Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.2276.1

Experiment: 1664 hydathodes 6 dpi (Dna extract from 8 * 208 hydathodes and pooled together)

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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-8004.2274.1 and Xcc-8004.2276.1 are separated by 148 nucleotidesXcc-8004.2276.1 and Xcc-8004.2277.1 are separated by 66 nucleotidesXcc-8004.2277.1 and Xcc-8004.2278.1 overlap by 4 nucleotides Xcc-8004.2274.1: Xcc-8004.2274.1 - ATP-dependent 23S rRNA helicase DbpA, at 2,226,058 to 2,227,434 Xcc-8004.2274.1 Xcc-8004.2276.1: Xcc-8004.2276.1 - COG0488: ATPase components of ABC transporters with duplicated ATPase domains, at 2,227,583 to 2,229,442 Xcc-8004.2276.1 Xcc-8004.2277.1: Xcc-8004.2277.1 - FIG01211504: hypothetical protein, at 2,229,509 to 2,229,934 Xcc-8004.2277.1 Xcc-8004.2278.1: Xcc-8004.2278.1 - ribonuclease, at 2,229,931 to 2,230,515 Xcc-8004.2278.1 Position (kb) 2227 2228 2229 2230Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 2226.755 kb on + strand, within Xcc-8004.2274.1at 2226.756 kb on - strand, within Xcc-8004.2274.1at 2227.370 kb on + strandat 2227.370 kb on + strandat 2227.371 kb on - strandat 2227.445 kb on - strandat 2227.523 kb on + strandat 2227.524 kb on - strandat 2227.524 kb on - strandat 2227.524 kb on - strandat 2227.529 kb on + strandat 2227.530 kb on - strandat 2227.530 kb on - strandat 2227.530 kb on - strandat 2227.530 kb on - strandat 2227.542 kb on + strandat 2227.565 kb on + strandat 2227.566 kb on - strandat 2227.566 kb on - strandat 2227.627 kb on + strandat 2227.628 kb on - strandat 2227.628 kb on - strandat 2227.628 kb on - strandat 2227.628 kb on - strandat 2228.146 kb on + strand, within Xcc-8004.2276.1at 2228.241 kb on - strand, within Xcc-8004.2276.1at 2228.241 kb on - strand, within Xcc-8004.2276.1at 2228.241 kb on - strand, within Xcc-8004.2276.1at 2228.241 kb on - strand, within Xcc-8004.2276.1at 2228.656 kb on + strand, within Xcc-8004.2276.1at 2228.656 kb on + strand, within Xcc-8004.2276.1at 2228.672 kb on + strand, within Xcc-8004.2276.1at 2228.675 kb on + strand, within Xcc-8004.2276.1at 2228.676 kb on - strand, within Xcc-8004.2276.1at 2228.676 kb on - strand, within Xcc-8004.2276.1at 2228.676 kb on - strand, within Xcc-8004.2276.1at 2228.688 kb on - strand, within Xcc-8004.2276.1at 2228.786 kb on + strand, within Xcc-8004.2276.1at 2228.786 kb on + strand, within Xcc-8004.2276.1at 2228.786 kb on + strand, within Xcc-8004.2276.1at 2228.786 kb on + strand, within Xcc-8004.2276.1at 2228.786 kb on + strand, within Xcc-8004.2276.1at 2228.787 kb on - strand, within Xcc-8004.2276.1at 2228.975 kb on + strand, within Xcc-8004.2276.1at 2228.975 kb on + strand, within Xcc-8004.2276.1at 2228.975 kb on + strand, within Xcc-8004.2276.1at 2228.991 kb on + strand, within Xcc-8004.2276.1at 2228.992 kb on - strand, within Xcc-8004.2276.1at 2228.992 kb on - strand, within Xcc-8004.2276.1at 2228.992 kb on - strand, within Xcc-8004.2276.1at 2228.992 kb on - strand, within Xcc-8004.2276.1at 2229.042 kb on + strand, within Xcc-8004.2276.1at 2229.042 kb on + strand, within Xcc-8004.2276.1at 2229.075 kb on - strand, within Xcc-8004.2276.1at 2229.075 kb on - strand, within Xcc-8004.2276.1at 2229.075 kb on - strand, within Xcc-8004.2276.1at 2229.086 kb on + strand, within Xcc-8004.2276.1at 2229.087 kb on - strand, within Xcc-8004.2276.1at 2229.087 kb on - strand, within Xcc-8004.2276.1at 2229.239 kb on + strand, within Xcc-8004.2276.1at 2229.239 kb on + strand, within Xcc-8004.2276.1at 2229.240 kb on - strand, within Xcc-8004.2276.1at 2229.240 kb on - strand, within Xcc-8004.2276.1at 2229.338 kb on + strandat 2229.338 kb on + strandat 2229.339 kb on - strandat 2229.339 kb on - strandat 2229.413 kb on + strandat 2229.413 kb on + strandat 2229.413 kb on + strandat 2229.413 kb on + strandat 2229.414 kb on - strandat 2229.491 kb on + strandat 2229.492 kb on - strandat 2229.492 kb on - strandat 2229.724 kb on + strand, within Xcc-8004.2277.1at 2229.725 kb on - strand, within Xcc-8004.2277.1at 2229.877 kb on + strand, within Xcc-8004.2277.1at 2229.877 kb on + strand, within Xcc-8004.2277.1at 2229.877 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.879 kb on + strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.880 kb on - strand, within Xcc-8004.2277.1at 2229.905 kb on + strandat 2229.905 kb on + strandat 2229.905 kb on + strandat 2229.906 kb on - strandat 2229.906 kb on - strandat 2229.906 kb on - strandat 2229.995 kb on + strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.996 kb on - strand, within Xcc-8004.2278.1at 2229.998 kb on + strand, within Xcc-8004.2278.1at 2230.076 kb on + strand, within Xcc-8004.2278.1at 2230.076 kb on + strand, within Xcc-8004.2278.1at 2230.076 kb on + strand, within Xcc-8004.2278.1at 2230.076 kb on + strand, within Xcc-8004.2278.1at 2230.077 kb on - strand, within Xcc-8004.2278.1at 2230.086 kb on - strand, within Xcc-8004.2278.1at 2230.086 kb on - strand, within Xcc-8004.2278.1at 2230.088 kb on + strand, within Xcc-8004.2278.1at 2230.089 kb on - strand, within Xcc-8004.2278.1at 2230.174 kb on + strand, within Xcc-8004.2278.1at 2230.174 kb on + strand, within Xcc-8004.2278.1at 2230.175 kb on - strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1at 2230.434 kb on + strand, within Xcc-8004.2278.1

