Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1964.1

Experiment: Pectin from apple 2 g/L (C)

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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-8004.1963.1 and Xcc-8004.1964.1 are separated by 111 nucleotidesXcc-8004.1964.1 and Xcc-8004.1966.1 overlap by 4 nucleotidesXcc-8004.1966.1 and Xcc-8004.1967.1 overlap by 4 nucleotides Xcc-8004.1963.1: Xcc-8004.1963.1 - D-serine dehydratase transcriptional activator, at 1,892,918 to 1,893,814 Xcc-8004.1963.1 Xcc-8004.1964.1: Xcc-8004.1964.1 - Tryptophan synthase beta chain (EC 4.2.1.20), at 1,893,926 to 1,895,143 Xcc-8004.1964.1 Xcc-8004.1966.1: Xcc-8004.1966.1 - putative; ORF located using Glimmer/Genemark, at 1,895,140 to 1,895,658 Xcc-8004.1966.1 Xcc-8004.1967.1: Xcc-8004.1967.1 - Tryptophan synthase alpha chain (EC 4.2.1.20), at 1,895,655 to 1,896,473 Xcc-8004.1967.1 Position (kb) 1893 1894 1895 1896Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 1893.028 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.132 kb on + strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.133 kb on - strand, within Xcc-8004.1963.1at 1893.229 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.674 kb on + strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.675 kb on - strand, within Xcc-8004.1963.1at 1893.855 kb on + strandat 1893.855 kb on + strandat 1893.863 kb on - strandat 1893.876 kb on + strandat 1893.877 kb on - strandat 1893.877 kb on - strandat 1893.918 kb on + strandat 1893.918 kb on + strandat 1893.919 kb on - strandat 1893.919 kb on - strandat 1893.919 kb on - strandat 1893.919 kb on - strandat 1893.960 kb on - strandat 1894.050 kb on - strand, within Xcc-8004.1964.1at 1894.088 kb on + strand, within Xcc-8004.1964.1at 1894.088 kb on + strand, within Xcc-8004.1964.1at 1894.089 kb on - strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.109 kb on + strand, within Xcc-8004.1964.1at 1894.110 kb on - strand, within Xcc-8004.1964.1at 1894.110 kb on - strand, within Xcc-8004.1964.1at 1894.110 kb on - strand, within Xcc-8004.1964.1at 1894.133 kb on + strand, within Xcc-8004.1964.1at 1894.133 kb on + strand, within Xcc-8004.1964.1at 1894.134 kb on - strand, within Xcc-8004.1964.1at 1894.134 kb on - strand, within Xcc-8004.1964.1at 1894.134 kb on - strand, within Xcc-8004.1964.1at 1894.134 kb on - strand, within Xcc-8004.1964.1at 1894.134 kb on - strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.355 kb on + strand, within Xcc-8004.1964.1at 1894.356 kb on - strand, within Xcc-8004.1964.1at 1894.356 kb on - strand, within Xcc-8004.1964.1at 1894.356 kb on - strand, within Xcc-8004.1964.1at 1894.356 kb on - strand, within Xcc-8004.1964.1at 1894.356 kb on - strand, within Xcc-8004.1964.1at 1894.398 kb on - strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.514 kb on + strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.515 kb on - strand, within Xcc-8004.1964.1at 1894.617 kb on - strand, within Xcc-8004.1964.1at 1894.617 kb on - strand, within Xcc-8004.1964.1at 1894.617 kb on - strand, within Xcc-8004.1964.1at 1894.715 kb on + strand, within Xcc-8004.1964.1at 1894.715 kb on + strand, within Xcc-8004.1964.1at 1894.716 kb on - strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.811 kb on + strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.812 kb on - strand, within Xcc-8004.1964.1at 1894.928 kb on + strand, within Xcc-8004.1964.1at 1894.928 kb on + strand, within Xcc-8004.1964.1at 1894.982 kb on - strand, within Xcc-8004.1964.1at 1895.333 kb on - strand, within Xcc-8004.1966.1at 1895.333 kb on - strand, within Xcc-8004.1966.1at 1895.333 kb on - strand, within Xcc-8004.1966.1at 1895.333 kb on - strand, within Xcc-8004.1966.1at 1895.333 kb on - strand, within Xcc-8004.1966.1at 1895.509 kb on + strand, within Xcc-8004.1966.1at 1895.509 kb on + strand, within Xcc-8004.1966.1at 1895.509 kb on + strand, within Xcc-8004.1966.1at 1895.510 kb on - strand, within Xcc-8004.1966.1at 1895.510 kb on - strand, within Xcc-8004.1966.1at 1895.510 kb on - strand, within Xcc-8004.1966.1at 1895.510 kb on - strand, within Xcc-8004.1966.1at 1895.536 kb on + strand, within Xcc-8004.1966.1at 1895.536 kb on + strand, within Xcc-8004.1966.1at 1895.536 kb on + strand, within Xcc-8004.1966.1at 1895.537 kb on - strand, within Xcc-8004.1966.1at 1895.537 kb on - strand, within Xcc-8004.1966.1at 1895.537 kb on - strand, within Xcc-8004.1966.1at 1895.611 kb on + strandat 1895.612 kb on - strandat 1895.612 kb on - strandat 1895.675 kb on + strandat 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.904 kb on + strand, within Xcc-8004.1967.1at 1895.905 kb on - strand, within Xcc-8004.1967.1at 1895.905 kb on - strand, within Xcc-8004.1967.1at 1895.905 kb on - strand, within Xcc-8004.1967.1at 1895.905 kb on - strand, within Xcc-8004.1967.1at 1895.959 kb on + strand, within Xcc-8004.1967.1at 1895.959 kb on + strand, within Xcc-8004.1967.1at 1895.960 kb on - strand, within Xcc-8004.1967.1at 1895.960 kb on - strand, within Xcc-8004.1967.1at 1895.960 kb on - strand, within Xcc-8004.1967.1at 1895.970 kb on + strand, within Xcc-8004.1967.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
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1,893,028 + Xcc-8004.1963.1 0.12 +0.5
1,893,132 + Xcc-8004.1963.1 0.24 +0.3
1,893,132 + Xcc-8004.1963.1 0.24 -0.0
1,893,132 + Xcc-8004.1963.1 0.24 -0.3
1,893,132 + Xcc-8004.1963.1 0.24 -0.3
1,893,132 + Xcc-8004.1963.1 0.24 +1.0
1,893,132 + Xcc-8004.1963.1 0.24 +0.8
1,893,132 + Xcc-8004.1963.1 0.24 -1.3
1,893,132 + Xcc-8004.1963.1 0.24 +0.6
1,893,132 + Xcc-8004.1963.1 0.24 +0.3
1,893,132 + Xcc-8004.1963.1 0.24 +0.5
1,893,132 + Xcc-8004.1963.1 0.24 -0.8
