Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3193.1

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-8004.3190.1 and Xcc-8004.3191.1 overlap by 4 nucleotidesXcc-8004.3191.1 and Xcc-8004.3192.1 overlap by 4 nucleotidesXcc-8004.3192.1 and Xcc-8004.3193.1 overlap by 1 nucleotidesXcc-8004.3193.1 and Xcc-8004.3194.1 are separated by 37 nucleotides Xcc-8004.3190.1: Xcc-8004.3190.1 - Cytochrome c heme lyase subunit CcmF, at 3,104,368 to 3,106,365 Xcc-8004.3190.1 Xcc-8004.3191.1: Xcc-8004.3191.1 - Cytochrome c-type biogenesis protein CcmG/DsbE, thiol:disulfide oxidoreductase, at 3,106,362 to 3,106,904 Xcc-8004.3191.1 Xcc-8004.3192.1: Xcc-8004.3192.1 - Cytochrome c heme lyase subunit CcmL, at 3,106,901 to 3,107,353 Xcc-8004.3192.1 Xcc-8004.3193.1: Xcc-8004.3193.1 - C-type cytochrome biogenesis protein, at 3,107,353 to 3,108,078 Xcc-8004.3193.1 Xcc-8004.3194.1: Xcc-8004.3194.1 - Histidine kinase/response regulator hybrid protein, at 3,108,116 to 3,110,188 Xcc-8004.3194.1 Position (kb) 3107 3108 3109Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 3106.425 kb on + strand, within Xcc-8004.3191.1at 3106.426 kb on - strand, within Xcc-8004.3191.1at 3106.426 kb on - strand, within Xcc-8004.3191.1at 3106.557 kb on + strand, within Xcc-8004.3191.1at 3106.557 kb on + strand, within Xcc-8004.3191.1at 3106.657 kb on - strand, within Xcc-8004.3191.1at 3106.662 kb on + strand, within Xcc-8004.3191.1at 3106.662 kb on + strand, within Xcc-8004.3191.1at 3106.662 kb on + strand, within Xcc-8004.3191.1at 3106.663 kb on - strand, within Xcc-8004.3191.1at 3106.663 kb on - strand, within Xcc-8004.3191.1at 3106.663 kb on - strand, within Xcc-8004.3191.1at 3106.716 kb on + strand, within Xcc-8004.3191.1at 3106.717 kb on - strand, within Xcc-8004.3191.1at 3106.717 kb on - strand, within Xcc-8004.3191.1at 3106.717 kb on - strand, within Xcc-8004.3191.1at 3106.770 kb on + strand, within Xcc-8004.3191.1at 3106.770 kb on + strand, within Xcc-8004.3191.1at 3106.770 kb on + strand, within Xcc-8004.3191.1at 3106.771 kb on - strand, within Xcc-8004.3191.1at 3106.771 kb on - strand, within Xcc-8004.3191.1at 3106.818 kb on + strand, within Xcc-8004.3191.1at 3106.818 kb on + strand, within Xcc-8004.3191.1at 3107.171 kb on + strand, within Xcc-8004.3192.1at 3107.171 kb on + strand, within Xcc-8004.3192.1at 3107.171 kb on + strand, within Xcc-8004.3192.1at 3107.171 kb on + strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.172 kb on - strand, within Xcc-8004.3192.1at 3107.205 kb on - strand, within