Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.616.1

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

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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.

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500 ntXcc-8004.615.1 and Xcc-8004.616.1 overlap by 4 nucleotidesXcc-8004.616.1 and Xcc-8004.618.1 are separated by 145 nucleotidesXcc-8004.618.1 and Xcc-8004.619.1 are separated by 123 nucleotides Xcc-8004.615.1: Xcc-8004.615.1 - Putative DNA-binding protein in cluster with Type I restriction-modification system, at 568,481 to 569,491 Xcc-8004.615.1 Xcc-8004.616.1: Xcc-8004.616.1 - Type I restriction-modification system, DNA-methyltransferase subunit M (EC 2.1.1.72), at 569,488 to 571,104 Xcc-8004.616.1 Xcc-8004.618.1: Xcc-8004.618.1 - Anthranilate synthase, amidotransferase component (EC 4.1.3.27) @ Para-aminobenzoate synthase, amidotransferase component (EC 2.6.1.85), at 571,250 to 571,828 Xcc-8004.618.1 Xcc-8004.619.1: Xcc-8004.619.1 - Nitrilotriacetate monooxygenase component B (EC 1.14.13.-), at 571,952 to 572,584 Xcc-8004.619.1 Position (kb) 569 570 571 572Strain fitness (log2 ratio) -2 -1 0 1 2at 568.979 kb on + strand, within Xcc-8004.615.1at 568.980 kb on - strand, within Xcc-8004.615.1at 569.039 kb on + strand, within Xcc-8004.615.1at 569.039 kb on + strand, within Xcc-8004.615.1at 569.039 kb on + strand, within Xcc-8004.615.1at 569.040 kb on - strand, within Xcc-8004.615.1at 569.168 kb on + strand, within Xcc-8004.615.1at 569.300 kb on - strand, within Xcc-8004.615.1at 569.300 kb on - strand, within Xcc-8004.615.1at 569.314 kb on - strand, within Xcc-8004.615.1at 569.378 kb on + strand, within Xcc-8004.615.1at 569.378 kb on + strand, within Xcc-8004.615.1at 569.623 kb on + strandat 569.623 kb on + strandat 569.624 kb on - strandat 569.683 kb on - strand, within Xcc-8004.616.1at 569.713 kb on + strand, within Xcc-8004.616.1at 569.736 kb on - strand, within Xcc-8004.616.1at 569.774 kb on - strand, within Xcc-8004.616.1at 569.774 kb on - strand, within Xcc-8004.616.1at 569.792 kb on - strand, within Xcc-8004.616.1at 569.792 kb on - strand, within Xcc-8004.616.1at 569.805 kb on + strand, within Xcc-8004.616.1at 569.852 kb on + strand, within Xcc-8004.616.1at 569.853 kb on - strand, within Xcc-8004.616.1at 569.853 kb on - strand, within Xcc-8004.616.1at 570.046 kb on + strand, within Xcc-8004.616.1at 570.046 kb on + strand, within Xcc-8004.616.1at 570.046 kb on + strand, within Xcc-8004.616.1at 570.103 kb on + strand, within Xcc-8004.616.1at 570.105 kb on + strand, within Xcc-8004.616.1at 570.249 kb on + strand, within Xcc-8004.616.1at 570.249 kb on + strand, within Xcc-8004.616.1at 570.283 kb on + strand, within Xcc-8004.616.1at 570.284 kb on - strand, within Xcc-8004.616.1at 570.284 kb on - strand, within Xcc-8004.616.1at 570.371 kb on - strand, within Xcc-8004.616.1at 570.580 kb on + strand, within Xcc-8004.616.1at 570.669 kb on - strand, within Xcc-8004.616.1at 570.685 kb on - strand, within Xcc-8004.616.1at 570.740 kb on + strand, within Xcc-8004.616.1at 570.814 kb on - strand, within Xcc-8004.616.1at 570.899 kb on - strand, within Xcc-8004.616.1at 570.940 kb on + strand, within Xcc-8004.616.1at 570.940 kb on + strand, within Xcc-8004.616.1at 570.940 kb on + strand, within Xcc-8004.616.1at 570.951 kb on + strandat 570.951 kb on + strandat 570.961 kb on + strandat 570.962 kb on - strandat 571.156 kb on - strandat 571.263 kb on + strandat 571.267 kb on + strandat 571.268 kb on - strandat 571.268 kb on - strandat 571.271 kb on + strandat 571.272 kb on - strandat 571.272 kb on - strandat 571.286 kb on + strandat 571.286 kb on + strandat 571.287 kb on - strandat 571.287 kb on - strandat 571.287 kb on - strandat 571.302 kb on - strandat 571.514 kb on + strand, within Xcc-8004.618.1at 571.613 kb on + strand, within Xcc-8004.618.1at 571.614 kb on - strand, within Xcc-8004.618.1at 571.614 kb on - strand, within Xcc-8004.618.1at 571.614 kb on - strand, within Xcc-8004.618.1at 571.628 kb on + strand, within Xcc-8004.618.1at 571.928 kb on + strandat 571.928 kb on + strandat 571.929 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI tmk3mutant grown in Vogels_fungal_media, filtered; 0.2X
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568,979 + Xcc-8004.615.1 0.49 +0.6
568,980 - Xcc-8004.615.1 0.49 +0.1
569,039 + Xcc-8004.615.1 0.55 +0.6
569,039 + Xcc-8004.615.1 0.55 -0.3
569,039 + Xcc-8004.615.1 0.55 +0.2
569,040 - Xcc-8004.615.1 0.55 -0.5
569,168 + Xcc-8004.615.1 0.68 +0.6
569,300 - Xcc-8004.615.1 0.81 -0.6
569,300 - Xcc-8004.615.1 0.81 +0.2
569,314 - Xcc-8004.615.1 0.82 -0.1
569,378 + Xcc-8004.615.1 0.89 +0.8
569,378 + Xcc-8004.615.1 0.89 +0.1
569,623 + +0.2
569,623 + -0.1
569,624 - +1.0
569,683 - Xcc-8004.616.1 0.12 -2.0
569,713 + Xcc-8004.616.1 0.14 +0.5
569,736 - Xcc-8004.616.1 0.15 -0.2
569,774 - Xcc-8004.616.1 0.18 +0.4
569,774 - Xcc-8004.616.1 0.18 -1.4
569,792 - Xcc-8004.616.1 0.19 +0.6
569,792 - Xcc-8004.616.1 0.19 -0.1
569,805 + Xcc-8004.616.1 0.20 +1.0
569,852 + Xcc-8004.616.1 0.23 +0.6
569,853 - Xcc-8004.616.1 0.23 -0.3
569,853 - Xcc-8004.616.1 0.23 -0.4
570,046 + Xcc-8004.616.1 0.35 -0.5
570,046 + Xcc-8004.616.1 0.35 +2.5
570,046 + Xcc-8004.616.1 0.35 -0.3
570,103 + Xcc-8004.616.1 0.38 +1.1
570,105 + Xcc-8004.616.1 0.38 +0.8
570,249 + Xcc-8004.616.1 0.47 -1.6
570,249 + Xcc-8004.616.1 0.47 +2.3
570,283 + Xcc-8004.616.1 0.49 -0.0
570,284 - Xcc-8004.616.1 0.49 +0.7
570,284 - Xcc-8004.616.1 0.49 -0.1
570,371 - Xcc-8004.616.1 0.55 -0.5
570,580 + Xcc-8004.616.1 0.68 -0.9
570,669 - Xcc-8004.616.1 0.73 +0.2
570,685 - Xcc-8004.616.1 0.74 -0.8
570,740 + Xcc-8004.616.1 0.77 +0.2
570,814 - Xcc-8004.616.1 0.82 +0.6
570,899 - Xcc-8004.616.1 0.87 +1.3
570,940 + Xcc-8004.616.1 0.90 +0.6
570,940 + Xcc-8004.616.1 0.90 +0.1
570,940 + Xcc-8004.616.1 0.90 -0.2
570,951 + -0.9
570,951 + -0.8
570,961 + +1.5
570,962 - -1.5
571,156 - -0.6
571,263 + +0.4
571,267 + -0.5
571,268 - -1.1
571,268 - -0.8
571,271 + -0.1
571,272 - -0.9
571,272 - +0.1
571,286 + +0.4
571,286 + +0.4
571,287 - -0.7
571,287 - -0.5
571,287 - +0.9
571,302 - -1.2
571,514 + Xcc-8004.618.1 0.46 +0.6
571,613 + Xcc-8004.618.1 0.63 -1.8
571,614 - Xcc-8004.618.1 0.63 +0.1
571,614 - Xcc-8004.618.1 0.63 +1.4
571,614 - Xcc-8004.618.1 0.63 +1.1
571,628 + Xcc-8004.618.1 0.65 -0.2
571,928 + +0.3
571,928 + +0.7
571,929 - +0.1

Or see this region's nucleotide sequence