Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3519.1

Experiment: Supernatant; Trichoderma atroviride IMI dcr22mutant 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-8004.3517.1 and Xcc-8004.3519.1 are separated by 165 nucleotidesXcc-8004.3519.1 and Xcc-8004.3520.1 are separated by 103 nucleotides Xcc-8004.3517.1: Xcc-8004.3517.1 - Oligopeptide transporter, at 3,402,494 to 3,404,356 Xcc-8004.3517.1 Xcc-8004.3519.1: Xcc-8004.3519.1 - Gll2474 protein, at 3,404,522 to 3,406,291 Xcc-8004.3519.1 Xcc-8004.3520.1: Xcc-8004.3520.1 - Beta-glucosidase (EC 3.2.1.21), at 3,406,395 to 3,408,653 Xcc-8004.3520.1 Position (kb) 3404 3405 3406 3407Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 3403.758 kb on + strand, within Xcc-8004.3517.1at 3403.758 kb on + strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.759 kb on - strand, within Xcc-8004.3517.1at 3403.788 kb on + strand, within Xcc-8004.3517.1at 3403.788 kb on + strand, within Xcc-8004.3517.1at 3403.788 kb on + strand, within Xcc-8004.3517.1at 3403.788 kb on + strand, within Xcc-8004.3517.1at 3403.789 kb on - strand, within Xcc-8004.3517.1at 3403.789 kb on - strand, within Xcc-8004.3517.1at 3403.789 kb on - strand, within Xcc-8004.3517.1at 3404.090 kb on + strand, within Xcc-8004.3517.1at 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.281 kb on + strandat 3404.282 kb on - strandat 3404.282 kb on - strandat 3404.282 kb on - strandat 3404.365 kb on + strandat 3404.365 kb on + strandat 3404.366 kb on - strandat 3404.427 kb on + strandat 3404.427 kb on + strandat 3404.427 kb on + strandat 3404.428 kb on - strandat 3404.428 kb on - strandat 3404.428 kb on - strandat 3404.485 kb on - strandat 3405.056 kb on + strand, within Xcc-8004.3519.1at 3405.056 kb on + strand, within Xcc-8004.3519.1at 3405.056 kb on + strand, within Xcc-8004.3519.1at 3405.057 kb on - strand, within Xcc-8004.3519.1at 3405.057 kb on - strand, within Xcc-8004.3519.1at 3405.125 kb on + strand, within Xcc-8004.3519.1at 3405.125 kb on + strand, within Xcc-8004.3519.1at 3405.125 kb on + strand, within Xcc-8004.3519.1at 3405.125 kb on + strand, within Xcc-8004.3519.1at 3405.125 kb on + strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.126 kb on - strand, within Xcc-8004.3519.1at 3405.287 kb on + strand, within Xcc-8004.3519.1at 3405.290 kb on + strand, within Xcc-8004.3519.1at 3405.291 kb on - strand, within Xcc-8004.3519.1at 3405.291 kb on - strand, within Xcc-8004.3519.1at 3405.611 kb on + strand, within Xcc-8004.3519.1at 3405.612 kb on - strand, within Xcc-8004.3519.1at 3405.612 