Xcc-8004.3192.1at 3107.205 kb on - strand, within Xcc-8004.3192.1at 3107.365 kb on + strandat 3107.365 kb on + strandat 3107.365 kb on + strandat 3107.366 kb on - strandat 3107.624 kb on + strand, within Xcc-8004.3193.1at 3107.624 kb on + strand, within Xcc-8004.3193.1at 3107.625 kb on - strand, within Xcc-8004.3193.1at 3107.744 kb on - strand, within Xcc-8004.3193.1at 3107.744 kb on - strand, within Xcc-8004.3193.1at 3107.744 kb on - strand, within Xcc-8004.3193.1at 3107.939 kb on - strand, within Xcc-8004.3193.1at 3108.169 kb on + strandat 3108.169 kb on + strandat 3108.169 kb on + strandat 3108.170 kb on - strandat 3108.170 kb on - strandat 3108.170 kb on - strandat 3108.425 kb on + strand, within Xcc-8004.3194.1at 3108.425 kb on + strand, within Xcc-8004.3194.1at 3108.426 kb on - strand, within Xcc-8004.3194.1at 3108.555 kb on + strand, within Xcc-8004.3194.1at 3108.555 kb on + strand, within Xcc-8004.3194.1at 3108.555 kb on + strand, within Xcc-8004.3194.1at 3108.555 kb on + strand, within Xcc-8004.3194.1at 3108.556 kb on - strand, within Xcc-8004.3194.1at 3108.556 kb on - strand, within Xcc-8004.3194.1at 3108.556 kb on - strand, within Xcc-8004.3194.1at 3108.556 kb on - strand, within Xcc-8004.3194.1at 3108.630 kb on + strand, within Xcc-8004.3194.1at 3108.630 kb on + strand, within Xcc-8004.3194.1at 3108.631 kb on - strand, within Xcc-8004.3194.1at 3108.681 kb on + strand, within Xcc-8004.3194.1at 3108.681 kb on + strand, within Xcc-8004.3194.1at 3108.682 kb on - strand, within Xcc-8004.3194.1at 3108.682 kb on - strand, within Xcc-8004.3194.1at 3108.682 kb on - strand, within Xcc-8004.3194.1at 3108.682 kb on - strand, within Xcc-8004.3194.1at 3108.682 kb on - strand, within Xcc-8004.3194.1at 3108.775 kb on + strand, within Xcc-8004.3194.1at 3108.775 kb on + strand, within Xcc-8004.3194.1at 3108.776 kb on - strand, within Xcc-8004.3194.1at 3108.918 kb on + strand, within Xcc-8004.3194.1at 3108.918 kb on + strand, within Xcc-8004.3194.1at 3108.918 kb on + strand, within Xcc-8004.3194.1at 3108.919 kb on - strand, within Xcc-8004.3194.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Clovis xylem sap
remove
3,106,425 + Xcc-8004.3191.1 0.12 +0.7
3,106,426 - Xcc-8004.3191.1 0.12 +0.9
3,106,426 - Xcc-8004.3191.1 0.12 +0.6
3,106,557 + Xcc-8004.3191.1 0.36 +1.1
3,106,557 + Xcc-8004.3191.1 0.36 +0.2
3,106,657 - Xcc-8004.3191.1 0.54 -0.4
3,106,662 + Xcc-8004.3191.1 0.55 +0.4
3,106,662 + Xcc-8004.3191.1 0.55 -0.0
3,106,662 + Xcc-8004.3191.1 0.55 +0.5
