Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.419.1

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-8004.417.1 and Xcc-8004.418.1 are separated by 137 nucleotidesXcc-8004.418.1 and Xcc-8004.419.1 are separated by 2 nucleotidesXcc-8004.419.1 and Xcc-8004.420.1 overlap by 9 nucleotidesXcc-8004.420.1 and Xcc-8004.421.1 overlap by 41 nucleotidesXcc-8004.421.1 and Xcc-8004.422.1 are separated by 179 nucleotidesXcc-8004.422.1 and Xcc-8004.423.1 overlap by 4 nucleotidesXcc-8004.423.1 and Xcc-8004.424.1 overlap by 26 nucleotides Xcc-8004.417.1: Xcc-8004.417.1 - hypothetical protein, at 402,726 to 403,127 Xcc-8004.417.1 Xcc-8004.418.1: Xcc-8004.418.1 - hypothetical protein, at 403,265 to 403,720 Xcc-8004.418.1 Xcc-8004.419.1: Xcc-8004.419.1 - putative; ORF located using Glimmer/Genemark, at 403,723 to 404,553 Xcc-8004.419.1 Xcc-8004.420.1: Xcc-8004.420.1 - Xanthomonadin biosynthesis related protein, at 404,545 to 404,637 Xcc-8004.420.1 Xcc-8004.421.1: Xcc-8004.421.1 - Xanthomonadin biosynthesis related protein, at 404,597 to 404,722 Xcc-8004.421.1 Xcc-8004.422.1: Xcc-8004.422.1 - hypothetical protein, at 404,902 to 405,264 Xcc-8004.422.1 Xcc-8004.423.1: Xcc-8004.423.1 - hypothetical protein, at 405,261 to 405,371 Xcc-8004.423.1 Xcc-8004.424.1: Xcc-8004.424.1 - hypothetical protein, at 405,346 to 405,492 Xcc-8004.424.1 Position (kb) 403 404 405Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 402.744 kb on + strandat 402.842 kb on + strand, within Xcc-8004.417.1at 402.843 kb on - strand, within Xcc-8004.417.1at 402.845 kb on + strand, within Xcc-8004.417.1at 402.845 kb on + strand, within Xcc-8004.417.1at 402.846 kb on - strand, within Xcc-8004.417.1at 402.846 kb on - strand, within Xcc-8004.417.1at 403.013 kb on + strand, within Xcc-8004.417.1at 403.014 kb on - strand, within Xcc-8004.417.1at 403.110 kb on + strandat 403.221 kb on + strandat 403.221 kb on + strandat 403.251 kb on - strandat 403.258 kb on + strandat 403.259 kb on - strandat 403.259 kb on - strandat 403.260 kb on + strandat 403.260 kb on + strandat 403.261 kb on - strandat 403.373 kb on + strand, within Xcc-8004.418.1at 403.385 kb on + strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.417 kb on + strand, within Xcc-8004.418.1at 403.418 kb on - strand, within Xcc-8004.418.1at 403.418 kb on - strand, within Xcc-8004.418.1at 403.462 kb on + strand, within Xcc-8004.418.1at 403.464 kb on + strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.560 kb on + strand, within Xcc-8004.418.1at 403.582 kb on + strand, within Xcc-8004.418.1at 403.582 kb on + strand, within Xcc-8004.418.1at 403.608 kb on + strand, within Xcc-8004.418.1at 403.609 kb on - strand, within Xcc-8004.418.1at 403.720 kb on + strandat 403.720 kb on + strandat 403.721 kb on - strandat 403.724 kb on + strandat 403.725 kb on - strandat 403.725 kb on - strandat 403.728 kb on - strandat 403.728 kb on - strandat 403.728 kb on - strandat 403.734 kb on + strandat 403.735 kb on - strandat 403.735 kb on - strandat 403.735 kb on - strandat 403.742 kb on + strandat 403.804 kb on + strandat 403.805 kb on - strandat 403.829 kb on + strand, within Xcc-8004.419.1at 403.829 kb on + strand, within Xcc-8004.419.1at 403.911 kb on + strand, within Xcc-8004.419.1at 403.912 kb on - strand, within Xcc-8004.419.1at 403.912 kb on - strand, within Xcc-8004.419.1at 403.990 kb on - strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.072 kb on - strand, within Xcc-8004.419.1at 404.095 kb on + strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.189 kb on + strand, within Xcc-8004.419.1at 404.396 kb on + strand, within Xcc-8004.419.1at 404.397 kb on - strand, within Xcc-8004.419.1at 404.681 kb on + strand, within Xcc-8004.421.1at 404.681 kb on + strand, within Xcc-8004.421.1at 404.681 kb on + strand, within Xcc-8004.421.1at 404.681 kb on + strand, within Xcc-8004.421.1at 404.681 kb on + strand, within Xcc-8004.421.1at 404.703 kb on - strand, within Xcc-8004.421.1at 404.818 kb on + strandat 404.927 kb on + strandat 404.927 kb on + strandat 404.928 kb on - strandat 405.136 kb on + strand, within Xcc-8004.422.1at 405.162 kb on + strand, within Xcc-8004.422.1at 405.163 kb on - strand, within Xcc-8004.422.1at 405.184 kb on - strand, within Xcc-8004.422.1at 405.184 kb on - strand, within Xcc-8004.422.1at 405.195 kb on - strand, within Xcc-8004.422.1at 405.195 kb on - strand, within Xcc-8004.422.1at 405.201 kb on + strand, within Xcc-8004.422.1at 405.201 kb on + strand, within Xcc-8004.422.1at 405.201 kb on + strand, within Xcc-8004.422.1at 405.202 kb on - strand, within Xcc-8004.422.1at 405.202 kb on - strand, within Xcc-8004.422.1at 405.202 kb on - strand, within Xcc-8004.422.1at 405.213 kb on + strand, within Xcc-8004.422.1at 405.222 kb on + strand, within Xcc-8004.422.1at 405.501 kb on + strandat 405.521 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylemvessel barcodes Location 3 6 dpi (25 plantes)
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402,744 + -0.0
402,842 + Xcc-8004.417.1 0.29 +0.9
402,843 - Xcc-8004.417.1 0.29 +3.2
402,845 + Xcc-8004.417.1 0.30 +0.3
402,845 + Xcc-8004.417.1 0.30 +0.1
402,846 - Xcc-8004.417.1 0.30 +2.0
402,846 - Xcc-8004.417.1 0.30 +2.5
403,013 + Xcc-8004.417.1 0.71 +0.0
403,014 - Xcc-8004.417.1 0.72 +0.9
403,110 + -1.1
403,221 + -0.7
403,221 + -0.4
403,251 - +0.5
403,258 + -0.3
403,259 - +0.1
403,259 - +0.8
403,260 + +0.7
403,260 + +1.9
403,261 - +3.0
403,373 + Xcc-8004.418.1 0.24 +0.8
403,385 + Xcc-8004.418.1 0.26 -1.9
403,386 - Xcc-8004.418.1 0.27 +0.7
403,386 - Xcc-8004.418.1 0.27 +0.4
