Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3666.1

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-8004.3665.1 and Xcc-8004.3666.1 are separated by 28 nucleotidesXcc-8004.3666.1 and Xcc-8004.3667.1 are separated by 76 nucleotidesXcc-8004.3667.1 and Xcc-8004.3668.1 are separated by 123 nucleotides Xcc-8004.3665.1: Xcc-8004.3665.1 - COG3380: Amine oxidase, flavin-containing, at 3,545,318 to 3,546,325 Xcc-8004.3665.1 Xcc-8004.3666.1: Xcc-8004.3666.1 - 2-hydroxychromene-2-carboxylate isomerase/DsbA-like thioredoxin domain, at 3,546,354 to 3,547,055 Xcc-8004.3666.1 Xcc-8004.3667.1: Xcc-8004.3667.1 - FIG01210304: hypothetical protein, at 3,547,132 to 3,547,596 Xcc-8004.3667.1 Xcc-8004.3668.1: Xcc-8004.3668.1 - putative; ORF located using Glimmer/Genemark, at 3,547,720 to 3,548,361 Xcc-8004.3668.1 Position (kb) 3546 3547 3548Strain fitness (log2 ratio) -2 -1 0 1at 3545.374 kb on + strandat 3545.374 kb on + strandat 3545.375 kb on - strandat 3545.731 kb on + strand, within Xcc-8004.3665.1at 3545.951 kb on + strand, within Xcc-8004.3665.1at 3546.141 kb on + strand, within Xcc-8004.3665.1at 3546.142 kb on - strand, within Xcc-8004.3665.1at 3546.502 kb on - strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.759 kb on + strand, within Xcc-8004.3666.1at 3546.760 kb on - strand, within Xcc-8004.3666.1at 3546.837 kb on - strand, within Xcc-8004.3666.1at 3546.925 kb on + strand, within Xcc-8004.3666.1at 3546.926 kb on - strand, within Xcc-8004.3666.1at 3547.081 kb on + strandat 3547.081 kb on + strandat 3547.082 kb on - strandat 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.181 kb on + strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.182 kb on - strand, within Xcc-8004.3667.1at 3547.184 kb on + strand, within Xcc-8004.3667.1at 3547.184 kb on + strand, within Xcc-8004.3667.1at 3547.185 kb on - strand, within Xcc-8004.3667.1at 3547.185 kb on - strand, within Xcc-8004.3667.1at 3547.185 kb on - strand, within Xcc-8004.3667.1at 3547.185 kb on - strand, within Xcc-8004.3667.1at 3547.185 kb on - strand, within Xcc-8004.3667.1at 3547.326 kb on - strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.536 kb on + strand, within Xcc-8004.3667.1at 3547.537 kb on - strand, within Xcc-8004.3667.1at 3547.537 kb on - strand, within Xcc-8004.3667.1at 3547.538 kb on + strand, within Xcc-8004.3667.1at 3547.538 kb on + strand, within Xcc-8004.3667.1at 3547.538 kb on + strand, within Xcc-8004.3667.1at 3547.538 kb on + strand, within Xcc-8004.3667.1at 3547.539 kb on - strand, within Xcc-8004.3667.1at 3547.539 kb on - strand, within Xcc-8004.3667.1at 3547.539 kb on - strand, within Xcc-8004.3667.1at 3547.539 kb on - strand, within Xcc-8004.3667.1at 3547.636 kb on + strandat 3547.636 kb on + strandat 3547.636 kb on + strandat 3547.637 kb on - strandat 3547.637 kb on - strandat 3547.637 kb on - strandat 3547.637 kb on - strandat 3547.637 kb on - strandat 3547.666 kb on + strandat 3547.666 kb on + strandat 3547.666 kb on + strandat 3547.667 kb on - strandat 3547.686 kb on + strandat 3547.686 kb on + strandat 3547.686 kb on + strandat 3547.687 kb on - strandat 3547.687 kb on - strandat 3547.687 kb on - strandat 3547.687 kb on - strandat 3547.928 kb on + strand, within Xcc-8004.3668.1at 3547.928 kb on + strand, within Xcc-8004.3668.1at 3547.928 kb on + strand, within Xcc-8004.3668.1at 3547.928 kb on + strand, within Xcc-8004.3668.1at 3547.929 kb on - strand, within Xcc-8004.3668.1

