Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.611.1

Experiment: Xylemvessel barcodes Location 3 6 dpi (25 plantes)

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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-8004.609.1 and Xcc-8004.610.1 are separated by 13 nucleotidesXcc-8004.610.1 and Xcc-8004.611.1 are separated by 124 nucleotidesXcc-8004.611.1 and Xcc-8004.612.1 overlap by 4 nucleotides Xcc-8004.609.1: Xcc-8004.609.1 - hypothetical protein, at 561,540 to 562,610 Xcc-8004.609.1 Xcc-8004.610.1: Xcc-8004.610.1 - putative; ORF located using Glimmer/Genemark, at 562,624 to 562,989 Xcc-8004.610.1 Xcc-8004.611.1: Xcc-8004.611.1 - Type I restriction-modification system, restriction subunit R (EC 3.1.21.3), at 563,114 to 566,098 Xcc-8004.611.1 Xcc-8004.612.1: Xcc-8004.612.1 - Type I restriction-modification system, specificity subunit S (EC 3.1.21.3), at 566,095 to 567,387 Xcc-8004.612.1 Position (kb) 563 564 565 566 567Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 562.153 kb on - strand, within Xcc-8004.609.1at 562.569 kb on + strandat 562.569 kb on + strandat 562.569 kb on + strandat 562.612 kb on + strandat 562.612 kb on + strandat 562.612 kb on + strandat 562.612 kb on + strandat 562.616 kb on + strandat 562.616 kb on + strandat 562.617 kb on - strandat 562.617 kb on - strandat 562.617 kb on - strandat 562.617 kb on - strandat 562.636 kb on - strandat 562.705 kb on - strand, within Xcc-8004.610.1at 562.872 kb on + strand, within Xcc-8004.610.1at 562.872 kb on + strand, within Xcc-8004.610.1at 562.873 kb on - strand, within Xcc-8004.610.1at 562.898 kb on - strand, within Xcc-8004.610.1at 562.994 kb on + strandat 563.113 kb on + strandat 563.114 kb on - strandat 563.175 kb on - strandat 563.310 kb on + strandat 563.310 kb on + strandat 563.351 kb on - strandat 563.446 kb on + strand, within Xcc-8004.611.1at 563.468 kb on + strand, within Xcc-8004.611.1at 563.469 kb on - strand, within Xcc-8004.611.1at 563.469 kb on - strand, within Xcc-8004.611.1at 563.526 kb on + strand, within Xcc-8004.611.1at 563.527 kb on - strand, within Xcc-8004.611.1at 563.530 kb on + strand, within Xcc-8004.611.1at 563.530 kb on + strand, within Xcc-8004.611.1at 563.530 kb on + strand, within Xcc-8004.611.1at 563.530 kb on + strand, within Xcc-8004.611.1at 563.531 kb on - strand, within Xcc-8004.611.1at 563.531 kb on - strand, within Xcc-8004.611.1at 563.567 kb on + strand, within Xcc-8004.611.1at 563.568 kb on - strand, within Xcc-8004.611.1at 563.718 kb on - strand, within Xcc-8004.611.1at 563.724 kb on - strand, within Xcc-8004.611.1at 563.740 kb on + strand, within Xcc-8004.611.1at 563.806 kb on - strand, within Xcc-8004.611.1at 563.864 kb on + strand, within Xcc-8004.611.1at 563.924 kb on + strand, within