Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.966.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI

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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-8004.965.1 and Xcc-8004.966.1 are separated by 40 nucleotidesXcc-8004.966.1 and Xcc-8004.967.1 are separated by 124 nucleotidesXcc-8004.967.1 and Xcc-8004.968.1 are separated by 19 nucleotides Xcc-8004.965.1: Xcc-8004.965.1 - Betaine aldehyde dehydrogenase (EC 1.2.1.8), at 915,785 to 917,257 Xcc-8004.965.1 Xcc-8004.966.1: Xcc-8004.966.1 - High-affinity choline uptake protein BetT, at 917,298 to 919,277 Xcc-8004.966.1 Xcc-8004.967.1: Xcc-8004.967.1 - Endonuclease/exonuclease/phosphatase family protein, at 919,402 to 920,169 Xcc-8004.967.1 Xcc-8004.968.1: Xcc-8004.968.1 - Periplasmic thiol:disulfide interchange protein DsbA, at 920,189 to 921,010 Xcc-8004.968.1 Position (kb) 917 918 919 920Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 916.420 kb on - strand, within Xcc-8004.965.1at 916.797 kb on + strand, within Xcc-8004.965.1at 916.848 kb on + strand, within Xcc-8004.965.1at 916.911 kb on + strand, within Xcc-8004.965.1at 916.912 kb on - strand, within Xcc-8004.965.1at 916.912 kb on - strand, within Xcc-8004.965.1at 916.915 kb on - strand, within Xcc-8004.965.1at 917.214 kb on + strandat 917.214 kb on + strandat 917.214 kb on + strandat 917.229 kb on + strandat 917.230 kb on - strandat 917.336 kb on - strandat 917.390 kb on - strandat 917.413 kb on + strandat 917.413 kb on + strandat 917.414 kb on - strandat 917.414 kb on - strandat 917.429 kb on - strandat 917.429 kb on - strandat 917.641 kb on + strand, within Xcc-8004.966.1at 917.641 kb on + strand, within Xcc-8004.966.1at 918.083 kb on - strand, within Xcc-8004.966.1at 918.083 kb on - strand, within Xcc-8004.966.1at 918.255 kb on - strand, within Xcc-8004.966.1at 918.307 kb on + strand, within Xcc-8004.966.1at 918.308 kb on - strand, within Xcc-8004.966.1at 918.308 kb on - strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.355 kb on + strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.356 kb on - strand, within Xcc-8004.966.1at 918.392 kb on - strand, within Xcc-8004.966.1at 918.427 kb on + strand, within Xcc-8004.966.1at 918.427 kb on + strand, within Xcc-8004.966.1at 918.739 kb on + strand, within Xcc-8004.966.1at 918.787 kb on + strand, within Xcc-8004.966.1at 918.917 kb on - strand, within Xcc-8004.966.1at 919.000 kb on + strand, within Xcc-8004.966.1at 919.000 kb on + strand, within Xcc-8004.966.1at 919.001 kb on - strand, within Xcc-8004.966.1at 919.001 kb on - strand, within Xcc-8004.966.1at 919.001 kb on - strand, within Xcc-8004.966.1at 919.078 kb on - strand, within Xcc-8004.966.1at 919.084 kb on + strandat 919.085 kb on - strandat 919.085 kb on - strandat 919.105 kb on + strandat 919.106 kb on - strandat 919.106 kb on - strandat 919.106 kb on - strandat 919.106 kb on - strandat 919.106 kb on - strandat 919.108 kb on + strandat 919.108 kb on + strandat 919.108 kb on + strandat 919.109 kb on - strandat 919.109 kb on - strandat 919.109 kb on - strandat 919.109 kb on - strandat 919.109 kb on - strandat 919.109 kb on - strandat 919.199 kb on + strandat 919.199 kb on + strandat 919.200 kb on - strandat 919.200 kb on - strandat 919.200 kb on - strandat 919.200 kb on - strandat 919.200 kb on - strandat 919.245 kb on + strandat 919.324 kb on + strandat 919.324 kb on + strandat 919.325 kb on - strandat 919.342 kb on + strandat 919.343 kb on - strandat 919.343 kb on - strandat 919.393 kb on - strandat 919.404 kb on - strandat 919.404 kb on - strandat 919.558 kb on + strand, within Xcc-8004.967.1at 919.558 kb on + strand, within Xcc-8004.967.1at 919.559 kb on - strand, within Xcc-8004.967.1at 919.559 kb on - strand, within Xcc-8004.967.1at 919.595 kb on + strand, within Xcc-8004.967.1at 919.595 kb on + strand, within Xcc-8004.967.1at 919.672 kb on + strand, within Xcc-8004.967.1at 919.907 kb on + strand, within Xcc-8004.967.1at 919.907 kb on + strand, within Xcc-8004.967.1at 919.908 kb on - strand, within Xcc-8004.967.1at 919.908 kb on - strand, within Xcc-8004.967.1at 919.908 kb on - strand, within Xcc-8004.967.1at 919.934 kb on + strand, within Xcc-8004.967.1at 919.934 kb on + strand, within Xcc-8004.967.1at 920.087 kb on + strand, within Xcc-8004.967.1at 920.087 kb on + strand, within Xcc-8004.967.1at 920.087 kb on + strand, within Xcc-8004.967.1at 920.087 kb on + strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.088 kb on - strand, within Xcc-8004.967.1at 920.097 kb on - strandat 920.175 kb on - strandat 920.175 kb on - strandat 920.175 kb on - strandat 920.175 kb on - strandat 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.274 kb on + strand, within Xcc-8004.968.1at 920.275 kb on - strand, within Xcc-8004.968.1at 920.275 kb on - strand, within Xcc-8004.968.1at 920.275 kb on - strand, within Xcc-8004.968.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI
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916,420 - Xcc-8004.965.1 0.43 -0.8
916,797 + Xcc-8004.965.1 0.69 +0.2
916,848 + Xcc-8004.965.1 0.72 -2.0
916,911 + Xcc-8004.965.1 0.76 +0.4
916,912 - Xcc-8004.965.1 0.77 -0.7
916,912 - Xcc-8004.965.1 0.77 +0.1
916,915 - Xcc-8004.965.1 0.77 +3.6
917,214 + -0.8
917,214 + +0.7
917,214 + -0.4
917,229 + +0.7
917,230 - -2.1
917,336 - -0.1
917,390 - +0.9
917,413 + -1.0
917,413 + +0.6
917,414 - -0.8
917,414 - -2.0
917,429 - -1.7
917,429 - -2.8
917,641 + Xcc-8004.966.1 0.17 +0.5
917,641 + Xcc-8004.966.1 0.17 +0.8
918,083 - Xcc-8004.966.1 0.40 +0.2
918,083 - Xcc-8004.966.1 0.40 +0.6
918,255 - Xcc-8004.966.1 0.48 +2.6
918,307 + Xcc-8004.966.1 0.51 -0.0
918,308 - Xcc-8004.966.1 0.51 +0.0
918,308 - Xcc-8004.966.1 0.51 -0.7
918,355 + Xcc-8004.966.1 0.53 -1.1
918,355 + Xcc-8004.966.1 0.53 +0.5
