Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3851.1

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-8004.3847.1 and Xcc-8004.3848.1 are separated by 9 nucleotidesXcc-8004.3848.1 and Xcc-8004.3849.1 overlap by 4 nucleotidesXcc-8004.3849.1 and Xcc-8004.3851.1 overlap by 4 nucleotidesXcc-8004.3851.1 and Xcc-8004.3852.1 are separated by 139 nucleotidesXcc-8004.3852.1 and Xcc-8004.3853.1 are separated by 34 nucleotides Xcc-8004.3847.1: Xcc-8004.3847.1 - Membrane protease family protein BA0301, at 3,721,534 to 3,722,403 Xcc-8004.3847.1 Xcc-8004.3848.1: Xcc-8004.3848.1 - FIG01212003: hypothetical protein, at 3,722,413 to 3,722,697 Xcc-8004.3848.1 Xcc-8004.3849.1: Xcc-8004.3849.1 - FIG01210549: hypothetical protein, at 3,722,694 to 3,722,873 Xcc-8004.3849.1 Xcc-8004.3851.1: Xcc-8004.3851.1 - putative; ORF located using Glimmer/Genemark, at 3,722,870 to 3,723,049 Xcc-8004.3851.1 Xcc-8004.3852.1: Xcc-8004.3852.1 - D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4), at 3,723,189 to 3,723,986 Xcc-8004.3852.1 Xcc-8004.3853.1: Xcc-8004.3853.1 - DNA-3-methyladenine glycosylase II (EC 3.2.2.21), at 3,724,021 to 3,724,695 Xcc-8004.3853.1 Position (kb) 3722 3723 3724Strain fitness (log2 ratio) -3 -2 -1 0 1at 3721.945 kb on + strand, within Xcc-8004.3847.1at 3721.945 kb on + strand, within Xcc-8004.3847.1at 3721.945 kb on + strand, within Xcc-8004.3847.1at 3721.946 kb on - strand, within Xcc-8004.3847.1at 3721.946 kb on - strand, within Xcc-8004.3847.1at 3721.946 kb on - strand, within Xcc-8004.3847.1at 3721.946 kb on - strand, within Xcc-8004.3847.1at 3721.961 kb on - strand, within Xcc-8004.3847.1at 3722.023 kb on + strand, within Xcc-8004.3847.1at 3722.325 kb on + strandat 3722.325 kb on + strandat 3722.326 kb on - strandat 3722.398 kb on + strandat 3722.399 kb on - strandat 3722.569 kb on + strand, within Xcc-8004.3848.1at 3722.599 kb on + strand, within Xcc-8004.3848.1at 3722.599 kb on + strand, within Xcc-8004.3848.1at 3722.600 kb on - strand, within Xcc-8004.3848.1at 3722.600 kb on - strand, within Xcc-8004.3848.1at 3722.600 kb on - strand, within Xcc-8004.3848.1at 3722.712 kb on + strand, within Xcc-8004.3849.1at 3722.773 kb on + strand, within Xcc-8004.3849.1at 3722.773 kb on + strand, within Xcc-8004.3849.1at 3722.774 kb on - strand, within Xcc-8004.3849.1at 3722.799 kb on + strand, within Xcc-8004.3849.1at 3722.800 kb on - strand, within Xcc-8004.3849.1at 3722.800 kb on - strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.803 kb on + strand, within Xcc-8004.3849.1at 3722.804 kb on - strand, within Xcc-8004.3849.1at 3722.804 kb on - strand, within Xcc-8004.3849.1at 3722.804 kb on - strand, within Xcc-8004.3849.1at 3722.804 kb on - strand, within Xcc-8004.3849.1at 3722.804 kb on - strand, within Xcc-8004.3849.1at 3723.030 kb on + strand, within Xcc-8004.3851.1at 3723.031 kb on - strand, within Xcc-8004.3851.1at 3723.133 kb on + strandat 3723.133 kb on + strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.134 kb on - strandat 3723.171 kb on + strandat 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.330 kb on + strand, within Xcc-8004.3852.1at 3723.519 kb on + strand, within Xcc-8004.3852.1at 3723.519 kb on + strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.520 kb on - strand, within Xcc-8004.3852.1at 3723.705 kb on + strand, within Xcc-8004.3852.1at 3723.705 kb on + strand, within Xcc-8004.3852.1at 3723.706 kb on - strand, within Xcc-8004.3852.1

