Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1842.1

Experiment: Xylemvessel barcodes Location 2 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-8004.1841.1 and Xcc-8004.1842.1 are separated by 175 nucleotidesXcc-8004.1842.1 and Xcc-8004.1843.1 overlap by 55 nucleotidesXcc-8004.1843.1 and Xcc-8004.1844.1 are separated by 69 nucleotidesXcc-8004.1844.1 and Xcc-8004.1845.1 overlap by 115 nucleotides Xcc-8004.1841.1: Xcc-8004.1841.1 - DEAD-box ATP-dependent RNA helicase CshA (EC 3.6.4.13), at 1,773,724 to 1,775,652 Xcc-8004.1841.1 Xcc-8004.1842.1: Xcc-8004.1842.1 - Mlr3171 protein, at 1,775,828 to 1,778,194 Xcc-8004.1842.1 Xcc-8004.1843.1: Xcc-8004.1843.1 - Ribosomal small subunit pseudouridine synthase A (EC 4.2.1.70), at 1,778,140 to 1,778,973 Xcc-8004.1843.1 Xcc-8004.1844.1: Xcc-8004.1844.1 - Mobile element protein, at 1,779,043 to 1,779,180 Xcc-8004.1844.1 Xcc-8004.1845.1: Xcc-8004.1845.1 - Mobile element protein, at 1,779,066 to 1,781,783 Xcc-8004.1845.1 Position (kb) 1775 1776 1777 1778 1779Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1774.939 kb on + strand, within Xcc-8004.1841.1at 1775.206 kb on + strand, within Xcc-8004.1841.1at 1775.207 kb on - strand, within Xcc-8004.1841.1at 1775.287 kb on + strand, within Xcc-8004.1841.1at 1775.374 kb on + strand, within Xcc-8004.1841.1at 1775.374 kb on + strand, within Xcc-8004.1841.1at 1775.375 kb on + strand, within Xcc-8004.1841.1at 1775.375 kb on - strand, within Xcc-8004.1841.1at 1775.375 kb on - strand, within Xcc-8004.1841.1at 1775.405 kb on - strand, within Xcc-8004.1841.1at 1775.650 kb on + strandat 1775.651 kb on - strandat 1775.990 kb on + strandat 1775.990 kb on + strandat 1775.991 kb on - strandat 1776.005 kb on + strandat 1776.005 kb on + strandat 1776.006 kb on - strandat 1776.125 kb on + strand, within Xcc-8004.1842.1at 1776.125 kb on + strand, within Xcc-8004.1842.1at 1776.125 kb on + strand, within Xcc-8004.1842.1at 1776.125 kb on + strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.126 kb on - strand, within Xcc-8004.1842.1at 1776.747 kb on + strand, within Xcc-8004.1842.1at 1776.747 kb on + strand, within Xcc-8004.1842.1at 1776.748 kb on - strand, within Xcc-8004.1842.1at 1776.890 kb on + strand, within Xcc-8004.1842.1at 1776.890 kb on + strand, within Xcc-8004.1842.1at 1776.890 kb on + strand, within Xcc-8004.1842.1at 1776.890 kb on + strand, within Xcc-8004.1842.1at 1776.890 kb on + strand, within Xcc-8004.1842.1at 1776.891 kb on - strand, within Xcc-8004.1842.1at 1777.475 kb on + strand, within Xcc-8004.1842.1at 1777.476 kb on - strand, within