3,106,663 - Xcc-8004.3191.1 0.55 +2.3
3,106,663 - Xcc-8004.3191.1 0.55 +1.7
3,106,663 - Xcc-8004.3191.1 0.55 +0.4
3,106,716 + Xcc-8004.3191.1 0.65 -0.8
3,106,717 - Xcc-8004.3191.1 0.65 +1.5
3,106,717 - Xcc-8004.3191.1 0.65 +1.5
3,106,717 - Xcc-8004.3191.1 0.65 -2.1
3,106,770 + Xcc-8004.3191.1 0.75 +1.3
3,106,770 + Xcc-8004.3191.1 0.75 +2.1
3,106,770 + Xcc-8004.3191.1 0.75 +0.6
3,106,771 - Xcc-8004.3191.1 0.75 -1.5
3,106,771 - Xcc-8004.3191.1 0.75 +0.8
3,106,818 + Xcc-8004.3191.1 0.84 -0.2
3,106,818 + Xcc-8004.3191.1 0.84 +0.5
3,107,171 + Xcc-8004.3192.1 0.60 -1.2
3,107,171 + Xcc-8004.3192.1 0.60 +1.8
3,107,171 + Xcc-8004.3192.1 0.60 -0.5
3,107,171 + Xcc-8004.3192.1 0.60 -0.4
3,107,172 - Xcc-8004.3192.1 0.60 +2.7
3,107,172 - Xcc-8004.3192.1 0.60 +0.5
3,107,172 - Xcc-8004.3192.1 0.60 +1.5
3,107,172 - Xcc-8004.3192.1 0.60 +0.5
3,107,172 - Xcc-8004.3192.1 0.60 -0.0
3,107,172 - Xcc-8004.3192.1 0.60 +0.5
3,107,205 - Xcc-8004.3192.1 0.67 -0.1
3,107,205 - Xcc-8004.3192.1 0.67 -0.3
3,107,365 + +0.0
3,107,365 + -0.9
3,107,365 + -2.9
3,107,366 - -0.9
3,107,624 + Xcc-8004.3193.1 0.37 -1.6
3,107,624 + Xcc-8004.3193.1 0.37 -0.6
3,107,625 - Xcc-8004.3193.1 0.37 -1.1
3,107,744 - Xcc-8004.3193.1 0.54 -1.4
3,107,744 - Xcc-8004.3193.1 0.54 -1.4
3,107,744 - Xcc-8004.3193.1 0.54 -1.3
3,107,939 - Xcc-8004.3193.1 0.81 +1.6
3,108,169 + -1.5
3,108,169 + +0.7
3,108,169 + -0.2
3,108,170 - -0.6
3,108,170 - +0.2
3,108,170 - -0.4
3,108,425 + Xcc-8004.3194.1 0.15 +0.3
3,108,425 + Xcc-8004.3194.1 0.15 -0.9
3,108,426 - Xcc-8004.3194.1 0.15 -1.5
3,108,555 + Xcc-8004.3194.1 0.21 +1.2
3,108,555 + Xcc-8004.3194.1 0.21 +1.8
3,108,555 + Xcc-8004.3194.1 0.21 -0.0
3,108,555 + Xcc-8004.3194.1 0.21 -0.2
3,108,556 - Xcc-8004.3194.1 0.21 -0.8
3,108,556 - Xcc-8004.3194.1 0.21 +0.1
3,108,556 - Xcc-8004.3194.1 0.21 -0.5
3,108,556 - Xcc-8004.3194.1 0.21 +0.5
3,108,630 + Xcc-8004.3194.1 0.25 +0.1
3,108,630 + Xcc-8004.3194.1 0.25 +0.5
3,108,631 - Xcc-8004.3194.1 0.25 +1.0
3,108,681 + Xcc-8004.3194.1 0.27 -0.3
3,108,681 + Xcc-8004.3194.1 0.27 -0.2
3,108,682 - Xcc-8004.3194.1 0.27 +0.1
3,108,682 - Xcc-8004.3194.1 0.27 +0.5
3,108,682 - Xcc-8004.3194.1 0.27 -1.0
3,108,682 - Xcc-8004.3194.1 0.27 +1.5
3,108,682 - Xcc-8004.3194.1 0.27 +1.0
3,108,775 + Xcc-8004.3194.1 0.32 +1.0
3,108,775 + Xcc-8004.3194.1 0.32 +0.1
3,108,776 - Xcc-8004.3194.1 0.32 +1.1
3,108,918 + Xcc-8004.3194.1 0.39 -0.5
3,108,918 + Xcc-8004.3194.1 0.39 -0.2
3,108,918 + Xcc-8004.3194.1 0.39 +0.1
3,108,919 - Xcc-8004.3194.1 0.39 -0.9

Or see this region's nucleotide sequence