918,355 + Xcc-8004.966.1 0.53 +0.5
918,355 + Xcc-8004.966.1 0.53 -0.4
918,355 + Xcc-8004.966.1 0.53 +0.7
918,355 + Xcc-8004.966.1 0.53 +1.6
918,355 + Xcc-8004.966.1 0.53 +1.6
918,355 + Xcc-8004.966.1 0.53 -0.6
918,356 - Xcc-8004.966.1 0.53 -0.4
918,356 - Xcc-8004.966.1 0.53 -0.7
918,356 - Xcc-8004.966.1 0.53 +0.3
918,356 - Xcc-8004.966.1 0.53 +0.6
918,356 - Xcc-8004.966.1 0.53 -1.9
918,356 - Xcc-8004.966.1 0.53 -0.2
918,356 - Xcc-8004.966.1 0.53 +0.8
918,356 - Xcc-8004.966.1 0.53 +0.4
918,356 - Xcc-8004.966.1 0.53 -0.0
918,356 - Xcc-8004.966.1 0.53 +1.6
918,392 - Xcc-8004.966.1 0.55 +0.2
918,427 + Xcc-8004.966.1 0.57 +2.6
918,427 + Xcc-8004.966.1 0.57 +1.0
918,739 + Xcc-8004.966.1 0.73 +0.8
918,787 + Xcc-8004.966.1 0.75 +0.6
918,917 - Xcc-8004.966.1 0.82 +0.7
919,000 + Xcc-8004.966.1 0.86 +0.1
919,000 + Xcc-8004.966.1 0.86 -0.0
919,001 - Xcc-8004.966.1 0.86 +0.4
919,001 - Xcc-8004.966.1 0.86 -0.3
919,001 - Xcc-8004.966.1 0.86 -0.9
919,078 - Xcc-8004.966.1 0.90 -1.4
919,084 + +0.0
919,085 - -1.2
919,085 - +0.1
919,105 + -0.3
919,106 - +0.6
919,106 - -0.2
919,106 - -0.3
919,106 - +1.2
919,106 - +1.1
919,108 + +0.7
919,108 + -0.2
919,108 + -0.0
919,109 - +0.0
919,109 - +1.2
919,109 - +0.4
919,109 - -1.9
919,109 - +0.4
919,109 - -1.6
919,199 + +0.3
919,199 + +0.2
919,200 - +0.4
919,200 - +0.2
919,200 - -3.1
919,200 - +1.1
919,200 - -0.4
919,245 + -0.9
919,324 + -0.3
919,324 + +0.9
919,325 - -1.6
919,342 + -0.2
919,343 - +0.0
919,343 - +2.4
919,393 - -0.6
919,404 - +0.3
919,404 - +0.6
919,558 + Xcc-8004.967.1 0.20 +0.6
919,558 + Xcc-8004.967.1 0.20 -3.0
919,559 - Xcc-8004.967.1 0.20 -0.7
919,559 - Xcc-8004.967.1 0.20 -0.1
919,595 + Xcc-8004.967.1 0.25 +2.2
919,595 + Xcc-8004.967.1 0.25 -0.9
919,672 + Xcc-8004.967.1 0.35 +0.4
919,907 + Xcc-8004.967.1 0.66 -0.0
919,907 + Xcc-8004.967.1 0.66 +1.3
919,908 - Xcc-8004.967.1 0.66 +1.3
919,908 - Xcc-8004.967.1 0.66 +0.6
919,908 - Xcc-8004.967.1 0.66 +0.4
919,934 + Xcc-8004.967.1 0.69 -0.1
919,934 + Xcc-8004.967.1 0.69 +0.6
920,087 + Xcc-8004.967.1 0.89 +1.4
920,087 + Xcc-8004.967.1 0.89 -0.2
920,087 + Xcc-8004.967.1 0.89 +0.7
920,087 + Xcc-8004.967.1 0.89 -0.9
920,088 - Xcc-8004.967.1 0.89 +0.7
920,088 - Xcc-8004.967.1 0.89 -1.0
920,088 - Xcc-8004.967.1 0.89 -0.7
920,088 - Xcc-8004.967.1 0.89 +0.3
920,088 - Xcc-8004.967.1 0.89 -0.0
920,088 - Xcc-8004.967.1 0.89 -0.6
920,088 - Xcc-8004.967.1 0.89 +0.6
920,097 - -0.6
920,175 - +1.8
920,175 - +0.7
920,175 - -0.9
920,175 - -0.1
920,274 + Xcc-8004.968.1 0.10 -0.8
920,274 + Xcc-8004.968.1 0.10 -0.5
920,274 + Xcc-8004.968.1 0.10 -2.4
920,274 + Xcc-8004.968.1 0.10 -2.8
920,274 + Xcc-8004.968.1 0.10 +0.8
920,274 + Xcc-8004.968.1 0.10 +1.6
920,274 + Xcc-8004.968.1 0.10 +1.6
920,274 + Xcc-8004.968.1 0.10 +0.4
920,275 - Xcc-8004.968.1 0.10 -1.1
920,275 - Xcc-8004.968.1 0.10 +0.2
920,275 - Xcc-8004.968.1 0.10 -1.6

Or see this region's nucleotide sequence