kb on - strand, within Xcc-8004.3519.1at 3405.612 kb on - strand, within Xcc-8004.3519.1at 3405.617 kb on + strand, within Xcc-8004.3519.1at 3405.617 kb on + strand, within Xcc-8004.3519.1at 3405.617 kb on + strand, within Xcc-8004.3519.1at 3405.618 kb on - strand, within Xcc-8004.3519.1at 3405.618 kb on - strand, within Xcc-8004.3519.1at 3405.618 kb on - strand, within Xcc-8004.3519.1at 3405.618 kb on - strand, within Xcc-8004.3519.1at 3405.969 kb on + strand, within Xcc-8004.3519.1at 3405.969 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.079 kb on + strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.080 kb on - strand, within Xcc-8004.3519.1at 3406.091 kb on + strand, within Xcc-8004.3519.1at 3406.091 kb on + strand, within Xcc-8004.3519.1at 3406.091 kb on + strand, within Xcc-8004.3519.1at 3406.091 kb on + strand, within Xcc-8004.3519.1at 3406.091 kb on + strand, within Xcc-8004.3519.1at 3406.092 kb on - strand, within Xcc-8004.3519.1at 3406.092 kb on - strand, within Xcc-8004.3519.1at 3406.092 kb on - strand, within Xcc-8004.3519.1at 3406.092 kb on - strand, within Xcc-8004.3519.1at 3406.092 kb on - strand, within Xcc-8004.3519.1at 3406.217 kb on + strandat 3406.217 kb on + strandat 3406.620 kb on + strandat 3406.621 kb on - strand, within Xcc-8004.3520.1at 3406.621 kb on - strand, within Xcc-8004.3520.1at 3406.621 kb on - strand, within Xcc-8004.3520.1at 3406.621 kb on - strand, within Xcc-8004.3520.1at 3406.680 kb on + strand, within Xcc-8004.3520.1at 3406.681 kb on - strand, within Xcc-8004.3520.1at 3406.837 kb on - strand, within Xcc-8004.3520.1at 3406.837 kb on - strand, within Xcc-8004.3520.1at 3406.837 kb on - strand, within Xcc-8004.3520.1at 3406.837 kb on - strand, within Xcc-8004.3520.1at 3406.947 kb on + strand, within Xcc-8004.3520.1at 3406.947 kb on + strand, within Xcc-8004.3520.1at 3407.175 kb on + strand, within Xcc-8004.3520.1at 3407.175 kb on + strand, within Xcc-8004.3520.1at 3407.176 kb on - strand, within Xcc-8004.3520.1at 3407.176 kb on - strand, within Xcc-8004.3520.1at 3407.176 kb on - strand, within Xcc-8004.3520.1at 3407.196 kb on + strand, within Xcc-8004.3520.1at 3407.196 kb on + strand, within Xcc-8004.3520.1at 3407.196 kb on + strand, within Xcc-8004.3520.1at 3407.197 kb on - strand, within Xcc-8004.3520.1at 3407.197 kb on - strand, within Xcc-8004.3520.1at 3407.197 kb on - strand, within Xcc-8004.3520.1at 3407.197 kb on - strand, within Xcc-8004.3520.1at 3407.197 kb on - strand, within Xcc-8004.3520.1at 3407.214 kb on + strand, within Xcc-8004.3520.1at 3407.215 kb on - strand, within Xcc-8004.3520.1at 3407.215 kb on - strand, within Xcc-8004.3520.1at 3407.215 kb on - strand, within Xcc-8004.3520.1at 3407.215 kb on - strand, within Xcc-8004.3520.1at 3407.250 kb on + strand, within Xcc-8004.3520.1at 3407.259 kb on + strand, within Xcc-8004.3520.1at 3407.259 kb on + strand, within Xcc-8004.3520.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X
