Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3690.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

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-8004.3689.1 and Xcc-8004.3690.1 are separated by 125 nucleotidesXcc-8004.3690.1 and Xcc-8004.3691.1 are separated by 359 nucleotides Xcc-8004.3689.1: Xcc-8004.3689.1 - Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27), at 3,567,856 to 3,569,361 Xcc-8004.3689.1 Xcc-8004.3690.1: Xcc-8004.3690.1 - Transcriptional regulator, XRE family protein, at 3,569,487 to 3,570,869 Xcc-8004.3690.1 Xcc-8004.3691.1: Xcc-8004.3691.1 - N-acetylglucosamine-regulated TonB-dependent outer membrane receptor, at 3,571,229 to 3,573,913 Xcc-8004.3691.1 Position (kb) 3569 3570 3571Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 3568.650 kb on - strand, within Xcc-8004.3689.1at 3568.650 kb on - strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.405 kb on + strandat 3569.454 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.605 kb on - strandat 3569.605 kb on - strandat 3569.605 kb on - strandat 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.843 kb on + strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.940 kb on + strand, within Xcc-8004.3690.1at 3569.941 kb on - strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.997 kb on + strand, within Xcc-8004.3690.1at 3570.294 kb on + strand, within Xcc-8004.3690.1at 3570.295 kb on - strand, within Xcc-8004.3690.1at 3570.295 kb on - strand, within Xcc-8004.3690.1at 3570.321 kb on + strand, within Xcc-8004.3690.1at 3570.321 kb on + strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1at 3570.561 kb on + strand, within Xcc-8004.3690.1at 3570.561 kb on + strand, within Xcc-8004.3690.1at 3570.561 kb on + strand, within Xcc-8004.3690.1at 3570.562 kb on - strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.608 kb on + strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.609 kb on - strand, within Xcc-8004.3690.1at 3570.627 kb on + strand, within Xcc-8004.3690.1at 3570.627 kb on + strand, within Xcc-8004.3690.1at 3570.628 kb on - strand, within Xcc-8004.3690.1at 3570.628 kb on - strand, within Xcc-8004.3690.1at 3570.628 kb on - strand, within Xcc-8004.3690.1at 3570.738 kb on + strandat 3570.739 kb on - strandat 3570.739 kb on - strandat 3570.778 kb on + strandat 3570.778 kb on + strandat 3570.779 kb on - strandat 3570.779 kb on - strandat 3570.868 kb on - strandat 3570.868 kb on - strandat 3570.893 kb on + strandat 3570.894 kb on - strandat 3570.894 kb on - strandat 3570.894 kb on - strandat 3570.900 kb on + strandat 3570.900 kb on + strandat 3570.900 kb on + strandat 3570.901 kb on - strandat 3570.901 kb on - strandat 3570.901 kb on - strandat 3570.901 kb on - strandat 3570.901 kb on - strandat 3570.978 kb on + strandat 3570.978 kb on + strandat 3570.979 kb on - strandat 3570.979 kb on - strandat 3570.979 kb on - strandat 3570.979 kb on - strandat 3571.023 kb on + strandat 3571.023 kb on + strandat 3571.024 kb on - strandat 3571.024 kb on - strandat 3571.024 kb on - strandat 3571.047 kb on - strandat 3571.090 kb on - strandat 3571.135 kb on + strandat 3571.136 kb on - strandat 3571.146 kb on + strandat 3571.146 kb on + strandat 3571.736 kb on + strand, within Xcc-8004.3691.1at 3571.737 kb on - strand, within Xcc-8004.3691.1at 3571.737 kb on - strand, within Xcc-8004.3691.1at 3571.814 kb on + strand, within Xcc-8004.3691.1at 3571.815 kb on - strand, within Xcc-8004.3691.1at 3571.815 kb on - strand, within Xcc-8004.3691.1at 3571.815 kb on - strand, within Xcc-8004.3691.1at 3571.816 kb on + strand, within Xcc-8004.3691.1at 3571.857 kb on - strand, within Xcc-8004.3691.1at 3571.857 kb on - strand, within Xcc-8004.3691.1at 3571.857 kb on - strand, within Xcc-8004.3691.1at 3571.857 kb on - strand, within Xcc-8004.3691.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
remove
3,568,650 - Xcc-8004.3689.1 0.53 -1.2
3,568,650 - Xcc-8004.3689.1 0.53 +1.2
3,568,845 + Xcc-8004.3689.1 0.66 -1.0
3,568,845 + Xcc-8004.3689.1 0.66 -1.4
3,568,845 + Xcc-8004.3689.1 0.66 -0.4
3,568,846 - Xcc-8004.3689.1 0.66 +0.5
3,568,846 - Xcc-8004.3689.1 0.66 +0.1
3,568,846 - Xcc-8004.3689.1 0.66 -2.0
3,568,846 - Xcc-8004.3689.1 0.66 +2.1
3,568,846 - Xcc-8004.3689.1 0.66 -2.0
3,568,930 + Xcc-8004.3689.1 0.71 -1.1
3,568,930 + Xcc-8004.3689.1 0.71 +0.7
3,568,930 + Xcc-8004.3689.1 0.71 -3.1
3,568,949 + Xcc-8004.3689.1 0.73 -2.2
3,568,949 + Xcc-8004.3689.1 0.73 -0.2
3,568,949 + Xcc-8004.3689.1 0.73 -0.5
3,568,949 + Xcc-8004.3689.1 0.73 -2.0
3,568,949 + Xcc-8004.3689.1 0.73 +3.4
3,568,949 + Xcc-8004.3689.1 0.73 +0.3
3,568,949 + Xcc-8004.3689.1 0.73 -1.0
3,568,949 + Xcc-8004.3689.1 0.73 +1.5
3,568,949 + Xcc-8004.3689.1 0.73 -1.6
3,568,950 - Xcc-8004.3689.1 0.73 +0.5
3,568,950 - Xcc-8004.3689.1 0.73 -0.7
3,568,950 - Xcc-8004.3689.1 0.73 +0.9
3,568,950 - Xcc-8004.3689.1 0.73 -0.9
3,568,950 - Xcc-8004.3689.1 0.73 -0.4
3,568,950 - Xcc-8004.3689.1 0.73 +2.8
3,568,950 - Xcc-8004.3689.1 0.73 -1.7
3,569,135 + Xcc-8004.3689.1 0.85 -2.6
3,569,135 + Xcc-8004.3689.1 0.85 -1.0
3,569,135 + Xcc-8004.3689.1 0.85 -0.6
3,569,136 - Xcc-8004.3689.1 0.85 -0.9
3,569,136 - Xcc-8004.3689.1 0.85 -1.4
3,569,136 - Xcc-8004.3689.1 0.85 -2.4
3,569,405 + -1.9
3,569,454 + -0.9
3,569,604 + -0.6
3,569,604 + -1.1
3,569,604 + -0.9
3,569,604 + -2.5
3,569,605 - +0.8
3,569,605 - -3.2
3,569,605 - -0.2
3,569,743 + Xcc-8004.3690.1 0.19 -1.6
3,569,743 + Xcc-8004.3690.1 0.19 -0.0
3,569,743 + Xcc-8004.3690.1 0.19 -2.3
3,569,744 - Xcc-8004.3690.1 0.19 -0.1
3,569,744 - Xcc-8004.3690.1 0.19 -0.8
3,569,744 - Xcc-8004.3690.1 0.19 -0.3
3,569,744 - Xcc-8004.3690.1 0.19 -1.2
3,569,843 + Xcc-8004.3690.1 0.26 -1.3
3,569,844 - Xcc-8004.3690.1 0.26 -1.0
3,569,844 - Xcc-8004.3690.1 0.26 -1.2
3,569,844 - Xcc-8004.3690.1 0.26 -1.5
3,569,844 - Xcc-8004.3690.1 0.26 -0.1
3,569,940 + Xcc-8004.3690.1 0.33 -1.0
3,569,941 - Xcc-8004.3690.1 0.33 -0.1