Xcc-8004.1842.1at 1777.521 kb on - strand, within Xcc-8004.1842.1at 1777.521 kb on - strand, within Xcc-8004.1842.1at 1777.521 kb on - strand, within Xcc-8004.1842.1at 1777.521 kb on - strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.698 kb on + strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.699 kb on - strand, within Xcc-8004.1842.1at 1777.920 kb on - strand, within Xcc-8004.1842.1at 1777.934 kb on - strand, within Xcc-8004.1842.1at 1777.977 kb on - strandat 1777.977 kb on - strandat 1778.025 kb on + strandat 1778.025 kb on + strandat 1778.026 kb on - strandat 1778.026 kb on - strandat 1778.026 kb on - strandat 1778.026 kb on - strandat 1778.125 kb on + strandat 1778.126 kb on - strandat 1778.126 kb on - strandat 1778.126 kb on - strandat 1778.275 kb on - strand, within Xcc-8004.1843.1at 1778.443 kb on - strand, within Xcc-8004.1843.1at 1778.443 kb on - strand, within Xcc-8004.1843.1at 1778.458 kb on + strand, within Xcc-8004.1843.1at 1778.458 kb on + strand, within Xcc-8004.1843.1at 1778.458 kb on + strand, within Xcc-8004.1843.1at 1778.459 kb on - strand, within Xcc-8004.1843.1at 1778.459 kb on - strand, within Xcc-8004.1843.1at 1778.459 kb on - strand, within Xcc-8004.1843.1at 1778.459 kb on - strand, within Xcc-8004.1843.1at 1778.459 kb on - strand, within Xcc-8004.1843.1at 1778.662 kb on + strand, within Xcc-8004.1843.1at 1778.662 kb on + strand, within Xcc-8004.1843.1at 1778.663 kb on - strand, within Xcc-8004.1843.1at 1778.663 kb on - strand, within Xcc-8004.1843.1at 1778.758 kb on - strand, within Xcc-8004.1843.1at 1778.961 kb on + strandat 1778.961 kb on + strandat 1778.962 kb on - strandat 1778.962 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylemvessel barcodes Location 2 6 dpi (25 plantes)
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1,774,939 + Xcc-8004.1841.1 0.63 -0.0
1,775,206 + Xcc-8004.1841.1 0.77 -1.8
1,775,207 - Xcc-8004.1841.1 0.77 -0.3
1,775,287 + Xcc-8004.1841.1 0.81 -1.0
1,775,374 + Xcc-8004.1841.1 0.86 -3.1
1,775,374 + Xcc-8004.1841.1 0.86 -1.4
1,775,375 + Xcc-8004.1841.1 0.86 +0.8
1,775,375 - Xcc-8004.1841.1 0.86 -0.8
1,775,375 - Xcc-8004.1841.1 0.86 +0.6
1,775,405 - Xcc-8004.1841.1 0.87 -1.9
1,775,650 + +0.1
1,775,651 - +0.5
1,775,990 + -0.9
1,775,990 + -0.2
1,775,991 - +2.1
1,776,005 + +1.1
1,776,005 + -0.2
1,776,006 - -1.7
1,776,125 + Xcc-8004.1842.1 0.13 -1.3
1,776,125 + Xcc-8004.1842.1 0.13 +0.5
1,776,125 + Xcc-8004.1842.1 0.13 +2.6
1,776,125 + Xcc-8004.1842.1 0.13 +0.6
1,776,126 - Xcc-8004.1842.1 0.13 -0.2
1,776,126 - Xcc-8004.1842.1 0.13 -0.0