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Per-strain Table

Position Strand Gene LocusTag Fraction 1664 hydathodes 6 dpi (Dna extract from 8 * 208 hydathodes and pooled together)
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2,226,755 + Xcc-8004.2274.1 0.51 -0.5
2,226,756 - Xcc-8004.2274.1 0.51 -0.3
2,227,370 + +0.5
2,227,370 + -1.3
2,227,371 - -1.1
2,227,445 - +2.0
2,227,523 + -1.4
2,227,524 - -0.9
2,227,524 - +0.7
2,227,524 - +0.8
2,227,529 + +0.3
2,227,530 - +0.4
2,227,530 - +2.4
2,227,530 - -2.2
2,227,530 - -2.0
2,227,542 + -0.3
2,227,565 + +0.6
2,227,566 - +0.5
2,227,566 - -2.6
2,227,627 + -1.2
2,227,628 - -1.5
2,227,628 - +0.6
2,227,628 - -1.6
2,227,628 - -0.5
2,228,146 + Xcc-8004.2276.1 0.30 -1.0
2,228,241 - Xcc-8004.2276.1 0.35 +1.2
2,228,241 - Xcc-8004.2276.1 0.35 +1.0
2,228,241 - Xcc-8004.2276.1 0.35 -0.7
2,228,241 - Xcc-8004.2276.1 0.35 +1.0
2,228,656 + Xcc-8004.2276.1 0.58 -0.1
2,228,656 + Xcc-8004.2276.1 0.58 -1.2
2,228,672 + Xcc-8004.2276.1 0.59 +1.4
2,228,675 + Xcc-8004.2276.1 0.59 +1.2
2,228,676 - Xcc-8004.2276.1 0.59 +1.0
2,228,676 - Xcc-8004.2276.1 0.59 -2.0
2,228,676 - Xcc-8004.2276.1 0.59 -1.8
2,228,688 - Xcc-8004.2276.1 0.59 -0.9
2,228,786 + Xcc-8004.2276.1 0.65 -0.5
2,228,786 + Xcc-8004.2276.1 0.65 -0.4
2,228,786 + Xcc-8004.2276.1 0.65 -0.2
2,228,786 + Xcc-8004.2276.1 0.65 +1.6
2,228,786 + Xcc-8004.2276.1 0.65 +1.5
2,228,787 - Xcc-8004.2276.1 0.65 +0.5
2,228,975 + Xcc-8004.2276.1 0.75 +0.4
2,228,975 + Xcc-8004.2276.1 0.75 -0.9
2,228,975 + Xcc-8004.2276.1 0.75 +1.2
2,228,991 + Xcc-8004.2276.1 0.76 -2.7
2,228,992 - Xcc-8004.2276.1 0.76 -0.5
2,228,992 - Xcc-8004.2276.1 0.76 -0.2
2,228,992 - Xcc-8004.2276.1 0.76 -2.2
2,228,992 - Xcc-8004.2276.1 0.76 +0.8
2,229,042 + Xcc-8004.2276.1 0.78 +1.1
2,229,042 + Xcc-8004.2276.1 0.78 -0.1
2,229,075 - Xcc-8004.2276.1 0.80 +1.3
2,229,075 - Xcc-8004.2276.1 0.80 +1.0
2,229,075 - Xcc-8004.2276.1 0.80 +0.3
2,229,086 + Xcc-8004.2276.1 0.81 -0.6
2,229,087 - Xcc-8004.2276.1 0.81 -0.7
2,229,087 - Xcc-8004.2276.1 0.81 -1.2
2,229,239 + Xcc-8004.2276.1 0.89 +0.8
2,229,239 + Xcc-8004.2276.1 0.89 +0.5
2,229,240 - Xcc-8004.2276.1 0.89 +1.7
2,229,240 - Xcc-8004.2276.1 0.89 -0.1
2,229,338 + +0.9