remove
3,403,758 + Xcc-8004.3517.1 0.68 -1.5
3,403,758 + Xcc-8004.3517.1 0.68 +1.2
3,403,759 - Xcc-8004.3517.1 0.68 +1.1
3,403,759 - Xcc-8004.3517.1 0.68 +0.2
3,403,759 - Xcc-8004.3517.1 0.68 +0.6
3,403,759 - Xcc-8004.3517.1 0.68 -0.0
3,403,759 - Xcc-8004.3517.1 0.68 +0.5
3,403,759 - Xcc-8004.3517.1 0.68 -2.3
3,403,788 + Xcc-8004.3517.1 0.69 +2.0
3,403,788 + Xcc-8004.3517.1 0.69 +0.6
3,403,788 + Xcc-8004.3517.1 0.69 -0.7
3,403,788 + Xcc-8004.3517.1 0.69 -3.0
3,403,789 - Xcc-8004.3517.1 0.70 -1.2
3,403,789 - Xcc-8004.3517.1 0.70 -0.3
3,403,789 - Xcc-8004.3517.1 0.70 -1.9
3,404,090 + Xcc-8004.3517.1 0.86 -0.9
3,404,281 + +0.8
3,404,281 + -1.7
3,404,281 + +0.9
3,404,281 + -0.4
3,404,281 + -1.1
3,404,281 + +1.4
3,404,281 + -0.3
3,404,281 + +1.4
3,404,282 - -0.9
3,404,282 - +0.4
3,404,282 - -1.1
3,404,365 + -2.3
3,404,365 + -0.8
3,404,366 - +1.0
3,404,427 + +0.1
3,404,427 + +2.7
3,404,427 + +1.1
3,404,428 - -2.1
3,404,428 - -0.7
3,404,428 - +1.0
3,404,485 - +0.2
3,405,056 + Xcc-8004.3519.1 0.30 -0.8
3,405,056 + Xcc-8004.3519.1 0.30 -1.0
3,405,056 + Xcc-8004.3519.1 0.30 +0.8
3,405,057 - Xcc-8004.3519.1 0.30 -2.1
3,405,057 - Xcc-8004.3519.1 0.30 -0.6
3,405,125 + Xcc-8004.3519.1 0.34 +1.2
3,405,125 + Xcc-8004.3519.1 0.34 +3.3
3,405,125 + Xcc-8004.3519.1 0.34 +1.7
3,405,125 + Xcc-8004.3519.1 0.34 -0.1
3,405,125 + Xcc-8004.3519.1 0.34 -0.9
3,405,126 - Xcc-8004.3519.1 0.34 +0.7
3,405,126 - Xcc-8004.3519.1 0.34 +0.3
3,405,126 - Xcc-8004.3519.1 0.34 +1.4
3,405,126 - Xcc-8004.3519.1 0.34 -1.2
3,405,126 - Xcc-8004.3519.1 0.34 -0.1
3,405,126 - Xcc-8004.3519.1 0.34 -0.9
3,405,126 - Xcc-8004.3519.1 0.34 -1.7
3,405,126 - Xcc-8004.3519.1 0.34 -1.0
3,405,126 - Xcc-8004.3519.1 0.34 +1.1
3,405,287 + Xcc-8004.3519.1 0.43 -1.4
3,405,290 + Xcc-8004.3519.1 0.43 -1.3
3,405,291 - Xcc-8004.3519.1 0.43 -0.8
3,405,291 - Xcc-8004.3519.1 0.43 -0.5
3,405,611 + Xcc-8004.3519.1 0.62 -0.1
3,405,612 - Xcc-8004.3519.1 0.62 +1.4
3,405,612 - Xcc-8004.3519.1 0.62 -0.1
3,405,612 - Xcc-8004.3519.1 0.62 +0.7
3,405,617 + Xcc-8004.3519.1 0.62 -0.7
3,405,617 + Xcc-8004.3519.1 0.62 -0.0
3,405,617 + Xcc-8004.3519.1 0.62 -0.3
3,405,618 - Xcc-8004.3519.1 0.62 +1.2
3,405,618 - Xcc-8004.3519.1 0.62 +0.1