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
3,545,374 + +0.9
3,545,374 + -0.4
3,545,375 - -0.6
3,545,731 + Xcc-8004.3665.1 0.41 +0.3
3,545,951 + Xcc-8004.3665.1 0.63 -0.3
3,546,141 + Xcc-8004.3665.1 0.82 +0.0
3,546,142 - Xcc-8004.3665.1 0.82 +0.5
3,546,502 - Xcc-8004.3666.1 0.21 +0.7
3,546,759 + Xcc-8004.3666.1 0.58 -1.2
3,546,759 + Xcc-8004.3666.1 0.58 +1.1
3,546,759 + Xcc-8004.3666.1 0.58 +1.0
3,546,759 + Xcc-8004.3666.1 0.58 +0.1
3,546,759 + Xcc-8004.3666.1 0.58 +0.6
3,546,759 + Xcc-8004.3666.1 0.58 +1.2
3,546,760 - Xcc-8004.3666.1 0.58 +0.1
3,546,837 - Xcc-8004.3666.1 0.69 +0.6
3,546,925 + Xcc-8004.3666.1 0.81 +0.8
3,546,926 - Xcc-8004.3666.1 0.81 -0.9
3,547,081 + +0.1
3,547,081 + +0.8
3,547,082 - -0.2
3,547,181 + Xcc-8004.3667.1 0.11 +0.9
3,547,181 + Xcc-8004.3667.1 0.11 +1.5
3,547,181 + Xcc-8004.3667.1 0.11 +0.3
3,547,181 + Xcc-8004.3667.1 0.11 -1.6
3,547,181 + Xcc-8004.3667.1 0.11 +0.2
3,547,181 + Xcc-8004.3667.1 0.11 +0.5
3,547,181 + Xcc-8004.3667.1 0.11 +0.4
3,547,181 + Xcc-8004.3667.1 0.11 -0.1
3,547,182 - Xcc-8004.3667.1 0.11 +1.0
3,547,182 - Xcc-8004.3667.1 0.11 +0.5
3,547,182 - Xcc-8004.3667.1 0.11 -0.3
3,547,182 - Xcc-8004.3667.1 0.11 +0.6
3,547,182 - Xcc-8004.3667.1 0.11 -0.6
3,547,182 - Xcc-8004.3667.1 0.11 +0.5
3,547,182 - Xcc-8004.3667.1 0.11 +1.5
3,547,184 + Xcc-8004.3667.1 0.11 +0.5
3,547,184 + Xcc-8004.3667.1 0.11 +0.4
3,547,185 - Xcc-8004.3667.1 0.11 +0.8
3,547,185 - Xcc-8004.3667.1 0.11 +0.4
3,547,185 - Xcc-8004.3667.1 0.11 +0.6
3,547,185 - Xcc-8004.3667.1 0.11 +0.3
3,547,185 - Xcc-8004.3667.1 0.11 +0.3
3,547,326 - Xcc-8004.3667.1 0.42 +0.1
3,547,536 + Xcc-8004.3667.1 0.87 +0.5
3,547,536 + Xcc-8004.3667.1 0.87 -0.6
3,547,536 + Xcc-8004.3667.1 0.87 -1.0
3,547,536 + Xcc-8004.3667.1 0.87 -0.3
3,547,536 + Xcc-8004.3667.1 0.87 +1.2
3,547,536 + Xcc-8004.3667.1 0.87 +1.3
3,547,537 - Xcc-8004.3667.1 0.87 +1.2
3,547,537 - Xcc-8004.3667.1 0.87 +0.5
3,547,538 + Xcc-8004.3667.1 0.87 -0.3
3,547,538 + Xcc-8004.3667.1 0.87 -0.3
3,547,538 + Xcc-8004.3667.1 0.87 -0.8
3,547,538 + Xcc-8004.3667.1 0.87 +0.4
3,547,539 - Xcc-8004.3667.1 0.88 -1.4
3,547,539 - Xcc-8004.3667.1 0.88 +1.1
3,547,539 - Xcc-8004.3667.1 0.88 +0.9
3,547,539 - Xcc-8004.3667.1 0.88 +0.2
3,547,636 + +0.8
3,547,636 + -0.1
3,547,636 + +0.1
3,547,637 - -2.1
3,547,637 - +1.3
3,547,637 - +0.7
3,547,637 - -1.1
3,547,637 - -1.7
3,547,666 + +0.7
3,547,666 + -0.1
3,547,666 + +0.7
3,547,667 - +0.8
3,547,686 + +0.4
3,547,686 + +0.2
3,547,686 + -1.3
3,547,687 - +1.0
3,547,687 - +0.2
3,547,687 - -0.2
3,547,687 - -1.8
3,547,928 + Xcc-8004.3668.1 0.32 -0.1
3,547,928 + Xcc-8004.3668.1 0.32 -0.7
3,547,928 + Xcc-8004.3668.1 0.32 -0.8
3,547,928 + Xcc-8004.3668.1 0.32 +0.7
3,547,929 - Xcc-8004.3668.1 0.33 -0.3

Or see this region's nucleotide sequence