Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1828.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant

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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-8004.1827.1 and Xcc-8004.1828.1 are separated by 45 nucleotidesXcc-8004.1828.1 and Xcc-8004.1829.1 are separated by 449 nucleotidesXcc-8004.1829.1 and Xcc-8004.1830.1 overlap by 4 nucleotides Xcc-8004.1827.1: Xcc-8004.1827.1 - chloride channel, at 1,762,276 to 1,763,640 Xcc-8004.1827.1 Xcc-8004.1828.1: Xcc-8004.1828.1 - Alkaline phosphodiesterase I (EC 3.1.4.1) / Nucleotide pyrophosphatase (EC 3.6.1.9), at 1,763,686 to 1,764,960 Xcc-8004.1828.1 Xcc-8004.1829.1: Xcc-8004.1829.1 - Methylated-DNA--protein-cysteine methyltransferase (EC 2.1.1.63), at 1,765,410 to 1,765,952 Xcc-8004.1829.1 Xcc-8004.1830.1: Xcc-8004.1830.1 - ADA regulatory protein / Methylated-DNA--protein-cysteine methyltransferase (EC 2.1.1.63), at 1,765,949 to 1,767,514 Xcc-8004.1830.1 Position (kb) 1763 1764 1765Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1762.921 kb on + strand, within Xcc-8004.1827.1at 1762.921 kb on + strand, within Xcc-8004.1827.1at 1762.922 kb on - strand, within Xcc-8004.1827.1at 1762.979 kb on + strand, within Xcc-8004.1827.1at 1762.979 kb on + strand, within Xcc-8004.1827.1at 1762.979 kb on + strand, within Xcc-8004.1827.1at 1762.979 kb on + strand, within Xcc-8004.1827.1at 1762.979 kb on + strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.980 kb on - strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.985 kb on + strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1762.986 kb on - strand, within Xcc-8004.1827.1at 1763.412 kb on + strand, within Xcc-8004.1827.1at 1763.412 kb on + strand, within Xcc-8004.1827.1at 1763.412 kb on + strand, within Xcc-8004.1827.1at 1763.412 kb on + strand, within Xcc-8004.1827.1at 1763.413 kb on - strand, within Xcc-8004.1827.1at 1763.413 kb on - strand, within Xcc-8004.1827.1at 1763.789 kb on + strandat 1764.005 kb on + strand, within Xcc-8004.1828.1at 1764.006 kb on - strand, within Xcc-8004.1828.1at 1764.047 kb on + strand, within Xcc-8004.1828.1at 1764.047 kb on + strand, within Xcc-8004.1828.1at 1764.047 kb on + strand, within Xcc-8004.1828.1at 1764.048 kb on - strand, within Xcc-8004.1828.1at 1764.048 kb on - strand, within Xcc-8004.1828.1at 1764.314 kb on + strand, within Xcc-8004.1828.1at 1764.368 kb on + strand, within Xcc-8004.1828.1at 1764.368 kb on + strand, within Xcc-8004.1828.1at 1764.368 kb on + strand, within Xcc-8004.1828.1at 1764.369 kb on - strand, within Xcc-8004.1828.1at 1764.461 kb on + strand, within Xcc-8004.1828.1at 1764.462 kb on - strand, within Xcc-8004.1828.1at 1764.462 kb on - strand, within Xcc-8004.1828.1at 1764.462 kb on - strand, within Xcc-8004.1828.1at 1764.698 kb on + strand, within