3,405,618 - Xcc-8004.3519.1 0.62 -1.5
3,405,618 - Xcc-8004.3519.1 0.62 -1.5
3,405,969 + Xcc-8004.3519.1 0.82 -1.2
3,405,969 + Xcc-8004.3519.1 0.82 -2.6
3,406,079 + Xcc-8004.3519.1 0.88 -1.2
3,406,079 + Xcc-8004.3519.1 0.88 -1.0
3,406,079 + Xcc-8004.3519.1 0.88 -1.7
3,406,079 + Xcc-8004.3519.1 0.88 -1.2
3,406,079 + Xcc-8004.3519.1 0.88 -0.2
3,406,079 + Xcc-8004.3519.1 0.88 -0.6
3,406,079 + Xcc-8004.3519.1 0.88 -0.7
3,406,079 + Xcc-8004.3519.1 0.88 -1.1
3,406,079 + Xcc-8004.3519.1 0.88 +1.0
3,406,080 - Xcc-8004.3519.1 0.88 -1.4
3,406,080 - Xcc-8004.3519.1 0.88 +0.6
3,406,080 - Xcc-8004.3519.1 0.88 +0.2
3,406,080 - Xcc-8004.3519.1 0.88 +0.7
3,406,080 - Xcc-8004.3519.1 0.88 -0.3
3,406,080 - Xcc-8004.3519.1 0.88 +1.6
3,406,080 - Xcc-8004.3519.1 0.88 +1.3
3,406,080 - Xcc-8004.3519.1 0.88 -0.1
3,406,080 - Xcc-8004.3519.1 0.88 -1.3
3,406,091 + Xcc-8004.3519.1 0.89 -0.2
3,406,091 + Xcc-8004.3519.1 0.89 -2.1
3,406,091 + Xcc-8004.3519.1 0.89 -0.0
3,406,091 + Xcc-8004.3519.1 0.89 -0.3
3,406,091 + Xcc-8004.3519.1 0.89 -0.2
3,406,092 - Xcc-8004.3519.1 0.89 +0.4
3,406,092 - Xcc-8004.3519.1 0.89 -0.5
3,406,092 - Xcc-8004.3519.1 0.89 -0.7
3,406,092 - Xcc-8004.3519.1 0.89 +1.7
3,406,092 - Xcc-8004.3519.1 0.89 -1.4
3,406,217 + -0.5
3,406,217 + +1.4
3,406,620 + -0.4
3,406,621 - Xcc-8004.3520.1 0.10 -0.6
3,406,621 - Xcc-8004.3520.1 0.10 +0.2
3,406,621 - Xcc-8004.3520.1 0.10 +0.2
3,406,621 - Xcc-8004.3520.1 0.10 +0.6
3,406,680 + Xcc-8004.3520.1 0.13 -1.0
3,406,681 - Xcc-8004.3520.1 0.13 +2.3
3,406,837 - Xcc-8004.3520.1 0.20 +1.1
3,406,837 - Xcc-8004.3520.1 0.20 -0.1
3,406,837 - Xcc-8004.3520.1 0.20 -0.7
3,406,837 - Xcc-8004.3520.1 0.20 +1.2
3,406,947 + Xcc-8004.3520.1 0.24 -0.5
3,406,947 + Xcc-8004.3520.1 0.24 +1.1
3,407,175 + Xcc-8004.3520.1 0.35 +0.6
3,407,175 + Xcc-8004.3520.1 0.35 +0.1
3,407,176 - Xcc-8004.3520.1 0.35 +0.8
3,407,176 - Xcc-8004.3520.1 0.35 +1.8
3,407,176 - Xcc-8004.3520.1 0.35 +1.5
3,407,196 + Xcc-8004.3520.1 0.35 +1.8
3,407,196 + Xcc-8004.3520.1 0.35 +0.4
3,407,196 + Xcc-8004.3520.1 0.35 -0.4
3,407,197 - Xcc-8004.3520.1 0.36 +0.2
3,407,197 - Xcc-8004.3520.1 0.36 +0.7
3,407,197 - Xcc-8004.3520.1 0.36 +1.0
3,407,197 - Xcc-8004.3520.1 0.36 -1.2
3,407,197 - Xcc-8004.3520.1 0.36 -0.1
3,407,214 + Xcc-8004.3520.1 0.36 -0.5
3,407,215 - Xcc-8004.3520.1 0.36 -1.0
3,407,215 - Xcc-8004.3520.1 0.36 +0.1
3,407,215 - Xcc-8004.3520.1 0.36 -0.3
3,407,215 - Xcc-8004.3520.1 0.36 -1.4
3,407,250 + Xcc-8004.3520.1 0.38 +0.5
3,407,259 + Xcc-8004.3520.1 0.38 -0.0
3,407,259 + Xcc-8004.3520.1 0.38 -1.1

Or see this region's nucleotide sequence