2,229,338 + +1.3
2,229,339 - +0.2
2,229,339 - +0.8
2,229,413 + +1.0
2,229,413 + +0.1
2,229,413 + +0.2
2,229,413 + -0.2
2,229,414 - +0.6
2,229,491 + -0.2
2,229,492 - -0.4
2,229,492 - +0.7
2,229,724 + Xcc-8004.2277.1 0.50 -1.8
2,229,725 - Xcc-8004.2277.1 0.51 -1.1
2,229,877 + Xcc-8004.2277.1 0.86 -2.7
2,229,877 + Xcc-8004.2277.1 0.86 +0.5
2,229,877 + Xcc-8004.2277.1 0.86 +0.7
2,229,879 + Xcc-8004.2277.1 0.87 -1.6
2,229,879 + Xcc-8004.2277.1 0.87 +0.6
2,229,879 + Xcc-8004.2277.1 0.87 -0.6
2,229,879 + Xcc-8004.2277.1 0.87 +3.0
2,229,879 + Xcc-8004.2277.1 0.87 -0.4
2,229,879 + Xcc-8004.2277.1 0.87 -4.2
2,229,879 + Xcc-8004.2277.1 0.87 -0.5
2,229,879 + Xcc-8004.2277.1 0.87 -0.8
2,229,880 - Xcc-8004.2277.1 0.87 -1.0
2,229,880 - Xcc-8004.2277.1 0.87 -0.1
2,229,880 - Xcc-8004.2277.1 0.87 -0.8
2,229,880 - Xcc-8004.2277.1 0.87 -1.4
2,229,880 - Xcc-8004.2277.1 0.87 +0.3
2,229,880 - Xcc-8004.2277.1 0.87 +0.6
2,229,905 + +0.9
2,229,905 + -1.3
2,229,905 + +0.6
2,229,906 - +0.3
2,229,906 - +0.6
2,229,906 - +1.2
2,229,995 + Xcc-8004.2278.1 0.11 +1.7
2,229,996 - Xcc-8004.2278.1 0.11 -1.0
2,229,996 - Xcc-8004.2278.1 0.11 -1.3
2,229,996 - Xcc-8004.2278.1 0.11 -3.6
2,229,996 - Xcc-8004.2278.1 0.11 -1.6
2,229,996 - Xcc-8004.2278.1 0.11 -2.3
2,229,996 - Xcc-8004.2278.1 0.11 -0.3
2,229,998 + Xcc-8004.2278.1 0.11 +0.5
2,230,076 + Xcc-8004.2278.1 0.25 -0.3
2,230,076 + Xcc-8004.2278.1 0.25 +0.8
2,230,076 + Xcc-8004.2278.1 0.25 +0.7
2,230,076 + Xcc-8004.2278.1 0.25 +0.2
2,230,077 - Xcc-8004.2278.1 0.25 +0.3
2,230,086 - Xcc-8004.2278.1 0.26 -3.5
2,230,086 - Xcc-8004.2278.1 0.26 +0.6
2,230,088 + Xcc-8004.2278.1 0.27 +1.3
2,230,089 - Xcc-8004.2278.1 0.27 +1.5
2,230,174 + Xcc-8004.2278.1 0.42 -1.2
2,230,174 + Xcc-8004.2278.1 0.42 +0.8
2,230,175 - Xcc-8004.2278.1 0.42 -0.2
2,230,434 + Xcc-8004.2278.1 0.86 +0.4
2,230,434 + Xcc-8004.2278.1 0.86 +0.2
2,230,434 + Xcc-8004.2278.1 0.86 +1.2
2,230,434 + Xcc-8004.2278.1 0.86 +1.6
2,230,434 + Xcc-8004.2278.1 0.86 -1.0
2,230,434 + Xcc-8004.2278.1 0.86 -0.1
2,230,434 + Xcc-8004.2278.1 0.86 +0.4
2,230,434 + Xcc-8004.2278.1 0.86 +1.8
2,230,434 + Xcc-8004.2278.1 0.86 +0.2
2,230,434 + Xcc-8004.2278.1 0.86 +0.5

Or see this region's nucleotide sequence