Xcc-8004.1828.1at 1764.698 kb on + strand, within Xcc-8004.1828.1at 1764.698 kb on + strand, within Xcc-8004.1828.1at 1764.698 kb on + strand, within Xcc-8004.1828.1at 1764.698 kb on + strand, within Xcc-8004.1828.1at 1764.699 kb on - strand, within Xcc-8004.1828.1at 1764.699 kb on - strand, within Xcc-8004.1828.1at 1764.699 kb on - strand, within Xcc-8004.1828.1at 1764.726 kb on - strand, within Xcc-8004.1828.1at 1764.844 kb on - strandat 1764.844 kb on - strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.218 kb on + strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.219 kb on - strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.319 kb on + strandat 1765.320 kb on - strandat 1765.320 kb on - strandat 1765.320 kb on - strandat 1765.320 kb on - strandat 1765.320 kb on - strandat 1765.320 kb on - strandat 1765.654 kb on + strand, within Xcc-8004.1829.1at 1765.654 kb on + strand, within Xcc-8004.1829.1at 1765.655 kb on - strand, within Xcc-8004.1829.1at 1765.762 kb on + strand, within Xcc-8004.1829.1at 1765.768 kb on + strand, within Xcc-8004.1829.1at 1765.768 kb on + strand, within Xcc-8004.1829.1at 1765.768 kb on + strand, within Xcc-8004.1829.1at 1765.768 kb on + strand, within Xcc-8004.1829.1at 1765.768 kb on + strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.769 kb on - strand, within Xcc-8004.1829.1at 1765.936 kb on + strandat 1765.936 kb on + strandat 1765.936 kb on + strandat 1765.937 kb on - strandat 1765.937 kb on - strandat 1765.937 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant
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1,762,921 + Xcc-8004.1827.1 0.47 +0.1
1,762,921 + Xcc-8004.1827.1 0.47 -0.6
1,762,922 - Xcc-8004.1827.1 0.47 -0.5
1,762,979 + Xcc-8004.1827.1 0.52 +1.1
1,762,979 + Xcc-8004.1827.1 0.52 -0.3
1,762,979 + Xcc-8004.1827.1 0.52 -0.7
1,762,979 + Xcc-8004.1827.1 0.52 -3.1
1,762,979 + Xcc-8004.1827.1 0.52 +0.7
1,762,980 - Xcc-8004.1827.1 0.52 +0.2
1,762,980 - Xcc-8004.1827.1 0.52 +0.9
1,762,980 - Xcc-8004.1827.1 0.52 -2.3
1,762,980 - Xcc-8004.1827.1 0.52 +0.3
1,762,980 - Xcc-8004.1827.1 0.52 +0.1
1,762,980 - Xcc-8004.1827.1 0.52 -0.5
1,762,985 + Xcc-8004.1827.1 0.52 +1.2
1,762,985 + Xcc-8004.1827.1 0.52 -1.3
1,762,985 + Xcc-8004.1827.1 0.52 +0.9
1,762,985 + Xcc-8004.1827.1 0.52 -2.3
1,762,985 + Xcc-8004.1827.1 0.52 +0.3
1,762,985 + Xcc-8004.1827.1 0.52 +0.8
1,762,985 + Xcc-8004.1827.1 0.52 -2.5
1,762,985 + Xcc-8004.1827.1 0.52 +0.6
1,762,985 + Xcc-8004.1827.1 0.52 -0.6
1,762,985 + Xcc-8004.1827.1 0.52 +0.6
1,762,985 + Xcc-8004.1827.1 0.52 -0.1
1,762,985 + Xcc-8004.1827.1 0.52 +0.5
1,762,985 + Xcc-8004.1827.1 0.52 -0.3
1,762,985 + Xcc-8004.1827.1 0.52 -0.7
1,762,985 + Xcc-8004.1827.1 0.52 +1.5
1,762,985 + Xcc-8004.1827.1 0.52 -0.1
1,762,985 + Xcc-8004.1827.1 0.52 -1.6
1,762,985 + Xcc-8004.1827.1 0.52 -0.7
1,762,986 - Xcc-8004.1827.1 0.52 -0.0