1,776,126 - Xcc-8004.1842.1 0.13 +0.6
1,776,126 - Xcc-8004.1842.1 0.13 -0.5
1,776,126 - Xcc-8004.1842.1 0.13 +2.2
1,776,126 - Xcc-8004.1842.1 0.13 +1.6
1,776,126 - Xcc-8004.1842.1 0.13 -0.1
1,776,747 + Xcc-8004.1842.1 0.39 -2.2
1,776,747 + Xcc-8004.1842.1 0.39 -0.5
1,776,748 - Xcc-8004.1842.1 0.39 -1.6
1,776,890 + Xcc-8004.1842.1 0.45 +0.8
1,776,890 + Xcc-8004.1842.1 0.45 +0.8
1,776,890 + Xcc-8004.1842.1 0.45 -1.5
1,776,890 + Xcc-8004.1842.1 0.45 +0.1
1,776,890 + Xcc-8004.1842.1 0.45 -0.8
1,776,891 - Xcc-8004.1842.1 0.45 +1.2
1,777,475 + Xcc-8004.1842.1 0.70 +0.8
1,777,476 - Xcc-8004.1842.1 0.70 +0.1
1,777,521 - Xcc-8004.1842.1 0.72 +2.6
1,777,521 - Xcc-8004.1842.1 0.72 -0.4
1,777,521 - Xcc-8004.1842.1 0.72 -1.9
1,777,521 - Xcc-8004.1842.1 0.72 -0.9
1,777,698 + Xcc-8004.1842.1 0.79 -2.1
1,777,698 + Xcc-8004.1842.1 0.79 -0.2
1,777,698 + Xcc-8004.1842.1 0.79 +0.1
1,777,698 + Xcc-8004.1842.1 0.79 +1.6
1,777,698 + Xcc-8004.1842.1 0.79 -0.0
1,777,698 + Xcc-8004.1842.1 0.79 -0.0
1,777,698 + Xcc-8004.1842.1 0.79 +0.2
1,777,698 + Xcc-8004.1842.1 0.79 +0.9
1,777,698 + Xcc-8004.1842.1 0.79 +0.9
1,777,698 + Xcc-8004.1842.1 0.79 -1.6
1,777,698 + Xcc-8004.1842.1 0.79 +0.6
1,777,698 + Xcc-8004.1842.1 0.79 +1.3
1,777,698 + Xcc-8004.1842.1 0.79 -0.0
1,777,699 - Xcc-8004.1842.1 0.79 +1.1
1,777,699 - Xcc-8004.1842.1 0.79 -1.1
1,777,699 - Xcc-8004.1842.1 0.79 +0.3
1,777,699 - Xcc-8004.1842.1 0.79 +1.0
1,777,699 - Xcc-8004.1842.1 0.79 +1.5
1,777,699 - Xcc-8004.1842.1 0.79 -0.9
1,777,699 - Xcc-8004.1842.1 0.79 -1.1
1,777,699 - Xcc-8004.1842.1 0.79 -0.0
1,777,699 - Xcc-8004.1842.1 0.79 -1.0
1,777,920 - Xcc-8004.1842.1 0.88 +1.4
1,777,934 - Xcc-8004.1842.1 0.89 -0.4
1,777,977 - +0.4
1,777,977 - -1.0
1,778,025 + -1.2
1,778,025 + +1.6
1,778,026 - -1.5
1,778,026 - +1.2
1,778,026 - -0.7
1,778,026 - -2.1
1,778,125 + +0.2
1,778,126 - +2.1
1,778,126 - -1.3
1,778,126 - -0.4
1,778,275 - Xcc-8004.1843.1 0.16 -1.0
1,778,443 - Xcc-8004.1843.1 0.36 -0.2
1,778,443 - Xcc-8004.1843.1 0.36 -0.5
1,778,458 + Xcc-8004.1843.1 0.38 -0.4
1,778,458 + Xcc-8004.1843.1 0.38 -0.9
1,778,458 + Xcc-8004.1843.1 0.38 +1.6
1,778,459 - Xcc-8004.1843.1 0.38 +0.6
1,778,459 - Xcc-8004.1843.1 0.38 +0.2
1,778,459 - Xcc-8004.1843.1 0.38 -2.1
1,778,459 - Xcc-8004.1843.1 0.38 +2.0
1,778,459 - Xcc-8004.1843.1 0.38 -0.0
1,778,662 + Xcc-8004.1843.1 0.63 +1.0
1,778,662 + Xcc-8004.1843.1 0.63 -1.4
1,778,663 - Xcc-8004.1843.1 0.63 -0.5
1,778,663 - Xcc-8004.1843.1 0.63 +0.6
1,778,758 - Xcc-8004.1843.1 0.74 +3.1
1,778,961 + +0.2
1,778,961 + -1.1
1,778,962 - -0.4
1,778,962 - -0.6

Or see this region's nucleotide sequence