Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.2372.1

Experiment: Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X

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-8004.2371.1 and Xcc-8004.2372.1 are separated by 147 nucleotidesXcc-8004.2372.1 and Xcc-8004.2373.1 overlap by 8 nucleotidesXcc-8004.2373.1 and Xcc-8004.2374.1 are separated by 6 nucleotides Xcc-8004.2371.1: Xcc-8004.2371.1 - putative secreted protein, at 2,316,353 to 2,317,291 Xcc-8004.2371.1 Xcc-8004.2372.1: Xcc-8004.2372.1 - Pheromone shutdown protein, at 2,317,439 to 2,318,671 Xcc-8004.2372.1 Xcc-8004.2373.1: Xcc-8004.2373.1 - Phosphinothricin N-acetyltransferase, at 2,318,664 to 2,319,191 Xcc-8004.2373.1 Xcc-8004.2374.1: Xcc-8004.2374.1 - N-carbamoylputrescine amidase (3.5.1.53) / Aliphatic amidase AmiE (EC 3.5.1.4), at 2,319,198 to 2,320,082 Xcc-8004.2374.1 Position (kb) 2317 2318 2319Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 2316.590 kb on + strand, within Xcc-8004.2371.1at 2316.590 kb on + strand, within Xcc-8004.2371.1at 2316.590 kb on + strand, within Xcc-8004.2371.1at 2316.590 kb on + strand, within Xcc-8004.2371.1at 2316.590 kb on + strand, within Xcc-8004.2371.1at 2316.591 kb on - strand, within Xcc-8004.2371.1at 2316.591 kb on - strand, within Xcc-8004.2371.1at 2316.591 kb on - strand, within Xcc-8004.2371.1at 2316.591 kb on - strand, within Xcc-8004.2371.1at 2316.710 kb on + strand, within Xcc-8004.2371.1at 2316.710 kb on + strand, within Xcc-8004.2371.1at 2316.710 kb on + strand, within Xcc-8004.2371.1at 2316.710 kb on + strand, within Xcc-8004.2371.1at 2316.752 kb on + strand, within Xcc-8004.2371.1at 2316.853 kb on + strand, within Xcc-8004.2371.1at 2316.853 kb on + strand, within Xcc-8004.2371.1at 2316.854 kb on - strand, within Xcc-8004.2371.1at 2316.854 kb on - strand, within Xcc-8004.2371.1at 2316.878 kb on + strand, within Xcc-8004.2371.1at 2316.879 kb on - strand, within Xcc-8004.2371.1at 2316.879 kb on - strand, within Xcc-8004.2371.1at 2317.041 kb on + strand, within Xcc-8004.2371.1at 2317.041 kb on + strand, within Xcc-8004.2371.1at 2317.052 kb on + strand, within Xcc-8004.2371.1at 2317.053 kb on - strand, within Xcc-8004.2371.1at 2317.053 kb on - strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.064 kb on + strand, within Xcc-8004.2371.1at 2317.065 kb on - strand, within Xcc-8004.2371.1at 2317.065 kb on - strand, within Xcc-8004.2371.1at 2317.208 kb on + strandat 2317.252 kb on - strandat 2317.307 kb on + strandat 2317.315 kb on + strandat 2317.315 kb on + strandat 2317.315 kb on + strandat 2317.315 kb on + strandat 2317.315 kb on + strandat 2317.316 kb on - strandat 2317.316 kb on - strandat 2317.316 kb on - strandat 2317.316 kb on - strandat 2317.338 kb on + strandat 2317.339 