Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1953.1

Experiment: Clovis xylem sap

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntXcc-8004.1951.1 and Xcc-8004.1952.1 overlap by 4 nucleotidesXcc-8004.1952.1 and Xcc-8004.1953.1 are separated by 80 nucleotidesXcc-8004.1953.1 and Xcc-8004.1954.1 overlap by 11 nucleotidesXcc-8004.1954.1 and Xcc-8004.1955.1 overlap by 11 nucleotides Xcc-8004.1951.1: Xcc-8004.1951.1 - Phosphatidylserine decarboxylase (EC 4.1.1.65), at 1,881,810 to 1,882,658 Xcc-8004.1951.1 Xcc-8004.1952.1: Xcc-8004.1952.1 - Cytochrome oxidase biogenesis protein Sco1/SenC/PrrC, putative copper metallochaperone, at 1,882,655 to 1,883,305 Xcc-8004.1952.1 Xcc-8004.1953.1: Xcc-8004.1953.1 - Protein-N(5)-glutamine methyltransferase PrmB, methylates LSU ribosomal protein L3p, at 1,883,386 to 1,884,312 Xcc-8004.1953.1 Xcc-8004.1954.1: Xcc-8004.1954.1 - putative; ORF located using Glimmer/Genemark, at 1,884,302 to 1,884,790 Xcc-8004.1954.1 Xcc-8004.1955.1: Xcc-8004.1955.1 - Chorismate synthase (EC 4.2.3.5), at 1,884,780 to 1,885,883 Xcc-8004.1955.1 Position (kb) 1883 1884 1885Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1882.789 kb on - strand, within Xcc-8004.1952.1at 1882.789 kb on - strand, within Xcc-8004.1952.1at 1882.789 kb on - strand, within Xcc-8004.1952.1at 1882.921 kb on - strand, within Xcc-8004.1952.1at 1883.084 kb on + strand, within Xcc-8004.1952.1at 1883.084 kb on + strand, within Xcc-8004.1952.1at 1883.084 kb on + strand, within Xcc-8004.1952.1at 1883.084 kb on + strand, within Xcc-8004.1952.1at 1883.084 kb on + strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.085 kb on - strand, within Xcc-8004.1952.1at 1883.176 kb on - strand, within Xcc-8004.1952.1at 1883.176 kb on - strand, within Xcc-8004.1952.1at 1883.253 kb on - strandat 1883.337 kb on - strandat 1883.337 kb on - strandat 1883.351 kb on + strandat 1883.352 kb on - strandat 1883.352 kb on - strandat 1883.352 kb on - strandat 1883.353 kb on + strandat 1883.353 kb on + strandat 1883.353 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.375 kb on + strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.376 kb on - strandat 1883.485 kb on + strand, within Xcc-8004.1953.1at 1883.485 kb on + strand, within Xcc-8004.1953.1at 1883.647 kb on + strand, within Xcc-8004.1953.1at 1883.647 kb on + strand, within Xcc-8004.1953.1at 1883.647 kb on + strand, within Xcc-8004.1953.1at 1883.647 kb on + strand, within Xcc-8004.1953.1at 1883.647 kb on + strand, within Xcc-8004.1953.1at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1884.001 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.046 kb on + strand, within Xcc-8004.1953.1at 1884.431 kb on + strand, within Xcc-8004.1954.1at 1884.431 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.944 kb on + strand, within Xcc-8004.1955.1at 1884.993 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.173 kb on - strand, within Xcc-8004.1955.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Clovis xylem sap
remove
1,882,789 - Xcc-8004.1952.1 0.21 -0.7