1,762,986 - Xcc-8004.1827.1 0.52 +0.1
1,762,986 - Xcc-8004.1827.1 0.52 -0.3
1,762,986 - Xcc-8004.1827.1 0.52 -0.7
1,762,986 - Xcc-8004.1827.1 0.52 +0.8
1,762,986 - Xcc-8004.1827.1 0.52 -0.8
1,762,986 - Xcc-8004.1827.1 0.52 +0.1
1,762,986 - Xcc-8004.1827.1 0.52 +1.5
1,762,986 - Xcc-8004.1827.1 0.52 -1.6
1,762,986 - Xcc-8004.1827.1 0.52 +0.0
1,762,986 - Xcc-8004.1827.1 0.52 -0.1
1,763,412 + Xcc-8004.1827.1 0.83 +0.9
1,763,412 + Xcc-8004.1827.1 0.83 +0.8
1,763,412 + Xcc-8004.1827.1 0.83 +1.3
1,763,412 + Xcc-8004.1827.1 0.83 -0.3
1,763,413 - Xcc-8004.1827.1 0.83 +0.1
1,763,413 - Xcc-8004.1827.1 0.83 -0.2
1,763,789 + -1.4
1,764,005 + Xcc-8004.1828.1 0.25 +0.2
1,764,006 - Xcc-8004.1828.1 0.25 +0.4
1,764,047 + Xcc-8004.1828.1 0.28 +0.0
1,764,047 + Xcc-8004.1828.1 0.28 -2.1
1,764,047 + Xcc-8004.1828.1 0.28 -3.3
1,764,048 - Xcc-8004.1828.1 0.28 +0.5
1,764,048 - Xcc-8004.1828.1 0.28 -2.4
1,764,314 + Xcc-8004.1828.1 0.49 -1.4
1,764,368 + Xcc-8004.1828.1 0.53 +0.9
1,764,368 + Xcc-8004.1828.1 0.53 -0.4
1,764,368 + Xcc-8004.1828.1 0.53 -0.5
1,764,369 - Xcc-8004.1828.1 0.54 +1.5
1,764,461 + Xcc-8004.1828.1 0.61 +0.8
1,764,462 - Xcc-8004.1828.1 0.61 -0.2
1,764,462 - Xcc-8004.1828.1 0.61 -1.5
1,764,462 - Xcc-8004.1828.1 0.61 +1.1
1,764,698 + Xcc-8004.1828.1 0.79 +0.4
1,764,698 + Xcc-8004.1828.1 0.79 -0.2
1,764,698 + Xcc-8004.1828.1 0.79 +0.2
1,764,698 + Xcc-8004.1828.1 0.79 -0.7
1,764,698 + Xcc-8004.1828.1 0.79 -0.6
1,764,699 - Xcc-8004.1828.1 0.79 +0.4
1,764,699 - Xcc-8004.1828.1 0.79 -0.1
1,764,699 - Xcc-8004.1828.1 0.79 +0.8
1,764,726 - Xcc-8004.1828.1 0.82 -1.4
1,764,844 - -0.8
1,764,844 - -0.5
1,765,218 + +0.7
1,765,218 + +1.0
1,765,218 + -0.6
1,765,218 + +0.4
1,765,218 + +0.2
1,765,218 + -0.7
1,765,218 + +0.1
1,765,219 - -0.1
1,765,219 - +0.1
1,765,219 - +0.0
1,765,219 - +0.2
1,765,219 - -0.3
1,765,219 - -1.1
1,765,219 - -1.4
1,765,219 - +0.7
1,765,319 + -1.1
1,765,319 + -0.5
1,765,319 + -3.5
1,765,319 + -1.4
1,765,319 + +0.7
1,765,319 + +0.0
1,765,319 + -1.4
1,765,320 - -1.4
1,765,320 - -1.5
1,765,320 - +0.4
1,765,320 - -1.8
1,765,320 - -1.3
1,765,320 - +1.0
1,765,654 + Xcc-8004.1829.1 0.45 -0.7
1,765,654 + Xcc-8004.1829.1 0.45 +1.1
1,765,655 - Xcc-8004.1829.1 0.45 +1.4
1,765,762 + Xcc-8004.1829.1 0.65 +1.5
1,765,768 + Xcc-8004.1829.1 0.66 +0.7
1,765,768 + Xcc-8004.1829.1 0.66 +1.5
1,765,768 + Xcc-8004.1829.1 0.66 +1.7
1,765,768 + Xcc-8004.1829.1 0.66 -0.3
1,765,768 + Xcc-8004.1829.1 0.66 +0.9
1,765,769 - Xcc-8004.1829.1 0.66 -0.1
1,765,769 - Xcc-8004.1829.1 0.66 -0.1
1,765,769 - Xcc-8004.1829.1 0.66 -0.3
1,765,769 - Xcc-8004.1829.1 0.66 +1.1
1,765,769 - Xcc-8004.1829.1 0.66 -1.2
1,765,769 - Xcc-8004.1829.1 0.66 +0.2
1,765,769 - Xcc-8004.1829.1 0.66 +0.7
1,765,936 + +0.6
1,765,936 + -1.1
1,765,936 + -0.1
1,765,937 - +1.7
1,765,937 - +2.4
1,765,937 - -1.1

Or see this region's nucleotide sequence