kb on - strandat 2317.387 kb on + strandat 2317.388 kb on - strandat 2317.388 kb on - strandat 2317.388 kb on - strandat 2317.388 kb on - strandat 2317.395 kb on + strandat 2317.395 kb on + strandat 2317.599 kb on + strand, within Xcc-8004.2372.1at 2317.600 kb on - strand, within Xcc-8004.2372.1at 2317.615 kb on + strand, within Xcc-8004.2372.1at 2317.616 kb on - strand, within Xcc-8004.2372.1at 2317.758 kb on + strand, within Xcc-8004.2372.1at 2317.758 kb on + strand, within Xcc-8004.2372.1at 2317.759 kb on - strand, within Xcc-8004.2372.1at 2317.759 kb on - strand, within Xcc-8004.2372.1at 2317.759 kb on - strand, within Xcc-8004.2372.1at 2317.870 kb on + strand, within Xcc-8004.2372.1at 2317.870 kb on + strand, within Xcc-8004.2372.1at 2317.870 kb on + strand, within Xcc-8004.2372.1at 2317.870 kb on + strand, within Xcc-8004.2372.1at 2317.871 kb on - strand, within Xcc-8004.2372.1at 2317.891 kb on - strand, within Xcc-8004.2372.1at 2317.985 kb on + strand, within Xcc-8004.2372.1at 2317.985 kb on + strand, within Xcc-8004.2372.1at 2317.985 kb on + strand, within Xcc-8004.2372.1at 2317.985 kb on + strand, within Xcc-8004.2372.1at 2318.005 kb on + strand, within Xcc-8004.2372.1at 2318.006 kb on - strand, within Xcc-8004.2372.1at 2318.006 kb on - strand, within Xcc-8004.2372.1at 2318.034 kb on + strand, within Xcc-8004.2372.1at 2318.035 kb on - strand, within Xcc-8004.2372.1at 2318.035 kb on - strand, within Xcc-8004.2372.1at 2318.035 kb on - strand, within Xcc-8004.2372.1at 2318.035 kb on - strand, within Xcc-8004.2372.1at 2318.361 kb on + strand, within Xcc-8004.2372.1at 2318.362 kb on - strand, within Xcc-8004.2372.1at 2318.577 kb on + strandat 2318.577 kb on + strandat 2318.578 kb on - strandat 2318.774 kb on + strand, within Xcc-8004.2373.1at 2318.774 kb on + strand, within Xcc-8004.2373.1at 2318.775 kb on - strand, within Xcc-8004.2373.1at 2318.932 kb on + strand, within Xcc-8004.2373.1at 2318.932 kb on + strand, within Xcc-8004.2373.1at 2318.932 kb on + strand, within Xcc-8004.2373.1at 2318.932 kb on + strand, within Xcc-8004.2373.1at 2318.933 kb on - strand, within Xcc-8004.2373.1at 2318.933 kb on - strand, within Xcc-8004.2373.1at 2318.977 kb on + strand, within Xcc-8004.2373.1at 2318.978 kb on - strand, within Xcc-8004.2373.1at 2318.989 kb on + strand, within Xcc-8004.2373.1at 2318.989 kb on + strand, within Xcc-8004.2373.1at 2318.990 kb on - strand, within Xcc-8004.2373.1at 2318.990 kb on - strand, within Xcc-8004.2373.1at 2319.031 kb on + strand, within Xcc-8004.2373.1at 2319.031 kb on + strand, within Xcc-8004.2373.1at 2319.032 kb on - strand, within Xcc-8004.2373.1at 2319.032 kb on - strand, within Xcc-8004.2373.1at 2319.097 kb on + strand, within Xcc-8004.2373.1at 2319.097 kb on + strand, within Xcc-8004.2373.1at 2319.097 kb on + strand, within Xcc-8004.2373.1at 2319.097 kb on + strand, within Xcc-8004.2373.1at 2319.097 kb on + strand, within Xcc-8004.2373.1at 2319.098 kb on - strand, within Xcc-8004.2373.1at 2319.098 kb on - strand, within Xcc-8004.2373.1at 2319.098 kb on - strand, within Xcc-8004.2373.1at 2319.098 kb on - strand, within Xcc-8004.2373.1at 2319.098 kb on - strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.103 kb on + strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.104 kb on - strand, within Xcc-8004.2373.1at 2319.133 kb on + strand, within Xcc-8004.2373.1at 2319.133 kb on + strand, within Xcc-8004.2373.1at 2319.134 kb on - strand, within Xcc-8004.2373.1at 2319.134 kb on - strand, within Xcc-8004.2373.1at 2319.134 kb on - strand, within Xcc-8004.2373.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X
remove
2,316,590 + Xcc-8004.2371.1 0.25 +1.8
2,316,590 + Xcc-8004.2371.1 0.25 +0.6
2,316,590 + Xcc-8004.2371.1 0.25 -0.3
2,316,590 + Xcc-8004.2371.1 0.25 -0.6
2,316,590 + Xcc-8004.2371.1 0.25 -1.0
2,316,591 - Xcc-8004.2371.1 0.25 -1.2
2,316,591 - Xcc-8004.2371.1 0.25 +0.9
2,316,591 - Xcc-8004.2371.1 0.25 +0.4
2,316,591 - Xcc-8004.2371.1 0.25 -0.8
2,316,710 + Xcc-8004.2371.1 0.38 +0.5
2,316,710 + Xcc-8004.2371.1 0.38 +0.8
2,316,710 + Xcc-8004.2371.1 0.38 -1.1
2,316,710 + Xcc-8004.2371.1 0.38 -1.0
2,316,752 + Xcc-8004.2371.1 0.42 -0.3
2,316,853 + Xcc-8004.2371.1 0.53 -1.3
2,316,853 + Xcc-8004.2371.1 0.53 -1.4
2,316,854 - Xcc-8004.2371.1 0.53 +0.2
2,316,854 - Xcc-8004.2371.1 0.53 -2.0
2,316,878 + Xcc-8004.2371.1 0.56 -0.0
2,316,879 - Xcc-8004.2371.1 0.56 -0.2
2,316,879 - Xcc-8004.2371.1 0.56 +0.3
2,317,041 + Xcc-8004.2371.1 0.73 +1.1
2,317,041 + Xcc-8004.2371.1 0.73 +0.4
2,317,052 + Xcc-8004.2371.1 0.74 -0.2
2,317,053 - Xcc-8004.2371.1 0.75 -0.5
2,317,053 - Xcc-8004.2371.1 0.75 +0.7
2,317,064 + Xcc-8004.2371.1 0.76 -0.0
2,317,064 + Xcc-8004.2371.1 0.76 -0.1
2,317,064 + Xcc-8004.2371.1 0.76 -0.9
2,317,064 + Xcc-8004.2371.1 0.76 +0.2
2,317,064 + Xcc-8004.2371.1 0.76 +0.7
2,317,064 + Xcc-8004.2371.1 0.76 +0.2
2,317,064 + Xcc-8004.2371.1 0.76 -0.0
2,317,065 - Xcc-8004.2371.1 0.76 +2.6
2,317,065 - Xcc-8004.2371.1 0.76 +0.5
2,317,208 + +0.5
2,317,252 - -1.5
2,317,307 + +0.7
2,317,315 + -1.4
2,317,315 + +0.6
2,317,315 + +0.7
2,317,315 + -0.7
2,317,315 + +0.6
2,317,316 - +0.2
2,317,316 - +0.4
2,317,316 - +0.5
2,317,316 - +2.1
2,317,338 + -0.6
2,317,339 - -0.2
2,317,387 + -1.7
2,317,388 - +0.3
2,317,388 - -0.2
2,317,388 - -1.3
2,317,388 - -1.0
2,317,395 + -0.2
2,317,395 + +0.1
2,317,599 + Xcc-8004.2372.1 0.13 +1.3
2,317,600 - Xcc-8004.2372.1 0.13 +0.8
2,317,615 + Xcc-8004.2372.1 0.14 -0.9
2,317,616 - Xcc-8004.2372.1 0.14 +3.1
2,317,758 + Xcc-8004.2372.1 0.26 -1.8