403,386 - Xcc-8004.418.1 0.27 -3.4
403,409 + Xcc-8004.418.1 0.32 +0.9
403,409 + Xcc-8004.418.1 0.32 +1.1
403,409 + Xcc-8004.418.1 0.32 -0.9
403,409 + Xcc-8004.418.1 0.32 +0.4
403,410 - Xcc-8004.418.1 0.32 +1.0
403,410 - Xcc-8004.418.1 0.32 +3.5
403,410 - Xcc-8004.418.1 0.32 -1.1
403,413 + Xcc-8004.418.1 0.32 -1.6
403,413 + Xcc-8004.418.1 0.32 -2.1
403,413 + Xcc-8004.418.1 0.32 +1.5
403,414 - Xcc-8004.418.1 0.33 +0.6
403,414 - Xcc-8004.418.1 0.33 -0.5
403,414 - Xcc-8004.418.1 0.33 +0.4
403,417 + Xcc-8004.418.1 0.33 -1.4
403,418 - Xcc-8004.418.1 0.34 -0.8
403,418 - Xcc-8004.418.1 0.34 -1.9
403,462 + Xcc-8004.418.1 0.43 +0.5
403,464 + Xcc-8004.418.1 0.44 +0.1
403,465 - Xcc-8004.418.1 0.44 +1.4
403,465 - Xcc-8004.418.1 0.44 +0.6
403,465 - Xcc-8004.418.1 0.44 +1.0
403,560 + Xcc-8004.418.1 0.65 +0.1
403,582 + Xcc-8004.418.1 0.70 -1.5
403,582 + Xcc-8004.418.1 0.70 +1.5
403,608 + Xcc-8004.418.1 0.75 -3.2
403,609 - Xcc-8004.418.1 0.75 +0.4
403,720 + +0.3
403,720 + +1.7
403,721 - -0.2
403,724 + +1.3
403,725 - +0.1
403,725 - +0.8
403,728 - -0.3
403,728 - +0.6
403,728 - -0.1
403,734 + -0.4
403,735 - +2.3
403,735 - -1.6
403,735 - +0.6
403,742 + -0.5
403,804 + +0.1
403,805 - +0.7
403,829 + Xcc-8004.419.1 0.13 +0.9
403,829 + Xcc-8004.419.1 0.13 -0.3
403,911 + Xcc-8004.419.1 0.23 -1.6
403,912 - Xcc-8004.419.1 0.23 -1.3
403,912 - Xcc-8004.419.1 0.23 +3.8
403,990 - Xcc-8004.419.1 0.32 -0.4
404,071 + Xcc-8004.419.1 0.42 -0.3
404,071 + Xcc-8004.419.1 0.42 -1.3
404,071 + Xcc-8004.419.1 0.42 +1.3
404,072 - Xcc-8004.419.1 0.42 -1.1
404,095 + Xcc-8004.419.1 0.45 +3.0
404,096 - Xcc-8004.419.1 0.45 -3.2
404,096 - Xcc-8004.419.1 0.45 +3.9
404,096 - Xcc-8004.419.1 0.45 -0.4
404,096 - Xcc-8004.419.1 0.45 +1.8
404,096 - Xcc-8004.419.1 0.45 +0.1
404,096 - Xcc-8004.419.1 0.45 +2.1
404,189 + Xcc-8004.419.1 0.56 +1.7
404,396 + Xcc-8004.419.1 0.81 -0.5
404,397 - Xcc-8004.419.1 0.81 -1.5
404,681 + Xcc-8004.421.1 0.67 +5.3
404,681 + Xcc-8004.421.1 0.67 +1.0
404,681 + Xcc-8004.421.1 0.67 -0.5
404,681 + Xcc-8004.421.1 0.67 -0.5
404,681 + Xcc-8004.421.1 0.67 +0.5
404,703 - Xcc-8004.421.1 0.84 +0.4
404,818 + +2.5
404,927 + -0.1
404,927 + +0.3
404,928 - +2.4
405,136 + Xcc-8004.422.1 0.64 -1.9
405,162 + Xcc-8004.422.1 0.72 -0.7
405,163 - Xcc-8004.422.1 0.72 +0.3
405,184 - Xcc-8004.422.1 0.78 -1.2
405,184 - Xcc-8004.422.1 0.78 -0.4
405,195 - Xcc-8004.422.1 0.81 +0.5
405,195 - Xcc-8004.422.1 0.81 -0.6
405,201 + Xcc-8004.422.1 0.82 -2.6
405,201 + Xcc-8004.422.1 0.82 +0.7
405,201 + Xcc-8004.422.1 0.82 +0.5
405,202 - Xcc-8004.422.1 0.83 +1.3
405,202 - Xcc-8004.422.1 0.83 -1.3
405,202 - Xcc-8004.422.1 0.83 -0.8
405,213 + Xcc-8004.422.1 0.86 +1.5
405,222 + Xcc-8004.422.1 0.88 -1.8
405,501 + +2.7
405,521 - +2.1

Or see this region's nucleotide sequence