Xcc-8004.611.1at 563.924 kb on + strand, within Xcc-8004.611.1at 564.210 kb on - strand, within Xcc-8004.611.1at 564.330 kb on + strand, within Xcc-8004.611.1at 564.330 kb on + strand, within Xcc-8004.611.1at 564.330 kb on + strand, within Xcc-8004.611.1at 564.374 kb on + strand, within Xcc-8004.611.1at 564.374 kb on + strand, within Xcc-8004.611.1at 564.374 kb on + strand, within Xcc-8004.611.1at 564.446 kb on + strand, within Xcc-8004.611.1at 564.446 kb on + strand, within Xcc-8004.611.1at 564.447 kb on - strand, within Xcc-8004.611.1at 564.447 kb on - strand, within Xcc-8004.611.1at 564.504 kb on - strand, within Xcc-8004.611.1at 564.656 kb on + strand, within Xcc-8004.611.1at 564.863 kb on + strand, within Xcc-8004.611.1at 564.864 kb on - strand, within Xcc-8004.611.1at 564.865 kb on + strand, within Xcc-8004.611.1at 564.865 kb on + strand, within Xcc-8004.611.1at 564.865 kb on + strand, within Xcc-8004.611.1at 564.866 kb on - strand, within Xcc-8004.611.1at 564.866 kb on - strand, within Xcc-8004.611.1at 564.866 kb on - strand, within Xcc-8004.611.1at 564.911 kb on + strand, within Xcc-8004.611.1at 564.912 kb on - strand, within Xcc-8004.611.1at 564.915 kb on - strand, within Xcc-8004.611.1at 564.915 kb on - strand, within Xcc-8004.611.1at 565.040 kb on + strand, within Xcc-8004.611.1at 565.055 kb on + strand, within Xcc-8004.611.1at 565.055 kb on + strand, within Xcc-8004.611.1at 565.056 kb on - strand, within Xcc-8004.611.1at 565.076 kb on + strand, within Xcc-8004.611.1at 565.076 kb on + strand, within Xcc-8004.611.1at 565.077 kb on - strand, within Xcc-8004.611.1at 565.424 kb on + strand, within Xcc-8004.611.1at 565.424 kb on + strand, within Xcc-8004.611.1at 565.489 kb on + strand, within Xcc-8004.611.1at 565.490 kb on - strand, within Xcc-8004.611.1at 565.490 kb on - strand, within Xcc-8004.611.1at 565.632 kb on - strand, within Xcc-8004.611.1at 565.637 kb on + strand, within Xcc-8004.611.1at 565.637 kb on + strand, within Xcc-8004.611.1at 565.767 kb on - strand, within Xcc-8004.611.1at 566.088 kb on - strandat 566.308 kb on + strand, within Xcc-8004.612.1at 566.309 kb on - strand, within Xcc-8004.612.1at 566.332 kb on + strand, within Xcc-8004.612.1at 566.333 kb on - strand, within Xcc-8004.612.1at 566.362 kb on + strand, within Xcc-8004.612.1at 566.362 kb on + strand, within Xcc-8004.612.1at 566.365 kb on - strand, within Xcc-8004.612.1at 566.432 kb on + strand, within Xcc-8004.612.1at 566.432 kb on + strand, within Xcc-8004.612.1at 566.444 kb on - strand, within Xcc-8004.612.1at 566.444 kb on - strand, within Xcc-8004.612.1at 566.494 kb on + strand, within Xcc-8004.612.1at 566.520 kb on + strand, within Xcc-8004.612.1at 566.520 kb on + strand, within Xcc-8004.612.1at 566.521 kb on - strand, within