2,317,758 + Xcc-8004.2372.1 0.26 -0.6
2,317,759 - Xcc-8004.2372.1 0.26 -1.9
2,317,759 - Xcc-8004.2372.1 0.26 +1.1
2,317,759 - Xcc-8004.2372.1 0.26 +0.8
2,317,870 + Xcc-8004.2372.1 0.35 +0.1
2,317,870 + Xcc-8004.2372.1 0.35 -0.7
2,317,870 + Xcc-8004.2372.1 0.35 +0.2
2,317,870 + Xcc-8004.2372.1 0.35 +0.1
2,317,871 - Xcc-8004.2372.1 0.35 -2.1
2,317,891 - Xcc-8004.2372.1 0.37 -1.4
2,317,985 + Xcc-8004.2372.1 0.44 +0.3
2,317,985 + Xcc-8004.2372.1 0.44 +0.9
2,317,985 + Xcc-8004.2372.1 0.44 +0.4
2,317,985 + Xcc-8004.2372.1 0.44 +1.3
2,318,005 + Xcc-8004.2372.1 0.46 +0.4
2,318,006 - Xcc-8004.2372.1 0.46 -0.5
2,318,006 - Xcc-8004.2372.1 0.46 +0.2
2,318,034 + Xcc-8004.2372.1 0.48 -0.2
2,318,035 - Xcc-8004.2372.1 0.48 -2.3
2,318,035 - Xcc-8004.2372.1 0.48 -0.4
2,318,035 - Xcc-8004.2372.1 0.48 -0.1
2,318,035 - Xcc-8004.2372.1 0.48 +0.2
2,318,361 + Xcc-8004.2372.1 0.75 -0.4
2,318,362 - Xcc-8004.2372.1 0.75 -0.6
2,318,577 + -0.4
2,318,577 + -0.1
2,318,578 - -1.0
2,318,774 + Xcc-8004.2373.1 0.21 +2.1
2,318,774 + Xcc-8004.2373.1 0.21 +0.4
2,318,775 - Xcc-8004.2373.1 0.21 -0.2
2,318,932 + Xcc-8004.2373.1 0.51 -0.2
2,318,932 + Xcc-8004.2373.1 0.51 -1.1
2,318,932 + Xcc-8004.2373.1 0.51 -0.1
2,318,932 + Xcc-8004.2373.1 0.51 +0.3
2,318,933 - Xcc-8004.2373.1 0.51 +1.4
2,318,933 - Xcc-8004.2373.1 0.51 -2.1
2,318,977 + Xcc-8004.2373.1 0.59 -0.7
2,318,978 - Xcc-8004.2373.1 0.59 -0.2
2,318,989 + Xcc-8004.2373.1 0.62 -0.8
2,318,989 + Xcc-8004.2373.1 0.62 -0.7
2,318,990 - Xcc-8004.2373.1 0.62 -1.6
2,318,990 - Xcc-8004.2373.1 0.62 -0.4
2,319,031 + Xcc-8004.2373.1 0.70 +1.1
2,319,031 + Xcc-8004.2373.1 0.70 +0.5
2,319,032 - Xcc-8004.2373.1 0.70 +0.5
2,319,032 - Xcc-8004.2373.1 0.70 +0.4
2,319,097 + Xcc-8004.2373.1 0.82 +0.1
2,319,097 + Xcc-8004.2373.1 0.82 +2.1
2,319,097 + Xcc-8004.2373.1 0.82 -3.0
2,319,097 + Xcc-8004.2373.1 0.82 +0.1
2,319,097 + Xcc-8004.2373.1 0.82 +1.1
2,319,098 - Xcc-8004.2373.1 0.82 +0.8
2,319,098 - Xcc-8004.2373.1 0.82 -1.1
2,319,098 - Xcc-8004.2373.1 0.82 +0.1
2,319,098 - Xcc-8004.2373.1 0.82 +0.2
2,319,098 - Xcc-8004.2373.1 0.82 +1.3
2,319,103 + Xcc-8004.2373.1 0.83 +0.8
2,319,103 + Xcc-8004.2373.1 0.83 -1.2
2,319,103 + Xcc-8004.2373.1 0.83 -0.3
2,319,103 + Xcc-8004.2373.1 0.83 +0.3
2,319,103 + Xcc-8004.2373.1 0.83 +0.5
2,319,103 + Xcc-8004.2373.1 0.83 -1.5
2,319,104 - Xcc-8004.2373.1 0.83 -0.7
2,319,104 - Xcc-8004.2373.1 0.83 -0.7
2,319,104 - Xcc-8004.2373.1 0.83 +0.5
2,319,104 - Xcc-8004.2373.1 0.83 +0.2
2,319,104 - Xcc-8004.2373.1 0.83 +0.2
2,319,104 - Xcc-8004.2373.1 0.83 -0.1
2,319,133 + Xcc-8004.2373.1 0.89 -0.3
2,319,133 + Xcc-8004.2373.1 0.89 -1.5
2,319,134 - Xcc-8004.2373.1 0.89 +0.1
2,319,134 - Xcc-8004.2373.1 0.89 -0.3
2,319,134 - Xcc-8004.2373.1 0.89 +0.1

Or see this region's nucleotide sequence