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
3,721,945 + Xcc-8004.3847.1 0.47 +0.3
3,721,945 + Xcc-8004.3847.1 0.47 +0.7
3,721,945 + Xcc-8004.3847.1 0.47 -0.1
3,721,946 - Xcc-8004.3847.1 0.47 +0.4
3,721,946 - Xcc-8004.3847.1 0.47 +0.3
3,721,946 - Xcc-8004.3847.1 0.47 +1.2
3,721,946 - Xcc-8004.3847.1 0.47 +0.4
3,721,961 - Xcc-8004.3847.1 0.49 -0.7
3,722,023 + Xcc-8004.3847.1 0.56 +0.2
3,722,325 + -0.2
3,722,325 + -0.5
3,722,326 - +0.1
3,722,398 + -0.8
3,722,399 - +0.1
3,722,569 + Xcc-8004.3848.1 0.55 +0.3
3,722,599 + Xcc-8004.3848.1 0.65 -0.7
3,722,599 + Xcc-8004.3848.1 0.65 -1.4
3,722,600 - Xcc-8004.3848.1 0.66 -1.7
3,722,600 - Xcc-8004.3848.1 0.66 -1.0
3,722,600 - Xcc-8004.3848.1 0.66 -0.0
3,722,712 + Xcc-8004.3849.1 0.10 -0.1
3,722,773 + Xcc-8004.3849.1 0.44 -0.0
3,722,773 + Xcc-8004.3849.1 0.44 -1.0
3,722,774 - Xcc-8004.3849.1 0.44 +0.6
3,722,799 + Xcc-8004.3849.1 0.58 +0.3
3,722,800 - Xcc-8004.3849.1 0.59 +0.1
3,722,800 - Xcc-8004.3849.1 0.59 -1.0
3,722,803 + Xcc-8004.3849.1 0.61 +0.5
3,722,803 + Xcc-8004.3849.1 0.61 +0.9
3,722,803 + Xcc-8004.3849.1 0.61 -1.4
3,722,803 + Xcc-8004.3849.1 0.61 +0.7
3,722,803 + Xcc-8004.3849.1 0.61 +0.5
3,722,803 + Xcc-8004.3849.1 0.61 +0.4
3,722,804 - Xcc-8004.3849.1 0.61 -1.0
3,722,804 - Xcc-8004.3849.1 0.61 -1.2
3,722,804 - Xcc-8004.3849.1 0.61 -0.4
3,722,804 - Xcc-8004.3849.1 0.61 -0.4
3,722,804 - Xcc-8004.3849.1 0.61 +0.5
3,723,030 + Xcc-8004.3851.1 0.89 -0.9
3,723,031 - Xcc-8004.3851.1 0.89 +0.4
3,723,133 + +0.6
3,723,133 + -0.1
3,723,134 - +0.1
3,723,134 - -0.6
3,723,134 - +0.2
3,723,134 - +0.2
3,723,171 + +0.4
3,723,330 + Xcc-8004.3852.1 0.18 -1.3
3,723,330 + Xcc-8004.3852.1 0.18 -1.2
3,723,330 + Xcc-8004.3852.1 0.18 -1.3
3,723,330 + Xcc-8004.3852.1 0.18 -0.5
3,723,519 + Xcc-8004.3852.1 0.41 -0.4
3,723,519 + Xcc-8004.3852.1 0.41 -1.8
3,723,520 - Xcc-8004.3852.1 0.41 -1.5
3,723,520 - Xcc-8004.3852.1 0.41 -0.2
3,723,520 - Xcc-8004.3852.1 0.41 +0.3
3,723,520 - Xcc-8004.3852.1 0.41 -0.4
3,723,520 - Xcc-8004.3852.1 0.41 -3.2
3,723,520 - Xcc-8004.3852.1 0.41 -0.3
3,723,705 + Xcc-8004.3852.1 0.65 -1.4
3,723,705 + Xcc-8004.3852.1 0.65 -1.1
3,723,706 - Xcc-8004.3852.1 0.65 -1.9

Or see this region's nucleotide sequence