3,569,961 + Xcc-8004.3690.1 0.34 -1.0
3,569,961 + Xcc-8004.3690.1 0.34 +0.1
3,569,961 + Xcc-8004.3690.1 0.34 +0.9
3,569,961 + Xcc-8004.3690.1 0.34 +0.6
3,569,961 + Xcc-8004.3690.1 0.34 -1.6
3,569,961 + Xcc-8004.3690.1 0.34 -0.5
3,569,961 + Xcc-8004.3690.1 0.34 -2.0
3,569,961 + Xcc-8004.3690.1 0.34 -1.8
3,569,962 - Xcc-8004.3690.1 0.34 -1.7
3,569,962 - Xcc-8004.3690.1 0.34 -0.3
3,569,962 - Xcc-8004.3690.1 0.34 -1.4
3,569,962 - Xcc-8004.3690.1 0.34 -1.0
3,569,962 - Xcc-8004.3690.1 0.34 +0.8
3,569,997 + Xcc-8004.3690.1 0.37 -2.2
3,570,294 + Xcc-8004.3690.1 0.58 -0.0
3,570,295 - Xcc-8004.3690.1 0.58 -1.7
3,570,295 - Xcc-8004.3690.1 0.58 -0.9
3,570,321 + Xcc-8004.3690.1 0.60 -1.2
3,570,321 + Xcc-8004.3690.1 0.60 -0.8
3,570,322 - Xcc-8004.3690.1 0.60 -0.4
3,570,322 - Xcc-8004.3690.1 0.60 -2.4
3,570,322 - Xcc-8004.3690.1 0.60 -0.4
3,570,561 + Xcc-8004.3690.1 0.78 -1.7
3,570,561 + Xcc-8004.3690.1 0.78 +0.3
3,570,561 + Xcc-8004.3690.1 0.78 -1.5
3,570,562 - Xcc-8004.3690.1 0.78 -0.1
3,570,608 + Xcc-8004.3690.1 0.81 -0.7
3,570,608 + Xcc-8004.3690.1 0.81 -0.6
3,570,608 + Xcc-8004.3690.1 0.81 +1.3
3,570,608 + Xcc-8004.3690.1 0.81 -1.3
3,570,608 + Xcc-8004.3690.1 0.81 -0.0
3,570,608 + Xcc-8004.3690.1 0.81 -0.8
3,570,608 + Xcc-8004.3690.1 0.81 -1.4
3,570,608 + Xcc-8004.3690.1 0.81 -1.3
3,570,609 - Xcc-8004.3690.1 0.81 +0.2
3,570,609 - Xcc-8004.3690.1 0.81 -1.5
3,570,609 - Xcc-8004.3690.1 0.81 +0.2
3,570,609 - Xcc-8004.3690.1 0.81 -2.4
3,570,609 - Xcc-8004.3690.1 0.81 -1.2
3,570,609 - Xcc-8004.3690.1 0.81 -0.1
3,570,609 - Xcc-8004.3690.1 0.81 +0.3
3,570,609 - Xcc-8004.3690.1 0.81 +0.9
3,570,627 + Xcc-8004.3690.1 0.82 -1.5
3,570,627 + Xcc-8004.3690.1 0.82 -0.6
3,570,628 - Xcc-8004.3690.1 0.83 -1.8
3,570,628 - Xcc-8004.3690.1 0.83 +0.7
3,570,628 - Xcc-8004.3690.1 0.83 -1.5
3,570,738 + -0.9
3,570,739 - -0.2
3,570,739 - -0.3
3,570,778 + +1.2
3,570,778 + -0.9
3,570,779 - -0.3
3,570,779 - +0.4
3,570,868 - -0.3
3,570,868 - +0.7
3,570,893 + +1.8
3,570,894 - +1.1
3,570,894 - -1.0
3,570,894 - +0.6
3,570,900 + -0.6
3,570,900 + +0.4
3,570,900 + +1.1
3,570,901 - -0.5
3,570,901 - +1.0
3,570,901 - -0.6
3,570,901 - +0.4
3,570,901 - +0.6
3,570,978 + -0.4
3,570,978 + -0.4
3,570,979 - +1.6
3,570,979 - +0.8
3,570,979 - +0.0
3,570,979 - -0.7
3,571,023 + +0.1
3,571,023 + +0.1
3,571,024 - -2.5
3,571,024 - +1.3
3,571,024 - -0.2
3,571,047 - -3.0
3,571,090 - +0.1
3,571,135 + -1.3
3,571,136 - -0.5
3,571,146 + +0.8
3,571,146 + +0.7
3,571,736 + Xcc-8004.3691.1 0.19 +1.2
3,571,737 - Xcc-8004.3691.1 0.19 -0.1
3,571,737 - Xcc-8004.3691.1 0.19 +1.1
3,571,814 + Xcc-8004.3691.1 0.22 +0.5
3,571,815 - Xcc-8004.3691.1 0.22 -0.7
3,571,815 - Xcc-8004.3691.1 0.22 +0.6
3,571,815 - Xcc-8004.3691.1 0.22 +1.8
3,571,816 + Xcc-8004.3691.1 0.22 +0.1
3,571,857 - Xcc-8004.3691.1 0.23 +0.8
3,571,857 - Xcc-8004.3691.1 0.23 -0.1
3,571,857 - Xcc-8004.3691.1 0.23 +0.1
3,571,857 - Xcc-8004.3691.1 0.23 -0.5

Or see this region's nucleotide sequence