Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.544.1

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-8004.542.1 and Xcc-8004.543.1 overlap by 4 nucleotidesXcc-8004.543.1 and Xcc-8004.544.1 are separated by 42 nucleotidesXcc-8004.544.1 and Xcc-8004.545.1 are separated by 16 nucleotides Xcc-8004.542.1: Xcc-8004.542.1 - Malto-oligosyltrehalose synthase (EC 5.4.99.15), at 501,673 to 504,291 Xcc-8004.542.1 Xcc-8004.543.1: Xcc-8004.543.1 - FIG01210004: hypothetical protein, at 504,288 to 504,476 Xcc-8004.543.1 Xcc-8004.544.1: Xcc-8004.544.1 - Glycogen debranching enzyme (EC 3.2.1.-), at 504,519 to 506,681 Xcc-8004.544.1 Xcc-8004.545.1: Xcc-8004.545.1 - Nucleoside-diphosphate-sugar epimerases, at 506,698 to 507,330 Xcc-8004.545.1 Position (kb) 504 505 506 507Strain fitness (log2 ratio) -3 -2 -1 0 1at 503.773 kb on + strand, within Xcc-8004.542.1at 503.836 kb on + strand, within Xcc-8004.542.1at 503.836 kb on + strand, within Xcc-8004.542.1at 503.837 kb on - strand, within Xcc-8004.542.1at 503.984 kb on - strand, within Xcc-8004.542.1at 504.000 kb on - strand, within Xcc-8004.542.1at 504.000 kb on - strand, within Xcc-8004.542.1at 504.236 kb on + strandat 504.236 kb on + strandat 504.237 kb on - strandat 504.337 kb on + strand, within Xcc-8004.543.1at 504.337 kb on + strand, within Xcc-8004.543.1at 504.337 kb on + strand, within Xcc-8004.543.1at 504.337 kb on + strand, within Xcc-8004.543.1at 504.337 kb on + strand, within Xcc-8004.543.1at 504.338 kb on - strand, within Xcc-8004.543.1at 504.338 kb on - strand, within Xcc-8004.543.1at 504.458 kb on + strandat 504.459 kb on - strandat 504.474 kb on + strandat 504.506 kb on + strandat 504.507 kb on - strandat 504.507 kb on - strandat 504.507 kb on - strandat 504.618 kb on + strandat 504.619 kb on - strandat 504.619 kb on - strandat 504.619 kb on - strandat 504.692 kb on - strandat 504.699 kb on + strandat 504.699 kb on + strandat 504.777 kb on + strand, within Xcc-8004.544.1at 504.777 kb on + strand, within Xcc-8004.544.1at 504.777 kb on + strand, within Xcc-8004.544.1at 504.778 kb on - strand, within Xcc-8004.544.1at 504.812 kb on + strand, within Xcc-8004.544.1at 504.813 kb on - strand, within Xcc-8004.544.1at 504.832 kb on - strand, within Xcc-8004.544.1at 504.832 kb on - strand, within Xcc-8004.544.1at 504.882 kb on + strand, within Xcc-8004.544.1at 504.974 kb on + strand, within Xcc-8004.544.1at 504.974 kb on + strand, within Xcc-8004.544.1at 504.975 kb on - strand, within Xcc-8004.544.1at 504.975 kb on - strand, within Xcc-8004.544.1at 504.975 kb on - strand, within Xcc-8004.544.1at 505.026 kb on + strand, within Xcc-8004.544.1at 505.026 kb on + strand, within Xcc-8004.544.1at 505.026 kb on + strand, within Xcc-8004.544.1at 505.026 kb on + strand, within Xcc-8004.544.1at 505.027 kb on - strand, within Xcc-8004.544.1at 505.191 kb on + strand, within Xcc-8004.544.1at 505.191 kb on + strand, within Xcc-8004.544.1at 505.191 kb on + strand, within Xcc-8004.544.1at 505.191 kb on + strand, within Xcc-8004.544.1at 505.192 kb on - strand, within Xcc-8004.544.1at 505.227 kb on + strand, within Xcc-8004.544.1at 505.227 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.263 kb on + strand, within Xcc-8004.544.1at 505.264 kb on - strand, within Xcc-8004.544.1at 505.350 kb on + strand, within Xcc-8004.544.1at 505.351 kb on - strand, within Xcc-8004.544.1at 505.419 kb on + strand, within Xcc-8004.544.1at 505.419 kb on + strand, within Xcc-8004.544.1at 505.419 kb on + strand, within Xcc-8004.544.1at 505.420 kb on - strand, within Xcc-8004.544.1at 505.420 kb on - strand, within Xcc-8004.544.1at 505.420 kb on - strand, within Xcc-8004.544.1at 505.450 kb on - strand, within Xcc-8004.544.1at 505.475 kb on + strand, within Xcc-8004.544.1at 505.600 kb on - strand, within Xcc-8004.544.1at 505.705 kb on - strand, within Xcc-8004.544.1at 505.923 kb on + strand, within Xcc-8004.544.1at 505.924 kb on - strand, within Xcc-8004.544.1at 505.924 kb on - strand, within Xcc-8004.544.1at 505.924 kb on - strand, within Xcc-8004.544.1at 505.982 kb on + strand, within Xcc-8004.544.1at 505.982 kb on + strand, within Xcc-8004.544.1at 505.983 kb on - strand, within Xcc-8004.544.1at 505.983 kb on - strand, within Xcc-8004.544.1at 505.995 kb on + strand, within Xcc-8004.544.1at 505.995 kb on + strand, within Xcc-8004.544.1at 505.995 kb on + strand, within Xcc-8004.544.1at 506.126 kb on + strand, within Xcc-8004.544.1at 506.151 kb on + strand, within Xcc-8004.544.1at 506.151 kb on + strand, within Xcc-8004.544.1at 507.058 kb on + strand, within Xcc-8004.545.1at 507.059 kb on - strand, within Xcc-8004.545.1at 507.424 kb on + strand