Xcc-8004.612.1at 566.525 kb on - strand, within Xcc-8004.612.1at 566.525 kb on - strand, within Xcc-8004.612.1at 566.535 kb on + strand, within Xcc-8004.612.1at 566.535 kb on + strand, within Xcc-8004.612.1at 566.571 kb on - strand, within Xcc-8004.612.1at 566.571 kb on - strand, within Xcc-8004.612.1at 566.574 kb on + strand, within Xcc-8004.612.1at 566.574 kb on + strand, within Xcc-8004.612.1at 566.574 kb on + strand, within Xcc-8004.612.1at 566.575 kb on - strand, within Xcc-8004.612.1at 566.575 kb on - strand, within Xcc-8004.612.1at 566.645 kb on + strand, within Xcc-8004.612.1at 566.778 kb on + strand, within Xcc-8004.612.1at 566.890 kb on + strand, within Xcc-8004.612.1at 566.891 kb on - strand, within Xcc-8004.612.1at 566.939 kb on + strand, within Xcc-8004.612.1at 566.939 kb on + strand, within Xcc-8004.612.1at 566.940 kb on - strand, within Xcc-8004.612.1at 566.949 kb on + strand, within Xcc-8004.612.1at 566.949 kb on + strand, within Xcc-8004.612.1at 566.950 kb on - strand, within Xcc-8004.612.1at 566.950 kb on - strand, within Xcc-8004.612.1at 566.950 kb on - strand, within Xcc-8004.612.1at 566.950 kb on - strand, within Xcc-8004.612.1at 566.952 kb on + strand, within Xcc-8004.612.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylemvessel barcodes Location 3 6 dpi (25 plantes)
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562,153 - Xcc-8004.609.1 0.57 +0.8
562,569 + -0.2
562,569 + -1.3
562,569 + +0.5
562,612 + +0.6
562,612 + +1.5
562,612 + -1.6
562,612 + -0.5
562,616 + +0.2
562,616 + -0.9
562,617 - -1.2
562,617 - +0.7
562,617 - -0.2
562,617 - -0.2
562,636 - -0.3
562,705 - Xcc-8004.610.1 0.22 +1.5
562,872 + Xcc-8004.610.1 0.68 +0.7
562,872 + Xcc-8004.610.1 0.68 +1.8
562,873 - Xcc-8004.610.1 0.68 +1.1
562,898 - Xcc-8004.610.1 0.75 -0.1
562,994 + +0.3
563,113 + -0.7
563,114 - -0.6
563,175 - -3.9
563,310 + +1.7
563,310 + -0.3
563,351 - -0.5
563,446 + Xcc-8004.611.1 0.11 -1.3
563,468 + Xcc-8004.611.1 0.12 -2.8
563,469 - Xcc-8004.611.1 0.12 +1.1
563,469 - Xcc-8004.611.1 0.12 -2.0
563,526 + Xcc-8004.611.1 0.14 +1.1
563,527 - Xcc-8004.611.1 0.14 -0.6
563,530 + Xcc-8004.611.1 0.14 +3.1
563,530 + Xcc-8004.611.1 0.14 +0.3
563,530 + Xcc-8004.611.1 0.14 -1.0
563,530 + Xcc-8004.611.1 0.14 -1.3
563,531 - Xcc-8004.611.1 0.14 +0.4
563,531 - Xcc-8004.611.1 0.14 -1.0
563,567 + Xcc-8004.611.1 0.15 -0.1
563,568 - Xcc-8004.611.1 0.15 -1.1
563,718 - Xcc-8004.611.1 0.20 -1.6
563,724 - Xcc-8004.611.1 0.20 -2.4
563,740 + Xcc-8004.611.1 0.21 -0.1
563,806 - Xcc-8004.611.1 0.23 -0.2
563,864 + Xcc-8004.611.1 0.25 +0.6
563,924 + Xcc-8004.611.1 0.27 +0.7
563,924 + Xcc-8004.611.1 0.27 -1.4
564,210 - Xcc-8004.611.1 0.37 -1.9
564,330 + Xcc-8004.611.1 0.41 -0.2
564,330 + Xcc-8004.611.1 0.41 -2.3
564,330 + Xcc-8004.611.1 0.41 -1.0