1,882,789 - Xcc-8004.1952.1 0.21 -0.5
1,882,789 - Xcc-8004.1952.1 0.21 +1.3
1,882,921 - Xcc-8004.1952.1 0.41 -0.5
1,883,084 + Xcc-8004.1952.1 0.66 -0.6
1,883,084 + Xcc-8004.1952.1 0.66 -0.6
1,883,084 + Xcc-8004.1952.1 0.66 -0.6
1,883,084 + Xcc-8004.1952.1 0.66 -0.7
1,883,084 + Xcc-8004.1952.1 0.66 -0.1
1,883,085 - Xcc-8004.1952.1 0.66 -1.3
1,883,085 - Xcc-8004.1952.1 0.66 +0.1
1,883,085 - Xcc-8004.1952.1 0.66 +0.3
1,883,085 - Xcc-8004.1952.1 0.66 -0.5
1,883,085 - Xcc-8004.1952.1 0.66 +0.9
1,883,085 - Xcc-8004.1952.1 0.66 -0.1
1,883,085 - Xcc-8004.1952.1 0.66 +0.1
1,883,176 - Xcc-8004.1952.1 0.80 +0.0
1,883,176 - Xcc-8004.1952.1 0.80 -0.5
1,883,253 - +1.1
1,883,337 - -0.9
1,883,337 - +0.1
1,883,351 + +1.3
1,883,352 - +1.3
1,883,352 - +1.9
1,883,352 - -0.9
1,883,353 + +1.6
1,883,353 + -1.1
1,883,353 + -0.9
1,883,375 + -1.1
1,883,375 + -1.3
1,883,375 + -1.1
1,883,375 + -0.4
1,883,375 + -0.6
1,883,375 + -1.0
1,883,375 + -0.2
1,883,375 + +2.2
1,883,375 + +0.5
1,883,375 + +1.2
1,883,375 + +0.4
1,883,375 + -0.3
1,883,375 + -0.6
1,883,375 + -2.2
1,883,376 - -2.6
1,883,376 - -1.8
1,883,376 - -1.1
1,883,376 - -0.8
1,883,376 - -1.7
1,883,376 - -1.1
1,883,376 - -1.9
1,883,376 - -2.6
1,883,376 - -2.1
1,883,376 - -0.4
1,883,376 - -1.4
1,883,376 - -1.2
1,883,485 + Xcc-8004.1953.1 0.11 -0.7
1,883,485 + Xcc-8004.1953.1 0.11 +0.5
1,883,647 + Xcc-8004.1953.1 0.28 +0.5
1,883,647 + Xcc-8004.1953.1 0.28 -0.4
1,883,647 + Xcc-8004.1953.1 0.28 -1.5
1,883,647 + Xcc-8004.1953.1 0.28 -0.2
1,883,647 + Xcc-8004.1953.1 0.28 +0.5
1,883,833 + Xcc-8004.1953.1 0.48 -0.5
1,883,833 + Xcc-8004.1953.1 0.48 -0.3
1,883,833 + Xcc-8004.1953.1 0.48 -1.0
1,883,974 + Xcc-8004.1953.1 0.63 -1.0
1,883,974 + Xcc-8004.1953.1 0.63 +0.5
1,883,974 + Xcc-8004.1953.1 0.63 +0.5
1,883,974 + Xcc-8004.1953.1 0.63 -0.6
1,884,001 + Xcc-8004.1953.1 0.66 -0.1
1,884,040 + Xcc-8004.1953.1 0.71 -1.3
1,884,040 + Xcc-8004.1953.1 0.71 +0.0
1,884,040 + Xcc-8004.1953.1 0.71 -0.1
1,884,040 + Xcc-8004.1953.1 0.71 -0.4
1,884,046 + Xcc-8004.1953.1 0.71 -0.3
1,884,431 + Xcc-8004.1954.1 0.26 -1.7
1,884,431 + Xcc-8004.1954.1 0.26 -0.7
1,884,549 + Xcc-8004.1954.1 0.51 +0.2
1,884,549 + Xcc-8004.1954.1 0.51 +0.1
1,884,549 + Xcc-8004.1954.1 0.51 +0.4
1,884,549 + Xcc-8004.1954.1 0.51 -0.7
1,884,550 - Xcc-8004.1954.1 0.51 -1.3
1,884,550 - Xcc-8004.1954.1 0.51 -0.7
1,884,550 - Xcc-8004.1954.1 0.51 -0.6
1,884,550 - Xcc-8004.1954.1 0.51 -2.2
1,884,550 - Xcc-8004.1954.1 0.51 -0.8
1,884,550 - Xcc-8004.1954.1 0.51 -0.6
1,884,944 + Xcc-8004.1955.1 0.15 -0.6
1,884,993 + Xcc-8004.1955.1 0.19 +1.2
1,885,062 + Xcc-8004.1955.1 0.26 -1.6
1,885,062 + Xcc-8004.1955.1 0.26 -0.2
1,885,062 + Xcc-8004.1955.1 0.26 -1.5
1,885,062 + Xcc-8004.1955.1 0.26 -1.8
1,885,110 + Xcc-8004.1955.1 0.30 -1.3
1,885,110 + Xcc-8004.1955.1 0.30 -1.5
1,885,110 + Xcc-8004.1955.1 0.30 -3.3
1,885,110 + Xcc-8004.1955.1 0.30 -2.4
1,885,172 + Xcc-8004.1955.1 0.36 -2.1
1,885,172 + Xcc-8004.1955.1 0.36 -0.8
1,885,172 + Xcc-8004.1955.1 0.36 +0.0
1,885,173 - Xcc-8004.1955.1 0.36 -3.1

Or see this region's nucleotide sequence