1,893,132 + Xcc-8004.1963.1 0.24 +0.5
1,893,133 - Xcc-8004.1963.1 0.24 +0.2
1,893,133 - Xcc-8004.1963.1 0.24 +1.1
1,893,133 - Xcc-8004.1963.1 0.24 -0.3
1,893,133 - Xcc-8004.1963.1 0.24 -1.0
1,893,133 - Xcc-8004.1963.1 0.24 -0.4
1,893,133 - Xcc-8004.1963.1 0.24 +0.2
1,893,133 - Xcc-8004.1963.1 0.24 +0.5
1,893,133 - Xcc-8004.1963.1 0.24 +0.2
1,893,133 - Xcc-8004.1963.1 0.24 +0.3
1,893,229 + Xcc-8004.1963.1 0.35 +0.7
1,893,674 + Xcc-8004.1963.1 0.84 -1.8
1,893,674 + Xcc-8004.1963.1 0.84 -1.2
1,893,674 + Xcc-8004.1963.1 0.84 -1.9
1,893,674 + Xcc-8004.1963.1 0.84 +0.1
1,893,674 + Xcc-8004.1963.1 0.84 -0.1
1,893,674 + Xcc-8004.1963.1 0.84 +1.7
1,893,674 + Xcc-8004.1963.1 0.84 +0.4
1,893,674 + Xcc-8004.1963.1 0.84 +2.0
1,893,674 + Xcc-8004.1963.1 0.84 -1.0
1,893,674 + Xcc-8004.1963.1 0.84 +0.6
1,893,674 + Xcc-8004.1963.1 0.84 +0.2
1,893,674 + Xcc-8004.1963.1 0.84 +0.5
1,893,675 - Xcc-8004.1963.1 0.84 +0.9
1,893,675 - Xcc-8004.1963.1 0.84 -1.1
1,893,675 - Xcc-8004.1963.1 0.84 -1.0
1,893,675 - Xcc-8004.1963.1 0.84 -0.3
1,893,675 - Xcc-8004.1963.1 0.84 +0.3
1,893,675 - Xcc-8004.1963.1 0.84 +0.3
1,893,675 - Xcc-8004.1963.1 0.84 -0.5
1,893,675 - Xcc-8004.1963.1 0.84 +0.7
1,893,855 + -0.9
1,893,855 + +0.0
1,893,863 - -1.0
1,893,876 + +0.4
1,893,877 - +0.1
1,893,877 - -0.4
1,893,918 + -1.5
1,893,918 + -0.1
1,893,919 - -1.9
1,893,919 - -2.7
1,893,919 - -3.0
1,893,919 - -4.1
1,893,960 - -2.2
1,894,050 - Xcc-8004.1964.1 0.10 -1.8
1,894,088 + Xcc-8004.1964.1 0.13 -3.1
1,894,088 + Xcc-8004.1964.1 0.13 -2.1
1,894,089 - Xcc-8004.1964.1 0.13 +0.1
1,894,109 + Xcc-8004.1964.1 0.15 -1.3
1,894,109 + Xcc-8004.1964.1 0.15 -2.0
1,894,109 + Xcc-8004.1964.1 0.15 -2.9
1,894,109 + Xcc-8004.1964.1 0.15 -2.7
1,894,109 + Xcc-8004.1964.1 0.15 -2.3
1,894,109 + Xcc-8004.1964.1 0.15 -3.4
1,894,109 + Xcc-8004.1964.1 0.15 -0.4
1,894,110 - Xcc-8004.1964.1 0.15 -1.9
1,894,110 - Xcc-8004.1964.1 0.15 -1.1
1,894,110 - Xcc-8004.1964.1 0.15 -2.9
1,894,133 + Xcc-8004.1964.1 0.17 -3.1
1,894,133 + Xcc-8004.1964.1 0.17 -3.2
1,894,134 - Xcc-8004.1964.1 0.17 -1.5
1,894,134 - Xcc-8004.1964.1 0.17 -1.9
1,894,134 - Xcc-8004.1964.1 0.17 -0.4
1,894,134 - Xcc-8004.1964.1 0.17 -2.9
1,894,134 - Xcc-8004.1964.1 0.17 -1.4
1,894,355 + Xcc-8004.1964.1 0.35 -1.7
1,894,355 + Xcc-8004.1964.1 0.35 -3.4
1,894,355 + Xcc-8004.1964.1 0.35 -3.0
1,894,355 + Xcc-8004.1964.1 0.35 -0.9
1,894,355 + Xcc-8004.1964.1 0.35 -1.6
1,894,355 + Xcc-8004.1964.1 0.35 -2.7
1,894,355 + Xcc-8004.1964.1 0.35 -2.9
1,894,355 + Xcc-8004.1964.1 0.35 -1.1
1,894,355 + Xcc-8004.1964.1 0.35 -1.1
1,894,356 - Xcc-8004.1964.1 0.35 -0.7
1,894,356 - Xcc-8004.1964.1 0.35 -2.1
1,894,356 - Xcc-8004.1964.1 0.35 -3.5
1,894,356 - Xcc-8004.1964.1 0.35 -2.5
1,894,356 - Xcc-8004.1964.1 0.35 -3.1
1,894,398 - Xcc-8004.1964.1 0.39 -2.5
1,894,514 + Xcc-8004.1964.1 0.48 -2.7
1,894,514 + Xcc-8004.1964.1 0.48 -0.3
1,894,514 + Xcc-8004.1964.1 0.48 +0.7
