441.618 kb on - strand, within Xcc-8004.478.1at 441.618 kb on - strand, within Xcc-8004.478.1at 441.618 kb on - strand, within Xcc-8004.478.1at 441.618 kb on - strand, within Xcc-8004.478.1at 441.640 kb on + strand, within Xcc-8004.478.1at 441.654 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 441.695 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 - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Cauliflower; Treatment=None; Sample=Mesophyll; Collection=Direct; Time=3_days
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440,372 + Xcc-8004.477.1 0.43 -0.7
440,372 + Xcc-8004.477.1 0.43 +0.5
440,373 - Xcc-8004.477.1 0.43 -0.3
440,735 + Xcc-8004.477.1 0.73 +1.6
440,735 + Xcc-8004.477.1 0.73 +1.8
440,735 + Xcc-8004.477.1 0.73 -3.4
440,735 + Xcc-8004.477.1 0.73 -1.1
440,735 + Xcc-8004.477.1 0.73 +0.7
440,735 + Xcc-8004.477.1 0.73 +1.7
440,735 + Xcc-8004.477.1 0.73 +0.1
440,735 + Xcc-8004.477.1 0.73 +0.0
440,735 + Xcc-8004.477.1 0.73 -1.0
440,735 + Xcc-8004.477.1 0.73 +0.7
440,735 + Xcc-8004.477.1 0.73 -2.0
440,735 + Xcc-8004.477.1 0.73 +0.4
440,736 - Xcc-8004.477.1 0.73 -1.0
440,736 - Xcc-8004.477.1 0.73 +1.3
440,736 - Xcc-8004.477.1 0.73 +3.6
440,736 - Xcc-8004.477.1 0.73 +1.4
440,736 - Xcc-8004.477.1 0.73 -0.3
440,736 - Xcc-8004.477.1 0.73 +0.9
440,736 - Xcc-8004.477.1 0.73 +0.9
441,016 + +0.1
441,036 + -1.1
441,036 + +1.4
441,222 - Xcc-8004.478.1 0.11 +2.3
441,237 - Xcc-8004.478.1 0.13 +0.6
441,442 + Xcc-8004.478.1 0.41 -0.2
441,442 + Xcc-8004.478.1 0.41 +2.2
441,442 + Xcc-8004.478.1 0.41 -0.8
441,443 - Xcc-8004.478.1 0.41 -1.1
441,443 - Xcc-8004.478.1 0.41 -3.1
441,617 + Xcc-8004.478.1 0.65 -2.4
441,617 + Xcc-8004.478.1 0.65 -1.3
441,618 - Xcc-8004.478.1 0.65 +1.0
441,618 - Xcc-8004.478.1 0.65 +0.7
441,618 - Xcc-8004.478.1 0.65 +0.9
441,618 - Xcc-8004.478.1 0.65 +1.1
441,640 + Xcc-8004.478.1 0.68 +0.2
441,654 + Xcc-8004.478.1 0.70 -1.3
441,695 + Xcc-8004.478.1 0.76 -0.8
441,695 + Xcc-8004.478.1 0.76 +0.5
441,695 + Xcc-8004.478.1 0.76 -0.8
441,695 + Xcc-8004.478.1 0.76 -0.1
441,695 + Xcc-8004.478.1 0.76 -0.1
441,695 + Xcc-8004.478.1 0.76 -1.7
441,696 - Xcc-8004.478.1 0.76 -1.8
441,696 - Xcc-8004.478.1 0.76 +2.2
441,696 - Xcc-8004.478.1 0.76 -0.9
441,734 + Xcc-8004.478.1 0.81 +1.8
441,734 + Xcc-8004.478.1 0.81 +1.5
441,734 + Xcc-8004.478.1 0.81 -0.5
441,734 + Xcc-8004.478.1 0.81 -1.6
441,734 + Xcc-8004.478.1 0.81 +0.8
441,735 - Xcc-8004.478.1 0.81 -1.7
441,735 - Xcc-8004.478.1 0.81 +1.5
441,810 - -0.9
441,942 + Xcc-8004.479.1 0.12 -1.6
441,942 + Xcc-8004.479.1 0.12 -1.7
441,942 + Xcc-8004.479.1 0.12 +1.6
441,942 + Xcc-8004.479.1 0.12 +1.4
441,943 - Xcc-8004.479.1 0.12 +1.3
441,943 - Xcc-8004.479.1 0.12 +0.1
442,048 + Xcc-8004.479.1 0.30 -0.1
442,048 + Xcc-8004.479.1 0.30 -0.6
442,049 - Xcc-8004.479.1 0.31 -2.1
442,049 - Xcc-8004.479.1 0.31 +0.5
442,049 - Xcc-8004.479.1 0.31 +0.5
442,049 - Xcc-8004.479.1 0.31 +1.1
442,074 + Xcc-8004.479.1 0.35 +0.9
442,074 + Xcc-8004.479.1 0.35 -0.1
442,074 + Xcc-8004.479.1 0.35 -0.6
442,074 + Xcc-8004.479.1 0.35 -0.3
442,074 + Xcc-8004.479.1 0.35 -2.3
442,075 - Xcc-8004.479.1 0.35 -1.1
442,075 - Xcc-8004.479.1 0.35 -1.7
442,075 - Xcc-8004.479.1 0.35 +1.8
442,075 - Xcc-8004.479.1 0.35 -2.9
442,075 - Xcc-8004.479.1 0.35 +0.1
442,075 - Xcc-8004.479.1 0.35 +1.0
442,075 - Xcc-8004.479.1 0.35 -1.3
442,075 - Xcc-8004.479.1 0.35 -1.9
442,075 - Xcc-8004.479.1 0.35 -1.8
442,075 - Xcc-8004.479.1 0.35 -0.4
442,075 - Xcc-8004.479.1 0.35 +1.8
442,075 - Xcc-8004.479.1 0.35 +1.2
442,075 - Xcc-8004.479.1 0.35 +1.8
442,281 + Xcc-8004.479.1 0.72 -0.2
442,281 + Xcc-8004.479.1 0.72 -1.3
442,383 + +1.0
442,383 + +1.6
442,383 + +0.0
442,384 - -1.3
442,384 - +0.4
442,384 - +0.8
442,384 - +0.2
442,434 + +0.2
442,434 + +0.1
442,435 - -0.2
442,475 - -1.2

Or see this region's nucleotide sequence