564,374 + Xcc-8004.611.1 0.42 -0.6
564,374 + Xcc-8004.611.1 0.42 -1.1
564,374 + Xcc-8004.611.1 0.42 -1.9
564,446 + Xcc-8004.611.1 0.45 -1.0
564,446 + Xcc-8004.611.1 0.45 -1.1
564,447 - Xcc-8004.611.1 0.45 -1.4
564,447 - Xcc-8004.611.1 0.45 -1.8
564,504 - Xcc-8004.611.1 0.47 -0.6
564,656 + Xcc-8004.611.1 0.52 -0.1
564,863 + Xcc-8004.611.1 0.59 +1.0
564,864 - Xcc-8004.611.1 0.59 -3.4
564,865 + Xcc-8004.611.1 0.59 -0.9
564,865 + Xcc-8004.611.1 0.59 -0.6
564,865 + Xcc-8004.611.1 0.59 -0.1
564,866 - Xcc-8004.611.1 0.59 -1.9
564,866 - Xcc-8004.611.1 0.59 -2.8
564,866 - Xcc-8004.611.1 0.59 -0.2
564,911 + Xcc-8004.611.1 0.60 -2.0
564,912 - Xcc-8004.611.1 0.60 +1.4
564,915 - Xcc-8004.611.1 0.60 -1.9
564,915 - Xcc-8004.611.1 0.60 -0.9
565,040 + Xcc-8004.611.1 0.65 +0.3
565,055 + Xcc-8004.611.1 0.65 +1.7
565,055 + Xcc-8004.611.1 0.65 +0.4
565,056 - Xcc-8004.611.1 0.65 -2.3
565,076 + Xcc-8004.611.1 0.66 +0.1
565,076 + Xcc-8004.611.1 0.66 -1.9
565,077 - Xcc-8004.611.1 0.66 +0.8
565,424 + Xcc-8004.611.1 0.77 -0.3
565,424 + Xcc-8004.611.1 0.77 -1.3
565,489 + Xcc-8004.611.1 0.80 -2.4
565,490 - Xcc-8004.611.1 0.80 -0.5
565,490 - Xcc-8004.611.1 0.80 +0.4
565,632 - Xcc-8004.611.1 0.84 -0.3
565,637 + Xcc-8004.611.1 0.85 -3.1
565,637 + Xcc-8004.611.1 0.85 -1.2
565,767 - Xcc-8004.611.1 0.89 -0.4
566,088 - +1.5
566,308 + Xcc-8004.612.1 0.16 +0.9
566,309 - Xcc-8004.612.1 0.17 -0.9
566,332 + Xcc-8004.612.1 0.18 -0.4
566,333 - Xcc-8004.612.1 0.18 -0.2
566,362 + Xcc-8004.612.1 0.21 +2.4
566,362 + Xcc-8004.612.1 0.21 +2.1
566,365 - Xcc-8004.612.1 0.21 -0.2
566,432 + Xcc-8004.612.1 0.26 +0.1
566,432 + Xcc-8004.612.1 0.26 +0.9
566,444 - Xcc-8004.612.1 0.27 -1.9
566,444 - Xcc-8004.612.1 0.27 -2.5
566,494 + Xcc-8004.612.1 0.31 -0.5
566,520 + Xcc-8004.612.1 0.33 -0.1
566,520 + Xcc-8004.612.1 0.33 -1.2
566,521 - Xcc-8004.612.1 0.33 +3.9
566,525 - Xcc-8004.612.1 0.33 +0.7
566,525 - Xcc-8004.612.1 0.33 +0.4
566,535 + Xcc-8004.612.1 0.34 -1.6
566,535 + Xcc-8004.612.1 0.34 +0.9
566,571 - Xcc-8004.612.1 0.37 -0.5
566,571 - Xcc-8004.612.1 0.37 +0.1
566,574 + Xcc-8004.612.1 0.37 -0.0
566,574 + Xcc-8004.612.1 0.37 -0.2
566,574 + Xcc-8004.612.1 0.37 +0.1
566,575 - Xcc-8004.612.1 0.37 -1.5
566,575 - Xcc-8004.612.1 0.37 -1.9
566,645 + Xcc-8004.612.1 0.43 +0.4
566,778 + Xcc-8004.612.1 0.53 -2.5
566,890 + Xcc-8004.612.1 0.61 -0.3
566,891 - Xcc-8004.612.1 0.62 -2.0
566,939 + Xcc-8004.612.1 0.65 +3.8
566,939 + Xcc-8004.612.1 0.65 -1.3
566,940 - Xcc-8004.612.1 0.65 -0.2
566,949 + Xcc-8004.612.1 0.66 +1.4
566,949 + Xcc-8004.612.1 0.66 -2.0
566,950 - Xcc-8004.612.1 0.66 -0.1
566,950 - Xcc-8004.612.1 0.66 -2.3
566,950 - Xcc-8004.612.1 0.66 -1.3
566,950 - Xcc-8004.612.1 0.66 +0.1
566,952 + Xcc-8004.612.1 0.66 -1.9

Or see this region's nucleotide sequence