1,894,514 + Xcc-8004.1964.1 0.48 -2.5
1,894,514 + Xcc-8004.1964.1 0.48 -2.5
1,894,514 + Xcc-8004.1964.1 0.48 -2.4
1,894,515 - Xcc-8004.1964.1 0.48 -2.0
1,894,515 - Xcc-8004.1964.1 0.48 -4.0
1,894,515 - Xcc-8004.1964.1 0.48 -1.6
1,894,515 - Xcc-8004.1964.1 0.48 -2.7
1,894,515 - Xcc-8004.1964.1 0.48 -2.4
1,894,515 - Xcc-8004.1964.1 0.48 +1.7
1,894,515 - Xcc-8004.1964.1 0.48 -1.1
1,894,617 - Xcc-8004.1964.1 0.57 -2.4
1,894,617 - Xcc-8004.1964.1 0.57 -1.9
1,894,617 - Xcc-8004.1964.1 0.57 -1.9
1,894,715 + Xcc-8004.1964.1 0.65 -0.3
1,894,715 + Xcc-8004.1964.1 0.65 -2.4
1,894,716 - Xcc-8004.1964.1 0.65 -3.4
1,894,811 + Xcc-8004.1964.1 0.73 -2.9
1,894,811 + Xcc-8004.1964.1 0.73 +0.5
1,894,811 + Xcc-8004.1964.1 0.73 -2.7
1,894,811 + Xcc-8004.1964.1 0.73 -1.9
1,894,811 + Xcc-8004.1964.1 0.73 -2.4
1,894,811 + Xcc-8004.1964.1 0.73 -1.4
1,894,811 + Xcc-8004.1964.1 0.73 -2.1
1,894,811 + Xcc-8004.1964.1 0.73 -2.6
1,894,812 - Xcc-8004.1964.1 0.73 -0.9
1,894,812 - Xcc-8004.1964.1 0.73 -1.4
1,894,812 - Xcc-8004.1964.1 0.73 -2.7
1,894,812 - Xcc-8004.1964.1 0.73 -3.0
1,894,812 - Xcc-8004.1964.1 0.73 -1.7
1,894,812 - Xcc-8004.1964.1 0.73 -1.4
1,894,812 - Xcc-8004.1964.1 0.73 -3.4
1,894,812 - Xcc-8004.1964.1 0.73 -2.6
1,894,812 - Xcc-8004.1964.1 0.73 -2.5
1,894,812 - Xcc-8004.1964.1 0.73 -2.1
1,894,812 - Xcc-8004.1964.1 0.73 -1.7
1,894,928 + Xcc-8004.1964.1 0.82 -1.9
1,894,928 + Xcc-8004.1964.1 0.82 -3.0
1,894,982 - Xcc-8004.1964.1 0.87 -2.9
1,895,333 - Xcc-8004.1966.1 0.37 -0.4
1,895,333 - Xcc-8004.1966.1 0.37 +0.0
1,895,333 - Xcc-8004.1966.1 0.37 -0.4
1,895,333 - Xcc-8004.1966.1 0.37 +0.2
1,895,333 - Xcc-8004.1966.1 0.37 +0.2
1,895,509 + Xcc-8004.1966.1 0.71 -1.0
1,895,509 + Xcc-8004.1966.1 0.71 -1.4
1,895,509 + Xcc-8004.1966.1 0.71 -0.9
1,895,510 - Xcc-8004.1966.1 0.71 -1.1
1,895,510 - Xcc-8004.1966.1 0.71 -2.1
1,895,510 - Xcc-8004.1966.1 0.71 +0.0
1,895,510 - Xcc-8004.1966.1 0.71 +0.5
1,895,536 + Xcc-8004.1966.1 0.76 +0.3
1,895,536 + Xcc-8004.1966.1 0.76 +0.1
1,895,536 + Xcc-8004.1966.1 0.76 -0.3
1,895,537 - Xcc-8004.1966.1 0.76 -1.6
1,895,537 - Xcc-8004.1966.1 0.76 -1.3
1,895,537 - Xcc-8004.1966.1 0.76 -1.0
1,895,611 + +1.7
1,895,612 - -1.0
1,895,612 - -1.8
1,895,675 + -1.3
1,895,904 + Xcc-8004.1967.1 0.30 -1.8
1,895,904 + Xcc-8004.1967.1 0.30 -1.8
1,895,904 + Xcc-8004.1967.1 0.30 -0.8
1,895,904 + Xcc-8004.1967.1 0.30 -2.3
1,895,904 + Xcc-8004.1967.1 0.30 -1.0
1,895,904 + Xcc-8004.1967.1 0.30 -1.1
1,895,905 - Xcc-8004.1967.1 0.31 -2.0
1,895,905 - Xcc-8004.1967.1 0.31 -1.8
1,895,905 - Xcc-8004.1967.1 0.31 -2.4
1,895,905 - Xcc-8004.1967.1 0.31 -2.8
1,895,959 + Xcc-8004.1967.1 0.37 -2.6
1,895,959 + Xcc-8004.1967.1 0.37 -1.5
1,895,960 - Xcc-8004.1967.1 0.37 -1.6
1,895,960 - Xcc-8004.1967.1 0.37 -2.4
1,895,960 - Xcc-8004.1967.1 0.37 -3.9
1,895,970 + Xcc-8004.1967.1 0.38 +1.5

Or see this region's nucleotide sequence