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
503,773 + Xcc-8004.542.1 0.80 -0.5
503,836 + Xcc-8004.542.1 0.83 +0.9
503,836 + Xcc-8004.542.1 0.83 -0.1
503,837 - Xcc-8004.542.1 0.83 -1.2
503,984 - Xcc-8004.542.1 0.88 +0.9
504,000 - Xcc-8004.542.1 0.89 +1.5
504,000 - Xcc-8004.542.1 0.89 -1.5
504,236 + -1.1
504,236 + +0.1
504,237 - -0.1
504,337 + Xcc-8004.543.1 0.26 -1.1
504,337 + Xcc-8004.543.1 0.26 +0.3
504,337 + Xcc-8004.543.1 0.26 -0.5
504,337 + Xcc-8004.543.1 0.26 -0.2
504,337 + Xcc-8004.543.1 0.26 -0.7
504,338 - Xcc-8004.543.1 0.26 +0.2
504,338 - Xcc-8004.543.1 0.26 -1.8
504,458 + +0.2
504,459 - -0.2
504,474 + +0.1
504,506 + +0.5
504,507 - -0.2
504,507 - +1.2
504,507 - -0.4
504,618 + +0.3
504,619 - +0.9
504,619 - -0.1
504,619 - +0.2
504,692 - -0.4
504,699 + -1.0
504,699 + -1.4
504,777 + Xcc-8004.544.1 0.12 -0.7
504,777 + Xcc-8004.544.1 0.12 -0.5
504,777 + Xcc-8004.544.1 0.12 -1.1
504,778 - Xcc-8004.544.1 0.12 +0.5
504,812 + Xcc-8004.544.1 0.14 -2.3
504,813 - Xcc-8004.544.1 0.14 +0.9
504,832 - Xcc-8004.544.1 0.14 -1.4
504,832 - Xcc-8004.544.1 0.14 +0.1
504,882 + Xcc-8004.544.1 0.17 -0.4
504,974 + Xcc-8004.544.1 0.21 +0.1
504,974 + Xcc-8004.544.1 0.21 +0.6
504,975 - Xcc-8004.544.1 0.21 +0.0
504,975 - Xcc-8004.544.1 0.21 -0.2
504,975 - Xcc-8004.544.1 0.21 -0.7
505,026 + Xcc-8004.544.1 0.23 +1.0
505,026 + Xcc-8004.544.1 0.23 +0.6
505,026 + Xcc-8004.544.1 0.23 -0.6
505,026 + Xcc-8004.544.1 0.23 +0.4
505,027 - Xcc-8004.544.1 0.23 -0.2
505,191 + Xcc-8004.544.1 0.31 -1.4
505,191 + Xcc-8004.544.1 0.31 +0.8
505,191 + Xcc-8004.544.1 0.31 +0.6
505,191 + Xcc-8004.544.1 0.31 +0.2
505,192 - Xcc-8004.544.1 0.31 -0.7
505,227 + Xcc-8004.544.1 0.33 -0.5
505,227 + Xcc-8004.544.1 0.33 -3.2
505,263 + Xcc-8004.544.1 0.34 +0.4
505,263 + Xcc-8004.544.1 0.34 -1.6
505,263 + Xcc-8004.544.1 0.34 +0.6
505,263 + Xcc-8004.544.1 0.34 -0.7
505,263 + Xcc-8004.544.1 0.34 +0.0
505,263 + Xcc-8004.544.1 0.34 +0.9
505,264 - Xcc-8004.544.1 0.34 +0.7
505,350 + Xcc-8004.544.1 0.38 -0.2
505,351 - Xcc-8004.544.1 0.38 -0.2
505,419 + Xcc-8004.544.1 0.42 +0.9
505,419 + Xcc-8004.544.1 0.42 -0.5
505,419 + Xcc-8004.544.1 0.42 -1.2
505,420 - Xcc-8004.544.1 0.42 +0.0
505,420 - Xcc-8004.544.1 0.42 -1.5
505,420 - Xcc-8004.544.1 0.42 +0.6
505,450 - Xcc-8004.544.1 0.43 +0.4
505,475 + Xcc-8004.544.1 0.44 -0.8
505,600 - Xcc-8004.544.1 0.50 -0.8
505,705 - Xcc-8004.544.1 0.55 -2.1
505,923 + Xcc-8004.544.1 0.65 +0.3
505,924 - Xcc-8004.544.1 0.65 -1.0
505,924 - Xcc-8004.544.1 0.65 -1.7
505,924 - Xcc-8004.544.1 0.65 +0.5
505,982 + Xcc-8004.544.1 0.68 -0.7
505,982 + Xcc-8004.544.1 0.68 -0.1
505,983 - Xcc-8004.544.1 0.68 +0.7
505,983 - Xcc-8004.544.1 0.68 -2.1
505,995 + Xcc-8004.544.1 0.68 -0.6
505,995 + Xcc-8004.544.1 0.68 +0.4
505,995 + Xcc-8004.544.1 0.68 -0.1
506,126 + Xcc-8004.544.1 0.74 -1.8
506,151 + Xcc-8004.544.1 0.75 -0.1
506,151 + Xcc-8004.544.1 0.75 -1.0
507,058 + Xcc-8004.545.1 0.57 -1.3
507,059 - Xcc-8004.545.1 0.57 +1.1
507,424 + +0.6

Or see this region's nucleotide sequence